Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 192 of 222
Found at i:61354655 original size:115 final size:115
Alignment explanation
Indices: 61354453--61354676 Score: 439
Period size: 115 Copynumber: 1.9 Consensus size: 115
61354443 CCGTCGCTGG
61354453 CCATTTTATTCTGAGAAATTTCTTGCTGGTTGACAATACGCAGAAGAGAATTATGTTCCGAAGTA
1 CCATTTTATTCTGAGAAATTTCTTGCTGGTTGACAATACGCAGAAGAGAATTATGTTCCGAAGTA
61354518 GGGGAGAAATTGTTAGGATTTTGGGGTAGGGGAGAAATAATTTGTAGCGA
66 GGGGAGAAATTGTTAGGATTTTGGGGTAGGGGAGAAATAATTTGTAGCGA
*
61354568 CCATTTTATTCTGAGAAATTTCTTGCTGGTTGATAATACGCAGAAGAGAATTATGTTCCGAAGTA
1 CCATTTTATTCTGAGAAATTTCTTGCTGGTTGACAATACGCAGAAGAGAATTATGTTCCGAAGTA
61354633 GGGGAGAAATTGTTAGGATTTTGGGGTAGGGGAGAAATAATTTG
66 GGGGAGAAATTGTTAGGATTTTGGGGTAGGGGAGAAATAATTTG
61354677 GGGAAAATAA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.32
Consensus pattern (115 bp):
CCATTTTATTCTGAGAAATTTCTTGCTGGTTGACAATACGCAGAAGAGAATTATGTTCCGAAGTA
GGGGAGAAATTGTTAGGATTTTGGGGTAGGGGAGAAATAATTTGTAGCGA
Found at i:61354737 original size:14 final size:14
Alignment explanation
Indices: 61354705--61354743 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
61354695 AAAAATAGGG
* *
61354705 TTGGGGGTAACTGAT
1 TTGGGGG-AAATGAA
61354720 TTGGGGGAAATGAA
1 TTGGGGGAAATGAA
61354734 TTGGGGGAAA
1 TTGGGGGAAA
61354744 CAGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.28, C:0.03, G:0.44, T:0.26
Consensus pattern (14 bp):
TTGGGGGAAATGAA
Found at i:61359282 original size:41 final size:41
Alignment explanation
Indices: 61359231--61359430 Score: 222
Period size: 41 Copynumber: 4.9 Consensus size: 41
61359221 TTTAAACAGA
* * * *
61359231 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGTCTGATTCAG
* *
61359272 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
* * * * *
61359313 TTCACCGACACTTAGCCTGCTAGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
* * * * *
61359354 TTCACCGGCACTTAGCCTGCTAGACATATAGTCCGTTTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
* *
61359395 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGA
61359431 ATAATTTCAC
Statistics
Matches: 139, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 1 0.01
41 138 0.99
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
Found at i:61359440 original size:41 final size:41
Alignment explanation
Indices: 61359266--61359427 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
61359256 TTATAGTTTA
* * * *
61359266 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
* *
61359307 ATTCAGTTCACCGACACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
61359348 ATTCAATTCACCGGCACTTAGCCTGCTAGACATATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
61359389 TTTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
61359428 TGAATAATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 109 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:61361093 original size:13 final size:13
Alignment explanation
Indices: 61361075--61361099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61361065 CAATCAAATG
61361075 CACACAAAATAAA
1 CACACAAAATAAA
61361088 CACACAAAATAA
1 CACACAAAATAA
61361100 TATTAATAAT
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:61364887 original size:43 final size:44
Alignment explanation
Indices: 61364787--61364891 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 44
61364777 TTCGTATAAG
* * *
61364787 ACCACGTCTGGGAC-GTTGGCATTGACTTGTGTTTACGTGTAAA
1 ACCACGTCTGGGACAGTTGGCATCGACTTGTGATTACATGTAAA
*
61364830 ACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGATTACATGTAAT
1 ACCAC-GTCTGGGACAGTTGGCATCGACT-TGTGATTACATGTAAA
*
61364873 ACCACGTCTAGGACA-TTGG
1 ACCACGTCTGGGACAGTTGG
61364892 TATTGTACGA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.04
43 48 0.92
44 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (44 bp):
ACCACGTCTGGGACAGTTGGCATCGACTTGTGATTACATGTAAA
Found at i:61379232 original size:17 final size:17
Alignment explanation
Indices: 61379157--61379233 Score: 51
Period size: 17 Copynumber: 4.8 Consensus size: 17
61379147 TTTGAAATGT
61379157 TTAGAAATTAAA-T-AA
1 TTAGAAATTAAATTAAA
61379172 TT-GAAA-TAACA-TAAA
1 TTAGAAATTAA-ATTAAA
*
61379187 -TAAACAATTAAA-TAAA
1 TTAGA-AATTAAATTAAA
*
61379203 TTAGAAATAAAATTAAA
1 TTAGAAATTAAATTAAA
* *
61379220 TTGGGAATTAAATT
1 TTAGAAATTAAATT
61379234 CGGATTTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
13 3 0.06
14 7 0.14
15 5 0.10
16 13 0.27
17 21 0.43
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (17 bp):
TTAGAAATTAAATTAAA
Found at i:61382934 original size:17 final size:17
Alignment explanation
Indices: 61382912--61382946 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61382902 AACAATTAAA
61382912 TAAATTGGAAATAAAAT
1 TAAATTGGAAATAAAAT
* *
61382929 TAAATTGGGAATTAAAT
1 TAAATTGGAAATAAAAT
61382946 T
1 T
61382947 CAGATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (17 bp):
TAAATTGGAAATAAAAT
Found at i:61385678 original size:19 final size:19
Alignment explanation
Indices: 61385631--61385678 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
61385621 TTATTATAAT
*
61385631 TTTATAACTTTTAATATAC
1 TTTATAATTTTTAATATAC
* *
61385650 -TTACTTATTTTTTATATAC
1 TTTA-TAATTTTTAATATAC
61385669 TTTATAATTT
1 TTTATAATTT
61385679 ATATATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.13
19 17 0.74
20 3 0.13
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAATTTTTAATATAC
Found at i:61385694 original size:26 final size:25
Alignment explanation
Indices: 61385665--61385715 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
61385655 TATTTTTTAT
61385665 ATAC-TTTATAATTTATATATACATAC
1 ATACATTTATAA--TATATATACATAC
61385691 ATACATTTTATAATATATATACATA
1 ATACA-TTTATAATATATATACATA
61385716 TATGTGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 16 0.70
28 7 0.30
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (25 bp):
ATACATTTATAATATATATACATAC
Found at i:61385917 original size:35 final size:36
Alignment explanation
Indices: 61385877--61385958 Score: 103
Period size: 37 Copynumber: 2.3 Consensus size: 36
61385867 ACCCCTTTTT
*
61385877 TACATATATAGTTTT-TATATTTTATAATTCGTATA
1 TACATATATAGTTTTCTATATTTTACAATTCGTATA
* *
61385912 TACATACATATTTTTCGTATATTTTACAATTCGTATA
1 TACATATATAGTTTTC-TATATTTTACAATTCGTATA
* *
61385949 CATATATATA
1 TACATATATA
61385959 TCCACATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 13 0.33
37 26 0.67
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (36 bp):
TACATATATAGTTTTCTATATTTTACAATTCGTATA
Found at i:61387557 original size:14 final size:14
Alignment explanation
Indices: 61387538--61387567 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61387528 ATGGATTCAA
61387538 ATCTAATGGTTGAC
1 ATCTAATGGTTGAC
61387552 ATCTAATGGTTGAC
1 ATCTAATGGTTGAC
61387566 AT
1 AT
61387568 TTTGGTAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (14 bp):
ATCTAATGGTTGAC
Found at i:61387700 original size:27 final size:27
Alignment explanation
Indices: 61387668--61387729 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
61387658 AAAAAATAAT
*
61387668 CAAAATCTTATAATTTTTTTTATTTAC
1 CAAAATATTATAATTTTTTTTATTTAC
61387695 CAAAATATTATAATTTTTTTTATTTAC
1 CAAAATATTATAATTTTTTTTATTTAC
61387722 CAAAATAT
1 CAAAATAT
61387730 ACAAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (27 bp):
CAAAATATTATAATTTTTTTTATTTAC
Found at i:61387811 original size:27 final size:27
Alignment explanation
Indices: 61387781--61387832 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
61387771 GGCCAATCAC
*
61387781 ATTGGTGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
61387808 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
61387833 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:61388192 original size:19 final size:19
Alignment explanation
Indices: 61388168--61388219 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
61388158 ATTTTAATTT
61388168 AAAATAGAGTTATTAAATG
1 AAAATAGAGTTATTAAATG
** * *
61388187 GGAATAG-TTTATTAAATT
1 AAAATAGAGTTATTAAATG
61388205 AAAATAGAGTTATTA
1 AAAATAGAGTTATTA
61388220 CTTAATTAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (19 bp):
AAAATAGAGTTATTAAATG
Found at i:61388210 original size:18 final size:19
Alignment explanation
Indices: 61388161--61388219 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
61388151 ATGTATTATT
*
61388161 TTAATTTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
*** *
61388180 TTAAATGGGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
61388198 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
61388217 TTA
1 TTA
61388220 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:61388810 original size:27 final size:27
Alignment explanation
Indices: 61388769--61388820 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
61388759 CATTTTAGTC
*
61388769 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTACCGCCAATCT
* *
61388796 CTTTGTCACCTTTGGTACCGCCAAT
1 CTTTGGCACCATTGGTACCGCCAAT
61388821 GTGATTGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (27 bp):
CTTTGGCACCATTGGTACCGCCAATCT
Found at i:61388925 original size:25 final size:26
Alignment explanation
Indices: 61388875--61388935 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
61388865 TTTTTTTAGT
61388875 ATATTTTAATAAATAAAAAAATTATA
1 ATATTTTAATAAATAAAAAAATTATA
*
61388901 ATATTTTAGTAAATAAAAAAA-TATA
1 ATATTTTAATAAATAAAAAAATTATA
61388926 ATATTTTAAT
1 ATATTTTAAT
61388936 TATTTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATTTTAATAAATAAAAAAATTATA
Found at i:61399211 original size:24 final size:24
Alignment explanation
Indices: 61399179--61399226 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
61399169 CTTCCTCCTA
61399179 TATATATAAGAGGAGTTACGATCC
1 TATATATAAGAGGAGTTACGATCC
*
61399203 TATATATAAGAGGAGTTACTATCC
1 TATATATAAGAGGAGTTACGATCC
61399227 AACTAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (24 bp):
TATATATAAGAGGAGTTACGATCC
Found at i:61400203 original size:17 final size:19
Alignment explanation
Indices: 61400183--61400220 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
61400173 AGGAAGTTTT
61400183 AAGA-TAGAA-AATAATTG
1 AAGACTAGAATAATAATTG
61400200 AAGACTAGAATTAATAATTG
1 AAGACTAGAA-TAATAATTG
61400220 A
1 A
61400221 TTTGCACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
20 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (19 bp):
AAGACTAGAATAATAATTG
Found at i:61408208 original size:19 final size:19
Alignment explanation
Indices: 61408173--61408221 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
61408163 TTTTCCTGCA
* *
61408173 AAAATAAAA-AATGAAAAT
1 AAAATAAAATAGTAAAAAT
61408191 AAAATAAAATAGTAAAAAT
1 AAAATAAAATAGTAAAAAT
61408210 -AAATAATAATAG
1 AAAATAA-AATAG
61408222 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAATAAAATAGTAAAAAT
Found at i:61416160 original size:22 final size:22
Alignment explanation
Indices: 61416119--61416160 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
61416109 GATAATTATA
*
61416119 TTTTACTTTTGTTTTGTTTTGT
1 TTTTACTTTTGTTTTCTTTTGT
61416141 TTTTACTTTT-TATTTCTTTT
1 TTTTACTTTTGT-TTTCTTTT
61416161 TAAATTATTT
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:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTTACTTTTGTTTTCTTTTGT
Found at i:61422715 original size:18 final size:21
Alignment explanation
Indices: 61422684--61422723 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
61422674 ATATGAACAT
61422684 ATATATAAATTATT-TAAAAA
1 ATATATAAATTATTGTAAAAA
61422704 ATAT-TAAA-TATTGTAAAAA
1 ATATATAAATTATTGTAAAAA
61422723 A
1 A
61422724 AATCTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATATATAAATTATTGTAAAAA
Found at i:61426407 original size:16 final size:16
Alignment explanation
Indices: 61426386--61426450 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
61426376 ACTATCACGC
*
61426386 CTCTATTCAATTACAG
1 CTCTATTCCATTACAG
* *
61426402 CTCTATTTCATTACAC
1 CTCTATTCCATTACAG
61426418 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
61426434 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
61426450 C
1 C
61426451 GAACCAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:61429991 original size:17 final size:17
Alignment explanation
Indices: 61429969--61430003 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61429959 AGCAATTAAA
*
61429969 TAAATTTGAAATAAAAT
1 TAAATTGGAAATAAAAT
*
61429986 TAAATTGGAAATTAAAT
1 TAAATTGGAAATAAAAT
61430003 T
1 T
61430004 CAGATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
TAAATTGGAAATAAAAT
Found at i:61442834 original size:52 final size:52
Alignment explanation
Indices: 61442756--61442860 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
61442746 ATTTTTAAGC
61442756 TTGGATAGAAAATTATTTTTCAACCATAGTTTTAACCTCAGAAGTTAGGTGT
1 TTGGATAGAAAATTATTTTTCAACCATAGTTTTAACCTCAGAAGTTAGGTGT
61442808 TTGGATAGAAAATTATTTTTCAACCATAGTTTTAACCTCAGAAGTTAGGTGT
1 TTGGATAGAAAATTATTTTTCAACCATAGTTTTAACCTCAGAAGTTAGGTGT
61442860 T
1 T
61442861 CTTCGTTACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (52 bp):
TTGGATAGAAAATTATTTTTCAACCATAGTTTTAACCTCAGAAGTTAGGTGT
Found at i:61446549 original size:8 final size:8
Alignment explanation
Indices: 61446536--61446560 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
61446526 AGAATTATTG
61446536 TCAATTTT
1 TCAATTTT
61446544 TCAATTTT
1 TCAATTTT
61446552 TCAATTTT
1 TCAATTTT
61446560 T
1 T
61446561 AAGTTTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TCAATTTT
Found at i:61451450 original size:15 final size:16
Alignment explanation
Indices: 61451419--61451456 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
61451409 TTTTAAAAAT
*
61451419 ATTT-ATATTATATTA
1 ATTTAATATTATAATA
61451434 ATTTAATATT-TAATA
1 ATTTAATATTATAATA
61451449 ATTTAATA
1 ATTTAATA
61451457 ATTTTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATATTATAATA
Found at i:61451454 original size:8 final size:8
Alignment explanation
Indices: 61451432--61451460 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
61451422 TATATTATAT
61451432 TAATTTAA
1 TAATTTAA
61451440 T-ATTTAA
1 TAATTTAA
61451447 TAATTTAA
1 TAATTTAA
61451455 TAATTT
1 TAATTT
61451461 TTTCTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TAATTTAA
Found at i:61456111 original size:20 final size:20
Alignment explanation
Indices: 61456064--61456124 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
61456054 TAACAGTTAT
* *
61456064 TATATTAATA-ATTATAAAA
1 TATATTATTACATTATATAA
*
61456083 TATATTATTTCATTATATAA
1 TATATTATTACATTATATAA
61456103 TACTA-TATTACA-TACTATAA
1 TA-TATTATTACATTA-TATAA
61456123 TA
1 TA
61456125 GTAGAGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATTATTACATTATATAA
Found at i:61469953 original size:19 final size:18
Alignment explanation
Indices: 61469929--61469981 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
61469919 TTACTTCATG
61469929 AAAATTTTAAAAAATATTA
1 AAAATTTTAAAAAAT-TTA
**
61469948 AAAATTATTTTAAAATTTA
1 AAAATT-TTAAAAAATTTA
*
61469967 ACAATTTTTAAAAAA
1 A-AAATTTTAAAAAA
61469982 ATATATCCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTTAAAAAATTTA
Found at i:61480128 original size:59 final size:58
Alignment explanation
Indices: 61480060--61480248 Score: 193
Period size: 59 Copynumber: 3.2 Consensus size: 58
61480050 GTATCGGGGA
61480060 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA-T
* * ** * * * * * *
61480119 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAATAATTTTATTAA
1 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-A-TTAT-ATTTTA-TAT
*
61480180 ATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA-T
*
61480239 ACTATATATT
1 ATTATATATT
61480249 ATGATTTTAG
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 7 0.07
59 39 0.39
60 18 0.18
61 29 0.29
62 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (58 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAT
Found at i:61480275 original size:18 final size:17
Alignment explanation
Indices: 61480252--61480286 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61480242 ATATATTATG
61480252 ATTTTAGTAAATTCATAT
1 ATTTTAGTAAATT-ATAT
*
61480270 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
61480287 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:61492011 original size:12 final size:12
Alignment explanation
Indices: 61491988--61492026 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61491978 TTTAATTCCC
61491988 ACTAATAATAAT
1 ACTAATAATAAT
* *
61492000 AATAATACTAAT
1 ACTAATAATAAT
*
61492012 ACTAATATTAAT
1 ACTAATAATAAT
61492024 ACT
1 ACT
61492027 TACCTCACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (12 bp):
ACTAATAATAAT
Found at i:61492913 original size:4 final size:4
Alignment explanation
Indices: 61492904--61492935 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
61492894 TCTCATGATA
61492904 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
61492936 ATCTTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:61495772 original size:18 final size:17
Alignment explanation
Indices: 61495739--61495777 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
61495729 TTTTATAAAT
61495739 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
61495757 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
61495774 TGTG
1 TGTG
61495778 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:61496031 original size:23 final size:23
Alignment explanation
Indices: 61496005--61496054 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
61495995 GTTATTGATT
*
61496005 AGTGGTAGCTTCAGCTACATTTC
1 AGTGGTAGCTTCAGCTACATATC
*
61496028 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCAGCTACATATC
61496051 AGTG
1 AGTG
61496055 TGGCACTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCAGCTACATATC
Found at i:61498165 original size:67 final size:67
Alignment explanation
Indices: 61498062--61498374 Score: 430
Period size: 67 Copynumber: 4.8 Consensus size: 67
61498052 AAATTGCAAT
* *
61498062 AGTATTTAAATGTATGTATTTAATTGAATTGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
61498127 TG
66 TG
* *
61498129 AGTAATTAAATGTATGTATTTAATTAAATCGATTATATGTATGTGATTTGAGAAAGTATGTGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
61498194 TG
66 TG
* * *
61498196 AATAATTAAATGTATGTATTTAATTGAATTGATTATATGTATATGATTTGAGAAAGTATGCGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
61498261 TG
66 TG
* * *
61498263 AGT-ATTTAA---ATG--TTT-A---AATCGATTATATATATGTGATTTGAGAATGTATGCGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
61498318 TG
66 TG
* * * *
61498320 AGTATTTAAATGTATGTACTTAATTGAATAGATTATATATATGTGATTTGAGAAA
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAA
61498375 TTGAATTATT
Statistics
Matches: 216, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
57 40 0.19
58 4 0.02
60 1 0.00
61 6 0.03
63 5 0.02
64 1 0.00
66 5 0.02
67 154 0.71
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (67 bp):
AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
TG
Found at i:61498657 original size:45 final size:45
Alignment explanation
Indices: 61498568--61498659 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
61498558 GCCTATCGTT
* * * * * *
61498568 TTCAGCTCATTAGAGCTTACCATTTTAGCTCGTATGTGCTTACTA
1 TTCAGCTCATCAAAGCTTACCATTTCAGCTCATATGAGCCTACTA
*
61498613 TTCAGCTCATCAAAGCTTACCGTTTCAGCTCA-ATAGAGCCTACTA
1 TTCAGCTCATCAAAGCTTACCATTTCAGCTCATAT-GAGCCTACTA
61498658 TT
1 TT
61498660 TATCAGCTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (45 bp):
TTCAGCTCATCAAAGCTTACCATTTCAGCTCATATGAGCCTACTA
Found at i:61498854 original size:20 final size:20
Alignment explanation
Indices: 61498829--61498886 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
61498819 AAGATATGTG
*
61498829 TTTATATGGATGAATTATTA
1 TTTATATGGATGAATTACTA
* *
61498849 TTTATATGGATGAACTACTG
1 TTTATATGGATGAATTACTA
* *
61498869 GTTATATGAATGAATTAC
1 TTTATATGGATGAATTAC
61498887 AGTTTATACG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTATATGGATGAATTACTA
Found at i:61498893 original size:20 final size:20
Alignment explanation
Indices: 61498828--61498899 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
61498818 TAAGATATGT
* *
61498828 GTTTATATGGATGAATTATTA
1 GTTTATATGAATGAATTA-CA
* * *
61498849 -TTTATATGGATGAACTACT
1 GTTTATATGAATGAATTACA
*
61498868 GGTTATATGAATGAATTACA
1 GTTTATATGAATGAATTACA
*
61498888 GTTTATACGAAT
1 GTTTATATGAAT
61498900 AGAAATGAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.42
Consensus pattern (20 bp):
GTTTATATGAATGAATTACA
Found at i:61510190 original size:30 final size:31
Alignment explanation
Indices: 61510125--61510193 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
61510115 ACTATTAATC
* * *
61510125 AGTGATTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
61510156 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
61510185 GAGTGACTG
1 -AGTGACTG
61510194 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.42
31 14 0.42
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:61511969 original size:9 final size:9
Alignment explanation
Indices: 61511938--61511962 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
61511928 TCAATTCGGT
61511938 TAATTCGAG
1 TAATTCGAG
61511947 TAATTCGAG
1 TAATTCGAG
61511956 TAATTCG
1 TAATTCG
61511963 GTTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (9 bp):
TAATTCGAG
Found at i:61516912 original size:23 final size:23
Alignment explanation
Indices: 61516853--61516976 Score: 85
Period size: 23 Copynumber: 5.4 Consensus size: 23
61516843 ACAACCGATT
*
61516853 TACCC-TCTAAACACAACC--ATG
1 TACCCTTC-AAACACAACCAAATA
* * *
61516874 TACCCTCCGAATACAACCAAATA
1 TACCCTTCAAACACAACCAAATA
61516897 TACCCTTCAAACACAACCATATATA
1 TACCCTTCAAACACAACCA-A-ATA
* * * *
61516922 TAACTTTCGAACACAACCAAGTA
1 TACCCTTCAAACACAACCAAATA
* ** *
61516945 TACCCTCCAAATGCAA-CTAATA
1 TACCCTTCAAACACAACCAAATA
61516967 TACCCTTCAA
1 TACCCTTCAA
61516977 CATATCCACT
Statistics
Matches: 78, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
21 13 0.17
22 14 0.18
23 30 0.38
24 2 0.03
25 19 0.24
ACGTcount: A:0.41, C:0.33, G:0.04, T:0.22
Consensus pattern (23 bp):
TACCCTTCAAACACAACCAAATA
Found at i:61516934 original size:25 final size:23
Alignment explanation
Indices: 61516881--61516946 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 23
61516871 ATGTACCCTC
* *
61516881 CGAATACAACCAAATATACCCTT
1 CGAACACAACCAAATATAACCTT
* *
61516904 CAAACACAACCATATATATAACTTT
1 CGAACACAACCA-A-ATATAACCTT
*
61516929 CGAACACAACCAAGTATA
1 CGAACACAACCAAATATA
61516947 CCCTCCAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 14 0.40
24 2 0.06
25 19 0.54
ACGTcount: A:0.47, C:0.27, G:0.05, T:0.21
Consensus pattern (23 bp):
CGAACACAACCAAATATAACCTT
Found at i:61518883 original size:102 final size:102
Alignment explanation
Indices: 61518706--61518912 Score: 351
Period size: 103 Copynumber: 2.0 Consensus size: 102
61518696 TTTTCAAAAC
* * * * *
61518706 CATTTTTAAATAAAAGGATCGATTTGGATTTTGAAAATCGAAAATGAAAAAACAGGAGTTGCCAC
1 CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAAAAAGAGTCGCCAC
*
61518771 CGATATTTTTTAGGTGTGATCGGATCACCTTGCGATT
66 CAATATTTTTTAGGTGTGATCGGATCACCTTGCGATT
61518808 CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAAAAAAGAGTCGCCA
1 CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATG-AAAAAAAAAGAGTCGCCA
61518873 CCAATATTTTTTAGGTGTGATCGGATCACCTTGCGATT
65 CCAATATTTTTTAGGTGTGATCGGATCACCTTGCGATT
61518911 CA
1 CA
61518913 ATCGTTTTAA
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
102 44 0.45
103 54 0.55
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (102 bp):
CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAAAAAGAGTCGCCAC
CAATATTTTTTAGGTGTGATCGGATCACCTTGCGATT
Found at i:61533049 original size:41 final size:41
Alignment explanation
Indices: 61532983--61533088 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
61532973 AATGAGATAA
* * *
61532983 TTCAAACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
61533024 TTCAGACTATACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
61533065 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
61533089 AATTGCCAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:61535581 original size:15 final size:15
Alignment explanation
Indices: 61535561--61535668 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
61535551 TTTATGGAAA
61535561 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* ****
61535576 ATCAAATA-ATAAAA
1 ATCAAAGATATGGGT
61535590 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
61535606 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
61535620 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
61535636 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
61535650 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
61535666 ATC
1 ATC
61535669 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:61535596 original size:30 final size:30
Alignment explanation
Indices: 61535557--61535677 Score: 181
Period size: 30 Copynumber: 4.0 Consensus size: 30
61535547 CATATTTATG
*
61535557 GAAAA-TCAAAGATATGGGTATCAAATAAT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
61535586 AAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
61535616 GGAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
* *
61535646 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAAGTCAAAGATATGGGTATC-AAATATT
61535677 G
1 G
61535678 GCATAATAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
29 4 0.05
30 74 0.87
31 7 0.08
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (30 bp):
GAAAAGTCAAAGATATGGGTATCAAATATT
Found at i:61540274 original size:15 final size:15
Alignment explanation
Indices: 61540254--61540361 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
61540244 TTTATGGAAA
61540254 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
61540269 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
61540283 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
61540299 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
61540313 AGTCAAAGATATGAGT
1 A-TCAAAGATATGGGT
* **
61540329 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
61540343 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
61540359 ATC
1 ATC
61540362 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:61540291 original size:30 final size:30
Alignment explanation
Indices: 61540248--61540371 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
61540238 TCCATATTTA
* *
61540248 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
61540278 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
61540308 TGGAAAGTCAAAGATATGAGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
61540338 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
61540369 TGG
1 TGG
61540372 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:61542366 original size:27 final size:28
Alignment explanation
Indices: 61542315--61542410 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 28
61542305 ATATAGGGAG
61542315 AAAATATAAAAATTATTAAAAATTTATAT
1 AAAATATAAAAATTATTAAAAATTTAT-T
* *
61542344 AAAATAT-AAAA-TATTTAATATTTATT
1 AAAATATAAAAATTATTAAAAATTTATT
* * * **
61542370 AAAATTTTGGAAAA-TATTAAAAAATTAAA
1 AAAA-TAT-AAAAATTATTAAAAATTTATT
61542399 AAAATATAAAAA
1 AAAATATAAAAA
61542411 AATTTATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 5 0.09
27 18 0.33
28 6 0.11
29 25 0.46
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATATAAAAATTATTAAAAATTTATT
Found at i:61542393 original size:10 final size:10
Alignment explanation
Indices: 61542380--61542413 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
61542370 AAAATTTTGG
*
61542380 AAAATATTAA
1 AAAATATAAA
61542390 AAAAT-TAAA
1 AAAATATAAA
61542399 AAAATATAAA
1 AAAATATAAA
61542409 AAAAT
1 AAAAT
61542414 TTATTAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATATAAA
Found at i:61543680 original size:63 final size:63
Alignment explanation
Indices: 61543601--61543801 Score: 178
Period size: 63 Copynumber: 3.2 Consensus size: 63
61543591 ACTGCCTGGC
* * * * * *
61543601 CACACACCCGTCTCCCTGGCCTATGTGACCC-TAAATCCAAAATAGTGAGGTGCACGGCTTGGA
1 CACACGCCCGTGTCCCTAGCCTATGTGACCCAAAAAT-CAAAACAGTGAGGTACACGGCTTGGA
* * * * *
61543664 CACACGCTCGTGTCCCTAGCCTGTGTGACCCAAAAATCTAGACAGTGAGTTACACGGCTTGGA
1 CACACGCCCGTGTCCCTAGCCTATGTGACCCAAAAATCAAAACAGTGAGGTACACGGCTTGGA
* * * * *
61543727 CACACGCCCGTGTCTCTAG-CT-TGTGTACCTC-AAATTCCAAAACAGTGAGTTACATGGC-TAG
1 CACACGCCCGTGTCCCTAGCCTATGTG-ACC-CAAAAAT-CAAAACAGTGAGGTACACGGCTTGG
61543788 A
63 A
*
61543789 CACACGGCCGTGT
1 CACACGCCCGTGT
61543802 GGCGTCAAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
61 4 0.03
62 24 0.21
63 83 0.72
64 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (63 bp):
CACACGCCCGTGTCCCTAGCCTATGTGACCCAAAAATCAAAACAGTGAGGTACACGGCTTGGA
Found at i:61545246 original size:27 final size:26
Alignment explanation
Indices: 61545207--61545263 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
61545197 TTTTCTAATT
61545207 TTTTTTATAAATTTTAAATATCTTTCTA
1 TTTTTTATAAATTTTAAATAT-TTT-TA
*
61545235 TTTTTTAT-AATTTTGAATATTTTTA
1 TTTTTTATAAATTTTAAATATTTTTA
61545260 TTTT
1 TTTT
61545264 CTTTTCTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 11 0.39
28 8 0.29
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTTATAAATTTTAAATATTTTTA
Found at i:61545268 original size:28 final size:28
Alignment explanation
Indices: 61545204--61545268 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
61545194 ATTTTTTCTA
61545204 ATTTTTTTTATAAATTTTAAATATCTTT
1 ATTTTTTTTATAAATTTTAAATATCTTT
* * * *
61545232 CTATTTTTTAT-AATTTTGAATATTTTT
1 ATTTTTTTTATAAATTTTAAATATCTTT
61545259 ATTTTCTTTT
1 ATTTT-TTTT
61545269 CTGGATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (28 bp):
ATTTTTTTTATAAATTTTAAATATCTTT
Found at i:61548116 original size:14 final size:13
Alignment explanation
Indices: 61548085--61548113 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61548075 TATCTCTTTG
61548085 TTTTCAATTGCTT
1 TTTTCAATTGCTT
61548098 TTTTCAATTG-TT
1 TTTTCAATTGCTT
61548110 TTTT
1 TTTT
61548114 TTCTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTCAATTGCTT
Found at i:61549989 original size:27 final size:27
Alignment explanation
Indices: 61549950--61550101 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
61549940 TAGGTTGTGG
* * *
61549950 CTATTTCATAGGCACAACTAGTTGAGC
1 CTATCTCAAAGGCACGACTAGTTGAGC
61549977 CTATCTCAAAGGCACGACTAGTTGAGC
1 CTATCTCAAAGGCACGACTAGTTGAGC
* *
61550004 CTATCTGAAAGGCGCGACTAGTTGAGC
1 CTATCTCAAAGGCACGACTAGTTGAGC
* *
61550031 CTATCTGAAAGGCGCGACTAGTTGAGC
1 CTATCTCAAAGGCACGACTAGTTGAGC
* * * * * *
61550058 CTATTTGACAGGCGCTACTAGTTGTGC
1 CTATCTCAAAGGCACGACTAGTTGAGC
* *
61550085 CTAACTCAGAGGCACGA
1 CTATCTCAAAGGCACGA
61550102 ATGGTGGGGC
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (27 bp):
CTATCTCAAAGGCACGACTAGTTGAGC
Found at i:61550049 original size:54 final size:54
Alignment explanation
Indices: 61549966--61550101 Score: 200
Period size: 54 Copynumber: 2.5 Consensus size: 54
61549956 CATAGGCACA
61549966 ACTAGTTGAGCCTATCTCAAAGGCACGACTAGTTGAGCCTATCTGAAAGGCGCG
1 ACTAGTTGAGCCTATCTCAAAGGCACGACTAGTTGAGCCTATCTGAAAGGCGCG
* * * * *
61550020 ACTAGTTGAGCCTATCTGAAAGGCGCGACTAGTTGAGCCTATTTGACAGGCGCT
1 ACTAGTTGAGCCTATCTCAAAGGCACGACTAGTTGAGCCTATCTGAAAGGCGCG
* * *
61550074 ACTAGTTGTGCCTAACTCAGAGGCACGA
1 ACTAGTTGAGCCTATCTCAAAGGCACGA
61550102 ATGGTGGGGC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (54 bp):
ACTAGTTGAGCCTATCTCAAAGGCACGACTAGTTGAGCCTATCTGAAAGGCGCG
Found at i:61552524 original size:16 final size:16
Alignment explanation
Indices: 61552490--61552524 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61552480 AAAATCAAAT
* *
61552490 AAAATTACATTATATA
1 AAAATTACATTAAAAA
61552506 AAAATTACATTAAAAA
1 AAAATTACATTAAAAA
61552522 AAA
1 AAA
61552525 TCACAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTACATTAAAAA
Found at i:61553472 original size:60 final size:60
Alignment explanation
Indices: 61553379--61553497 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
61553369 ATACTAATCT
* * * *
61553379 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
61553439 AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
61553498 TAAAAAGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:61553509 original size:60 final size:60
Alignment explanation
Indices: 61553391--61553509 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
61553381 ACACAACAAT
* * *
61553391 TTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACACAAAAAG
1 TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAACAAAAAG
* *
61553451 TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAGAAAAA
1 TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAACAAAAA
61553510 AATTACATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (60 bp):
TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAACAAAAAG
Found at i:61553553 original size:7 final size:7
Alignment explanation
Indices: 61553541--61553566 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61553531 CAATATCTTA
61553541 AATAATT
1 AATAATT
61553548 AATAATT
1 AATAATT
61553555 AATAATT
1 AATAATT
61553562 AATAA
1 AATAA
61553567 AAAATCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:61554004 original size:23 final size:23
Alignment explanation
Indices: 61553940--61554004 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
61553930 ATATATATTT
* *
61553940 AAATATTTTTAATAAAAATAAAA
1 AAATATTTTTAATATAAACAAAA
* *
61553963 AATTAATATTTT-ATTTAAACAAAA
1 AAAT-AT-TTTTAATATAAACAAAA
61553987 AAATATTTTTAATATAAA
1 AAATATTTTTAATATAAA
61554005 AAATTGATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
22 4 0.12
23 11 0.33
24 14 0.42
25 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTTTTAATATAAACAAAA
Found at i:61558284 original size:98 final size:98
Alignment explanation
Indices: 61558080--61558263 Score: 241
Period size: 98 Copynumber: 1.9 Consensus size: 98
61558070 TTACTTTATC
* *
61558080 TTTT-TAATTAATAGCTCTTTTATCCATATAAATAAAATAATAAATATGTAATTATATAATGAAA
1 TTTTATAATTAATAACTCATTTATCCATATAAATAAAATAATAAATATGTAATTATATAATGAAA
**
61558144 ATATATTTGATATATTTCATTATGTTAAAAATA
66 ATATATTTGATATATTAAATTATGTTAAAAATA
* **
61558177 TTTTTTAATTAATAACTCATTTATTTATATAAA-AATAATAATAAATATGT-ATGTGATATAATG
1 TTTTATAATTAATAACTCATTTATCCATATAAATAA-AATAATAAATATGTAAT-T-ATATAATG
*
61558240 AAAATATATTTTATATA-TAAATTA
63 AAAATATATTTGATATATTAAATTA
61558264 ATTTTATTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
97 8 0.11
98 44 0.58
99 24 0.32
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (98 bp):
TTTTATAATTAATAACTCATTTATCCATATAAATAAAATAATAAATATGTAATTATATAATGAAA
ATATATTTGATATATTAAATTATGTTAAAAATA
Found at i:61558401 original size:35 final size:32
Alignment explanation
Indices: 61558358--61558433 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
61558348 ATCAAATAAT
*
61558358 TATTTCAAACAACATTATTACTTTTATATGTAAAA
1 TATTTCAAACAACATTA-T--GTTTATATGTAAAA
* * *
61558393 TATTTCAAATATCATTATGTTTATATGTTAAA
1 TATTTCAAACAACATTATGTTTATATGTAAAA
61558425 TATTTCAAA
1 TATTTCAAA
61558434 TACATATACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 21 0.57
34 1 0.03
35 15 0.41
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (32 bp):
TATTTCAAACAACATTATGTTTATATGTAAAA
Found at i:61562658 original size:20 final size:19
Alignment explanation
Indices: 61562625--61562662 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
61562615 GTCTCTCTAG
*
61562625 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATTT
61562644 GCATTGCATTACATGCATT
1 GCATT-CATTACATGCATT
61562663 AAAATCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (19 bp):
GCATTCATTACATGCATTT
Found at i:61564431 original size:29 final size:29
Alignment explanation
Indices: 61564369--61564431 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
61564359 ATACGATTCA
*
61564369 AAAAAAAAGAAAAAAATCAAGGTCAAAAG
1 AAAAAAAAGAAAAAAATCAAAGTCAAAAG
* * ** *
61564398 CAAAAAGAGAAATCAATCAAAGTCAAAAT
1 AAAAAAAAGAAAAAAATCAAAGTCAAAAG
61564427 AAAAA
1 AAAAA
61564432 TATGAAAAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.70, C:0.10, G:0.11, T:0.10
Consensus pattern (29 bp):
AAAAAAAAGAAAAAAATCAAAGTCAAAAG
Found at i:61565344 original size:6 final size:6
Alignment explanation
Indices: 61565333--61565367 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
61565323 AAAAAGATGA
*
61565333 AAAATG ATAATG AAAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG -AAAATG AAAATG AAAATG AAAA
61565368 ATGGAGAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:61565357 original size:19 final size:19
Alignment explanation
Indices: 61565333--61565370 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61565323 AAAAAGATGA
*
61565333 AAAATGATAATGAAAAATG
1 AAAATGAAAATGAAAAATG
61565352 AAAATGAAAATGAAAAATG
1 AAAATGAAAATGAAAAATG
61565371 GAGAGGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (19 bp):
AAAATGAAAATGAAAAATG
Found at i:61565370 original size:13 final size:13
Alignment explanation
Indices: 61565329--61565367 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
61565319 AAAAAAAAAG
*
61565329 ATGAAAAATGATA
1 ATGAAAAATGAAA
61565342 ATGAAAAATGAAA
1 ATGAAAAATGAAA
61565355 ATG-AAAATGAAA
1 ATGAAAAATGAAA
61565367 A
1 A
61565368 ATGGAGAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:61566926 original size:44 final size:43
Alignment explanation
Indices: 61566876--61567097 Score: 144
Period size: 44 Copynumber: 4.8 Consensus size: 43
61566866 ATCACATCAT
61566876 ATTGAAGCCAGAAATCTAATCTCCCTGAGATTACAGCGGAGCAG
1 ATTGAAGCCAGAAATCT-ATCTCCCTGAGATTACAGCGGAGCAG
* * *
61566920 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAG
1 ATTGAAGCCAGAAAT-CTATCTCCCTGAGATTACAGCGGAGCAG
* * * * * *
61566964 ATT-AA--AATAAATGGTCTTATCTCTCTGAAGTTATAGTAGAGTACATCGCATCAG
1 ATTGAAGCCAGAAA---TC-TATCTCCCTG-AG----A-T----TACAGCGGAGCAG
*
61567018 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAG
1 ATTGAAGCCAGAAATC-TATCTCCCTGAGATTACAGCGGAGCAG
** *
61567062 ATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAG
1 ATTGAAGCCAGAAAT-CTATCTCCCTGAGATTACAG
61567098 TGGAATGGAT
Statistics
Matches: 138, Mismatches: 21, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
41 3 0.02
43 3 0.02
44 91 0.66
45 5 0.04
48 1 0.01
49 2 0.01
50 1 0.01
53 2 0.01
54 24 0.17
55 2 0.01
57 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (43 bp):
ATTGAAGCCAGAAATCTATCTCCCTGAGATTACAGCGGAGCAG
Found at i:61567016 original size:142 final size:142
Alignment explanation
Indices: 61566731--61567302 Score: 887
Period size: 142 Copynumber: 4.0 Consensus size: 142
61566721 TGTAAGGAAA
* *
61566731 CAGATTTAAGCCACAAATCCTT-TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 CAGATTGAAGCCAGAAAT-CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
* * *
61566795 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGGTCTTATCTCTCTAAAGCTACAGTA
65 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
* *
61566860 TAGTAGATCACAT
130 GAGTAGATCGCAT
* *
61566873 CATATTGAAGCCAGAAATCTAATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
61566938 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGG-TCTTATCTCTCTGAAGTTATAGTA
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAA-GGATCTTATCTCTCTAAAGTTACAGTA
*
61567002 GAGTACATCGCAT
130 GAGTAGATCGCAT
* *
61567015 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*** * *
61567080 ATCTCCCTGAGATTACAGTGGAATGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
61567145 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
61567157 CAGATTGAAGCTAGATATCTTATCTCCCTGAGATTACCGCGGAGCCGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
61567222 ATCTCCCTGAGATTACAGTGGAGCGAAATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
66 ATCTCCCTGAGATTACAGTGGAGC-AGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
61567287 GAGTAGATCGCAT
130 GAGTAGATCGCAT
61567300 CAG
1 CAG
61567303 GTCTTATCTC
Statistics
Matches: 395, Mismatches: 31, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
141 4 0.01
142 337 0.85
143 54 0.14
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
AGTAGATCGCAT
Found at i:61567098 original size:44 final size:43
Alignment explanation
Indices: 61567015--61567245 Score: 167
Period size: 44 Copynumber: 5.0 Consensus size: 43
61567005 TACATCGCAT
*
61567015 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAG-AATCTTATCTCCCTGAGATTACAGTGGAG
* * *
61567059 CAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAA
1 CAGATTGAAGCTAG-AATCTTATCTCCCTGAGATTACAGTGGAG
** ** * * * *
61567103 TGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCAT
1 CAGATTGAAGCT--AGAATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AG
* *
61567157 CAGATTGAAGCTAGATATCTTATCTCCCTGAGATTACCGCGGAG
1 CAGATTGAAGCTAGA-ATCTTATCTCCCTGAGATTACAGTGGAG
* *
61567201 CCGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAG-AATCTTATCTCCCTGAGATTACAGTGGAG
61567245 C
1 C
61567246 GAAATTAAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
43 3 0.02
44 95 0.66
45 6 0.04
47 2 0.01
48 1 0.01
49 8 0.06
50 1 0.01
51 2 0.01
53 5 0.03
54 18 0.12
55 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
CAGATTGAAGCTAGAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:61567432 original size:50 final size:50
Alignment explanation
Indices: 61567377--61567507 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 50
61567367 TAACGTGGAA
* *
61567377 CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAATATTACAGTTAAAG
1 CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCAAATAGTACAG-TAAAG
* *** ** * *
61567428 -AGATTAAAGCTACAACAACGAATCTTATTTCCCAAATAGTGCAGTAGAG
1 CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCAAATAGTACAGTAAAG
*
61567477 CA-AGTTAAAGCCACAACGGTAAATCTTGCTT
1 CAGA-TTAAAGCCACAACGGTGAATCTTGCTT
61567508 TTTCGACATT
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
49 5 0.08
50 56 0.92
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (50 bp):
CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCAAATAGTACAGTAAAG
Found at i:61569004 original size:12 final size:12
Alignment explanation
Indices: 61568967--61569004 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
61568957 TTATTAAACT
*
61568967 TTTATATCATTA
1 TTTATATTATTA
*
61568979 TATATATTATTA
1 TTTATATTATTA
61568991 TTTATATTATTA
1 TTTATATTATTA
61569003 TT
1 TT
61569005 AAACTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:61569004 original size:43 final size:42
Alignment explanation
Indices: 61568945--61569035 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 42
61568935 TTTTTATACA
*
61568945 TATTA-TTATATGTTATTAAACTTTT-ATATCATTATATATAT
1 TATTATTTATATATTATTAAACTTTTCATATCA-TATATATAT
* *
61568986 TATTATTTATATTATTATTAAACTTTTCATTTTATATATATAT
1 TATTATTTATA-TATTATTAAACTTTTCATATCATATATATAT
61569029 TACTTAT
1 TA-TTAT
61569036 CTAGACTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 5 0.12
42 5 0.12
43 25 0.58
44 8 0.19
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (42 bp):
TATTATTTATATATTATTAAACTTTTCATATCATATATATAT
Found at i:61572342 original size:31 final size:31
Alignment explanation
Indices: 61572307--61572373 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
61572297 TCATCTTGAG
*
61572307 TTGCCCGACAACAATGACTTACTACCCTGGA
1 TTGCCCGACAACAATGACTTACCACCCTGGA
* * * **
61572338 TTGCCTGGCGAGGATGACTTACCACCCTGGA
1 TTGCCCGACAACAATGACTTACCACCCTGGA
61572369 TTGCC
1 TTGCC
61572374 TAGCAACGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (31 bp):
TTGCCCGACAACAATGACTTACCACCCTGGA
Found at i:61572466 original size:107 final size:104
Alignment explanation
Indices: 61572229--61572514 Score: 227
Period size: 107 Copynumber: 2.7 Consensus size: 104
61572219 TACCACCCCA
* * *
61572229 GATTGCCCAACGAAGATAGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATTCAATT
1 GATTGCCCGACGAA-ATGGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATCCAATT
*
61572294 CTGTCATCTTGAGTTGCCCGACAACAATGACTTACTACCCTG
65 CTGTCATCATGAGTTGCCCG--AACAATGACTTACTACCCTG
* * * * * *
61572336 GATTGCCTGGCGAGGATGACTTACCACCCTGGATTGCCT-AGCAACGATGGTTTATTGATCCAAT
1 GATTGCCCGACGA-AATGGCTTACCACCCCGGATTGCCTGA-CAACGATGGTTTATCGATCCAAT
* * * * * *
61572400 TTTGTTATCATGGGTTGTCCG-GCAATGAC-TACCTGCCACCTAG
64 TCTGTCATCATGAGTTGCCCGAACAATGACTTA-CT-AC-CCT-G
* *** * * * * *
61572443 GATTGCCCGACGACAATGGCTTACCATCTTAGATTTCCCGACAATGATGGTTTATCAATTCAATT
1 GATTGCCCGACGA-AATGGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATCCAATT
*
61572508 ATGTCAT
65 CTGTCAT
61572515 TTCGGATTGC
Statistics
Matches: 140, Mismatches: 32, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
103 2 0.01
104 9 0.06
105 1 0.01
106 4 0.03
107 123 0.88
108 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (104 bp):
GATTGCCCGACGAAATGGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATCCAATTC
TGTCATCATGAGTTGCCCGAACAATGACTTACTACCCTG
Found at i:61575631 original size:21 final size:21
Alignment explanation
Indices: 61575607--61575655 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
61575597 TTATAATTAA
*
61575607 TTTATTTTGTTCGCTAACGTG
1 TTTATTTTGTTCGCTAACATG
61575628 TTTATTTTGTTCGCTAACATG
1 TTTATTTTGTTCGCTAACATG
61575649 TTT-TTTT
1 TTTATTTT
61575656 CTAACACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.59
Consensus pattern (21 bp):
TTTATTTTGTTCGCTAACATG
Found at i:61576051 original size:29 final size:28
Alignment explanation
Indices: 61576003--61576070 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
61575993 AACCTATAAC
*
61576003 CACATATATATTATAAATAATAAAACCCA
1 CACATATATATTATAAATAACAAAA-CCA
** *
61576032 CACATATATATTATGTATAACAGAACCA
1 CACATATATATTATAAATAACAAAACCA
*
61576060 CGCATATATAT
1 CACATATATAT
61576071 GTACTATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (28 bp):
CACATATATATTATAAATAACAAAACCA
Found at i:61576168 original size:35 final size:30
Alignment explanation
Indices: 61576128--61576212 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 30
61576118 CGCATGCATG
61576128 CATATATATTATTATATATATAGCACCAAAACC
1 CATATATATTATTATATATATA--A-CAAAACC
*
61576161 CATATATATTA-TATATAAATAACAAAACC
1 CATATATATTATTATATATATAACAAAACC
*
61576190 CCTATAGGTATATATTATATATA
1 CATATA--TAT-TATTATATATA
61576213 CACATACATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
29 12 0.27
30 1 0.02
31 3 0.07
32 11 0.24
33 18 0.40
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (30 bp):
CATATATATTATTATATATATAACAAAACC
Found at i:61576732 original size:19 final size:20
Alignment explanation
Indices: 61576703--61576742 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
61576693 ATTTTCTTAA
*
61576703 TAATTTAAGAAAAACATAAT
1 TAATTTAAGAAAAAAATAAT
61576723 TAATTT-AGAAAAAAATAAT
1 TAATTTAAGAAAAAAATAAT
61576742 T
1 T
61576743 TATCAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
TAATTTAAGAAAAAAATAAT
Found at i:61580054 original size:138 final size:138
Alignment explanation
Indices: 61579806--61580085 Score: 560
Period size: 138 Copynumber: 2.0 Consensus size: 138
61579796 TTCTCACCTG
61579806 ATTATCTAAAGATTCTTTGAAATAATAATTAAGTCCCTCATTTACATATATGCGACCTAACGAAA
1 ATTATCTAAAGATTCTTTGAAATAATAATTAAGTCCCTCATTTACATATATGCGACCTAACGAAA
61579871 CTTATCTTCAGAGTTTGTTTCGTATAGATCATATAATATTACTGACACTTATCTTAAAATAGTTG
66 CTTATCTTCAGAGTTTGTTTCGTATAGATCATATAATATTACTGACACTTATCTTAAAATAGTTG
61579936 TTCCTATC
131 TTCCTATC
61579944 ATTATCTAAAGATTCTTTGAAATAATAATTAAGTCCCTCATTTACATATATGCGACCTAACGAAA
1 ATTATCTAAAGATTCTTTGAAATAATAATTAAGTCCCTCATTTACATATATGCGACCTAACGAAA
61580009 CTTATCTTCAGAGTTTGTTTCGTATAGATCATATAATATTACTGACACTTATCTTAAAATAGTTG
66 CTTATCTTCAGAGTTTGTTTCGTATAGATCATATAATATTACTGACACTTATCTTAAAATAGTTG
61580074 TTCCTATC
131 TTCCTATC
61580082 ATTA
1 ATTA
61580086 ACCATAAACG
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 142 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (138 bp):
ATTATCTAAAGATTCTTTGAAATAATAATTAAGTCCCTCATTTACATATATGCGACCTAACGAAA
CTTATCTTCAGAGTTTGTTTCGTATAGATCATATAATATTACTGACACTTATCTTAAAATAGTTG
TTCCTATC
Found at i:61582735 original size:93 final size:86
Alignment explanation
Indices: 61582603--61582785 Score: 190
Period size: 86 Copynumber: 2.0 Consensus size: 86
61582593 TTTAAAAACT
* *
61582603 AAAATATATTTAACATAATGATAAATATAAAAATATATATTTTTCATTATATAATTATTAATTTA
1 AAAATATATTTAACATAATGATAAATATAAAAATATATA----TAATTACATAATTATT-A--TA
*
61582668 TTTATATAAATAAAGGAGTTATTAATTA
59 TTTATATAAATAAAAGAGTTATTAATTA
* *** * *
61582696 AAAATATTTTTAACATAAT-ATATAATAT-ATTTTATTATATAATTACATATTTGTTATATTTAT
1 AAAATATATTTAACATAATGATA-AATATAAAAATA-TATATAATTACATAATTATTATATTTAT
61582759 ATAAATAAAAGAGTTATTAATTA
64 ATAAATAAAAGAGTTATTAATTA
61582782 AAAA
1 AAAA
61582786 GATGAGTTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
86 33 0.42
88 1 0.01
89 12 0.15
92 6 0.08
93 27 0.34
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (86 bp):
AAAATATATTTAACATAATGATAAATATAAAAATATATATAATTACATAATTATTATATTTATAT
AAATAAAAGAGTTATTAATTA
Found at i:61589805 original size:16 final size:16
Alignment explanation
Indices: 61589768--61589807 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
61589758 TTGATAAAAT
* *
61589768 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
61589784 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
61589800 TAAAATTA
1 TAAAATTA
61589808 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:61589868 original size:66 final size:73
Alignment explanation
Indices: 61589803--61589941 Score: 202
Period size: 75 Copynumber: 2.0 Consensus size: 73
61589793 TTGTTAGTAA
*
61589803 AATTATCAAATTATTAATTG-TTAATTG-T-ATTA-A-T-TT-TTGTAATAAAATCTAACATTTG
1 AATTATCAAATTATTAATTGATTAATTGTTAATTATATTATTGTTGTAACAAAATCTAACATTTG
61589861 ATTAGTAA
66 ATTAGTAA
61589869 AATTATCAAATTATTAATTGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATCTAACATT
1 AATTATCAAATTATTAATTG-ATTAATTGTTAATTATATT-ATTGTTGTAACAAAATCTAACATT
61589934 TGATTAGT
64 TGATTAGT
61589942 TTACATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
66 20 0.32
68 7 0.11
69 1 0.02
70 4 0.06
71 1 0.02
72 1 0.02
74 2 0.03
75 27 0.43
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (73 bp):
AATTATCAAATTATTAATTGATTAATTGTTAATTATATTATTGTTGTAACAAAATCTAACATTTG
ATTAGTAA
Found at i:61589901 original size:16 final size:16
Alignment explanation
Indices: 61589877--61589915 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
61589867 AAAATTATCA
* *
61589877 AATTATTAATTGTATT
1 AATTGTTAATTATATT
61589893 AATTGTTAATTATATT
1 AATTGTTAATTATATT
61589909 AATTGTT
1 AATTGTT
61589916 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:61590178 original size:19 final size:19
Alignment explanation
Indices: 61590151--61590196 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
61590141 TCTGTCAAGG
*
61590151 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
*
61590170 AAATAAAATTGAAAACTTA
1 AAATAAAATTGAAAACTAA
*
61590189 AACTAAAA
1 AAATAAAA
61590197 ACTTAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:61590197 original size:13 final size:13
Alignment explanation
Indices: 61590163--61590211 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
61590153 ATGAAATTGA
*
61590163 AAACTAAAAA-TA
1 AAACTAAAAACTT
* *
61590175 AAATTGAAAACTT
1 AAACTAAAAACTT
61590188 AAACTAAAAACTT
1 AAACTAAAAACTT
61590201 AAACATAAAAA
1 AAAC-TAAAAA
61590212 TAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACTAAAAACTT
Found at i:61590280 original size:20 final size:20
Alignment explanation
Indices: 61590252--61590292 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
61590242 AATGTCGGGG
*
61590252 AAATGAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
61590272 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
61590292 A
1 A
61590293 CTGTCAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:61590397 original size:16 final size:17
Alignment explanation
Indices: 61590371--61590404 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
61590361 TATATATTTT
61590371 AAACATAAAAAAACTTA
1 AAACATAAAAAAACTTA
61590388 AAACAT-AAAAAACTTA
1 AAACATAAAAAAACTTA
61590404 A
1 A
61590405 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (17 bp):
AAACATAAAAAAACTTA
Found at i:61590661 original size:27 final size:27
Alignment explanation
Indices: 61590631--61590691 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
61590621 AAAGGAAGTA
61590631 TTTGTGGCGATCTATGAAAAGGA-GGCC
1 TTTGTGGCGATCTATG-AAAGGATGGCC
*
61590658 TTTGTGGCGATCTATGAAAGGATTGCC
1 TTTGTGGCGATCTATGAAAGGATGGCC
61590685 TTTGTGG
1 TTTGTGG
61590692 TGAACTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (27 bp):
TTTGTGGCGATCTATGAAAGGATGGCC
Found at i:61599808 original size:12 final size:13
Alignment explanation
Indices: 61599785--61599809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61599775 TTTAAACAAG
61599785 TCTAATTTTTTTA
1 TCTAATTTTTTTA
61599798 TCTAATTTTTTT
1 TCTAATTTTTTT
61599810 GTGGAATTTT
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:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
TCTAATTTTTTTA
Found at i:61600303 original size:31 final size:30
Alignment explanation
Indices: 61600246--61600305 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
61600236 ACATGCACTA
*
61600246 TTTTTTATCAGTTTGGTCATTGTACTTTAC
1 TTTTTTATCAGTTTGGTCATTATACTTTAC
*
61600276 TTTTGTTATCAGTTTGG-CCTCTATACTTTA
1 TTTT-TTATCAGTTTGGTCAT-TATACTTTA
61600306 ATTATGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.55
Consensus pattern (30 bp):
TTTTTTATCAGTTTGGTCATTATACTTTAC
Found at i:61607471 original size:20 final size:20
Alignment explanation
Indices: 61607433--61607486 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
61607423 AAAATTGATC
*
61607433 TTTTGATAAAAATTCT-AAAA
1 TTTT-ATAAAAATACTAAAAA
61607453 TTTTATAAAAATACATAAAAA
1 TTTTATAAAAATAC-TAAAAA
*
61607474 TTATTAAAAAAAT
1 TT-TTATAAAAAT
61607487 GGTGTTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.31
20 5 0.17
21 6 0.21
22 9 0.31
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
TTTTATAAAAATACTAAAAA
Found at i:61609995 original size:29 final size:29
Alignment explanation
Indices: 61609937--61609995 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
61609927 AAGTCTGTTT
* *
61609937 GGACATTAAACACAAGGTAAGTTCGTTGG
1 GGACAGTAAACACAAGGTAAGTTCGATGG
*
61609966 GGACAGTAAACACGAGGTAAG-TCTGATGG
1 GGACAGTAAACACAAGGTAAGTTC-GATGG
61609995 G
1 G
61609996 ATGCAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (29 bp):
GGACAGTAAACACAAGGTAAGTTCGATGG
Found at i:61623078 original size:6 final size:6
Alignment explanation
Indices: 61623067--61623102 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
61623057 TGTTTTCTCA
*
61623067 AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
61623103 AATTCATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:61623084 original size:12 final size:12
Alignment explanation
Indices: 61623066--61623104 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
61623056 TTGTTTTCTC
61623066 AAAATGGAAATG
1 AAAATGGAAATG
*
61623078 GAAATGGAAATG
1 AAAATGGAAATG
61623090 AAAATGAGAAATG
1 AAAATG-GAAATG
61623103 AA
1 AA
61623105 TTCATTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:61631468 original size:20 final size:18
Alignment explanation
Indices: 61631421--61631469 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
61631411 CAAGATACAC
61631421 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
61631438 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
61631458 ATTAAATTAATA
1 ATTAAATTAATA
61631470 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:61633020 original size:45 final size:45
Alignment explanation
Indices: 61632962--61633062 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
61632952 GTAACTGTAG
* *
61632962 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAATGTC-GAATCGGTAA
* *
61633007 TAGTAACGGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
61633052 CAGTAACAGTA
1 CAGTAACAGTA
61633063 GTCGGCATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
Found at i:61634319 original size:29 final size:30
Alignment explanation
Indices: 61634266--61634322 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
61634256 TTATCAAATA
61634266 AATAAAATATTTTAATATAATAATTTAATT
1 AATAAAATATTTTAATATAATAATTTAATT
*
61634296 AATAAATATATTTTACT-TAA-AATTTAA
1 AATAAA-ATATTTTAATATAATAATTTAA
61634323 GAAAATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AATAAAATATTTTAATATAATAATTTAATT
Found at i:61636265 original size:27 final size:26
Alignment explanation
Indices: 61636242--61636328 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
61636232 AATTACCCTG
61636242 TGTTTATTGTCCCTGTAGACTACCCCA
1 TGTTTATTGTCCC-GTAGACTACCCCA
*
61636269 TGTTTATTGTCCCGATGGACTACCCCA
1 TGTTTATTGTCCCG-TAGACTACCCCA
* * **
61636296 TGTTTACTGTCCCAGCAGACTATTCCA
1 TGTTTATTGTCCC-GTAGACTACCCCA
61636323 TGTTTA
1 TGTTTA
61636329 CTATCTTGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.96
28 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.37
Consensus pattern (26 bp):
TGTTTATTGTCCCGTAGACTACCCCA
Found at i:61637860 original size:47 final size:47
Alignment explanation
Indices: 61637806--61637899 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
61637796 ATCTGAAAAG
61637806 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
1 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
61637853 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
1 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
61637900 CTCAAAGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (47 bp):
ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
Found at i:61642928 original size:105 final size:105
Alignment explanation
Indices: 61642740--61642950 Score: 368
Period size: 105 Copynumber: 2.0 Consensus size: 105
61642730 GAAACAGTAC
* *
61642740 CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAATAGTTTATTCACCT
1 CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAATTTATTCACCT
*
61642805 AATATCTTGATTCATAGAAATCCCTAAATTATGCTAATAT
66 AATATCTTGATCCATAGAAATCCCTAAATTATGCTAATAT
* *
61642845 CCAGGAAAGAATCCGCCTAGACTGCATCTTTCATTATCAATCTGAATTAAACAATTTATTCACCT
1 CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAATTTATTCACCT
*
61642910 AATATCTTGATCCGTAGAAATCCCTAAATTATGCTAATAT
66 AATATCTTGATCCATAGAAATCCCTAAATTATGCTAATAT
61642950 C
1 C
61642951 TCTCTTCAAG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (105 bp):
CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAATTTATTCACCT
AATATCTTGATCCATAGAAATCCCTAAATTATGCTAATAT
Found at i:61644784 original size:21 final size:21
Alignment explanation
Indices: 61644760--61644807 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
61644750 GTCTTATATG
*
61644760 CTTAATGAATATTTAATTAAT
1 CTTAATGAATATTTAATTAAA
* ** *
61644781 CTTATTTTATTTTTAATTAAA
1 CTTAATGAATATTTAATTAAA
61644802 CTTAAT
1 CTTAAT
61644808 TAGATTAATG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (21 bp):
CTTAATGAATATTTAATTAAA
Found at i:61649974 original size:24 final size:24
Alignment explanation
Indices: 61649922--61650024 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 24
61649912 ATACATGTAT
* *
61649922 GCTCATACGAGCTTTGAAT-TGGTAT
1 GCTCATACAAGC--TGAATATGGTAA
* *
61649947 GCTCTTACTAGCTGTAA-ATGGTAA
1 GCTCATACAAGCTG-AATATGGTAA
61649971 GCTCATACAAGCTGAATATTGGTAA
1 GCTCATACAAGCTGAATA-TGGTAA
* *
61649996 GCTCATGCGAGCTGAATATCGGTAA
1 GCTCATACAAGCTGAATAT-GGTAA
61650021 GCTC
1 GCTC
61650025 TCTCGAGCTG
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.06
24 21 0.32
25 41 0.62
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (24 bp):
GCTCATACAAGCTGAATATGGTAA
Found at i:61649998 original size:25 final size:25
Alignment explanation
Indices: 61649939--61650024 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
61649929 CGAGCTTTGA
* * *
61649939 ATTGGTATGCTCTTACTAGCTGTAA-
1 ATTGGTAAGCTCATACAAGCTG-AAT
61649964 A-TGGTAAGCTCATACAAGCTGAAT
1 ATTGGTAAGCTCATACAAGCTGAAT
* *
61649988 ATTGGTAAGCTCATGCGAGCTGAAT
1 ATTGGTAAGCTCATACAAGCTGAAT
*
61650013 ATCGGTAAGCTC
1 ATTGGTAAGCTC
61650025 TCTCGAGCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.04
24 18 0.34
25 33 0.62
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (25 bp):
ATTGGTAAGCTCATACAAGCTGAAT
Found at i:61650044 original size:25 final size:25
Alignment explanation
Indices: 61649965--61650045 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
61649955 TAGCTGTAAA
* *
61649965 TGGTAAGCTCATACAAGCTGAATAT
1 TGGTAAGCTCATGCGAGCTGAATAT
61649990 TGGTAAGCTCATGCGAGCTGAATAT
1 TGGTAAGCTCATGCGAGCTGAATAT
* *
61650015 CGGTAAGCTC-TCTCGAGCTGAGA-AT
1 TGGTAAGCTCAT-GCGAGCTGA-ATAT
61650040 TGGTAA
1 TGGTAA
61650046 CCCTAATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (25 bp):
TGGTAAGCTCATGCGAGCTGAATAT
Found at i:61656717 original size:17 final size:18
Alignment explanation
Indices: 61656697--61656734 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
61656687 TGGCATGCCA
61656697 ATTGTATTAAAAT-ATTT
1 ATTGTATTAAAATAATTT
*
61656714 ATTGTATTAAATTAATTT
1 ATTGTATTAAAATAATTT
61656732 ATT
1 ATT
61656735 AATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTGTATTAAAATAATTT
Found at i:61664672 original size:301 final size:301
Alignment explanation
Indices: 61664130--61664728 Score: 1198
Period size: 301 Copynumber: 2.0 Consensus size: 301
61664120 ATTTTATAGA
61664130 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
1 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
61664195 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
66 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
61664260 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
131 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
61664325 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
196 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
61664390 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTCGGT
261 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTCGGT
61664431 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
1 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
61664496 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
66 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
61664561 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
131 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
61664626 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
196 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
61664691 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTC
261 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTC
61664729 AATTAACAAC
Statistics
Matches: 298, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
301 298 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (301 bp):
TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTCGGT
Found at i:61664740 original size:21 final size:21
Alignment explanation
Indices: 61664715--61664756 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61664705 TAACTGACTG
61664715 AACTGAATTAATTCAATTAAC
1 AACTGAATTAATTCAATTAAC
61664736 AACTGAATTAATTCAATTAAC
1 AACTGAATTAATTCAATTAAC
61664757 CGGTCGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
AACTGAATTAATTCAATTAAC
Found at i:61676785 original size:16 final size:17
Alignment explanation
Indices: 61676762--61676799 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
61676752 AATAAACAAT
61676762 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
61676777 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
61676794 TAAATT
1 TAAATT
61676800 TAGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:61686775 original size:22 final size:20
Alignment explanation
Indices: 61686726--61686778 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
61686716 AAAAAAATTA
*
61686726 TTTACTTTTAAAGGATTTTT
1 TTTATTTTTAAAGGATTTTT
*
61686746 TTTAATTTTTGAAATGATATTTT
1 TTT-ATTTTT-AAAGGAT-TTTT
61686769 TTTATTTTTA
1 TTTATTTTTA
61686779 TGACACATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.11
21 6 0.21
22 12 0.43
23 7 0.25
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTATTTTTAAAGGATTTTT
Found at i:61687079 original size:16 final size:16
Alignment explanation
Indices: 61687058--61687088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61687048 CATGTTAAAG
61687058 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
61687074 CATATATATTTGAAA
1 CATATAAATTTGAAA
61687089 ACTTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:61687236 original size:10 final size:9
Alignment explanation
Indices: 61687205--61687246 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
61687195 TTTAACTTTC
61687205 TTTATATATT
1 TTTATA-ATT
61687215 CTTTATAATT
1 -TTTATAATT
61687225 TTT-TAAATT
1 TTTAT-AATT
61687234 TTTATAATT
1 TTTATAATT
61687243 TTTA
1 TTTA
61687247 AAAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 18 0.62
10 4 0.14
11 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATAATT
Found at i:61687239 original size:18 final size:18
Alignment explanation
Indices: 61687216--61687339 Score: 61
Period size: 20 Copynumber: 6.6 Consensus size: 18
61687206 TTATATATTC
61687216 TTTATAATTTTTTAAATT
1 TTTATAATTTTTTAAATT
**
61687234 TTTATAA-TTTTTAAAAA
1 TTTATAATTTTTTAAATT
* * **
61687251 TATATAAATTTTGGAATT
1 TTTATAATTTTTTAAATT
** *
61687269 TTTATAAATAATTTGAATT
1 TTTAT-AATTTTTTAAATT
* *
61687288 TTAAAAATTATTTTGAAATT
1 TTTATAATT-TTTT-AAATT
* * *
61687308 TTGAAAATTATTTTGAACTTT
1 TTTATAATT-TTTT-AA-ATT
61687329 TTTATAATTTT
1 TTTATAATTTT
61687340 GGTTAAGAAA
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
17 14 0.17
18 20 0.25
19 15 0.19
20 22 0.28
21 9 0.11
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTATAATTTTTTAAATT
Found at i:61687309 original size:20 final size:20
Alignment explanation
Indices: 61687258--61687329 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
61687248 AAATATATAA
* *
61687258 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAAATTTTAAAAATT
*
61687278 AATTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
*
61687297 ATTTTGAAATTTTGAAAATT
1 ATTTTGAAATTTTAAAAATT
*
61687317 ATTTTGAACTTTT
1 ATTTTGAAATTTT
61687330 TTATAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 9 0.20
19 7 0.16
20 28 0.64
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:61690861 original size:189 final size:188
Alignment explanation
Indices: 61690555--61690901 Score: 434
Period size: 189 Copynumber: 1.8 Consensus size: 188
61690545 GTGGGGAGGG
* * * * *
61690555 AAATTTTGAGGGAAAGTAAATAGGGGGAGTAAAATTTTGGAGGAAAAATATTTAAAAAATTGGGA
1 AAATTTTAAGGAAAAGTAAATAGAGGAAGTAAAATTTTGGAGGAAAAATATTAAAAAAATTGGGA
** ** *
61690620 GATGGGGGGATGGGTTTGTGGTAGATGGGGGGTGGGATGGGAGAGAAGTAAAAGTTTTAAGGGAA
66 GATGGGGAAATGAATTTGTGGTAGATGGGGGGTGGGAGGGGAGAGAAGTAAAAGTTTT--GGGAA
*
61690685 AAGTGAGAGGGAGTAAAACTTTTGGGGGAAAATAAAAAATTTTGAGGGTTTTTGGGAGTA
129 AAGTGAGAAGGAGTAAAACTTTTGGGGGAAAATAAAAAATTTTGAGGGTTTTTGGGAGTA
**
61690745 AAATTTTAAGGAAAAGTAAAT-GAGGAAGTAAAATTTTGGAGGAAAAATATTAAAAGAAAATTTT
1 AAATTTTAAGGAAAAGTAAATAGAGGAAGTAAAATTTTGGAGGAAAAATATT-AAA-AAAATTGG
* *
61690809 G-G-T-GGGAAATGAATTTG-GGATAGATGGGGGGTTGGGAGGGGAGGGGAGTAAAAGTTTTGGG
64 GAGATGGGGAAATGAATTTGTGG-TAGATGGGGGG-TGGGAGGGGAGAGAAGTAAAAGTTTTGGG
** * *
61690870 GGAAGTGAGAATGAGTAAAAGTTTTGGGGGAA
127 AAAAGTGAGAAGGAGTAAAACTTTTGGGGGAA
61690902 GTGAGAATGA
Statistics
Matches: 134, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
187 32 0.24
188 21 0.16
189 52 0.39
190 22 0.16
191 7 0.05
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.25
Consensus pattern (188 bp):
AAATTTTAAGGAAAAGTAAATAGAGGAAGTAAAATTTTGGAGGAAAAATATTAAAAAAATTGGGA
GATGGGGAAATGAATTTGTGGTAGATGGGGGGTGGGAGGGGAGAGAAGTAAAAGTTTTGGGAAAA
GTGAGAAGGAGTAAAACTTTTGGGGGAAAATAAAAAATTTTGAGGGTTTTTGGGAGTA
Found at i:61690886 original size:28 final size:28
Alignment explanation
Indices: 61690854--61690929 Score: 152
Period size: 28 Copynumber: 2.7 Consensus size: 28
61690844 GAGGGGAGGG
61690854 GAGTAAAAGTTTTGGGGGAAGTGAGAAT
1 GAGTAAAAGTTTTGGGGGAAGTGAGAAT
61690882 GAGTAAAAGTTTTGGGGGAAGTGAGAAT
1 GAGTAAAAGTTTTGGGGGAAGTGAGAAT
61690910 GAGTAAAAGTTTTGGGGGAA
1 GAGTAAAAGTTTTGGGGGAA
61690930 AAGTAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (28 bp):
GAGTAAAAGTTTTGGGGGAAGTGAGAAT
Done.