Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 30 of 50
Found at i:13496403 original size:19 final size:19
Alignment explanation
Indices: 13496379--13496416 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13496369 TTGCCAAACC
*
13496379 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13496398 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13496417 AGTTAAATGG
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:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13497450 original size:31 final size:30
Alignment explanation
Indices: 13497397--13497692 Score: 222
Period size: 31 Copynumber: 9.6 Consensus size: 30
13497387 AATGTGAGAG
*
13497397 ACGCCATGTATAACAAGTAAAATGTTGTGAC
1 ACGCCATGCATAACAAG-AAAATGTTGTGAC
* * *
13497428 ACGCCGTGCATATCAAAGAAAATATTGTGAC
1 ACGCCATGCATAAC-AAGAAAATGTTGTGAC
* * *
13497459 ATGCCATGCATAACAAGTTAAATGTTATGAC
1 ACGCCATGCATAACAAG-AAAATGTTGTGAC
* **
13497490 ATGCCATGCATAACAAGTTAATCGTTGTGAC
1 ACGCCATGCATAACAAGAAAAT-GTTGTGAC
* *
13497521 ACGCTATACATAACAA-ATAAAT-TGTGCTGAC
1 ACGCCATGCATAACAAGA-AAATGT-TG-TGAC
** * **
13497552 ACGCCATGCATAACTATTAAATTGTCCTGAC
1 ACGCCATGCATAAC-AAGAAAATGTTGTGAC
* *
13497583 TCACCATGCATAACAA-ATAAAT-TGTGCTGAC
1 ACGCCATGCATAACAAGA-AAATGT-TG-TGAC
* *
13497614 ACGCCATGCATAACAAGTTAAACGTTGTGAC
1 ACGCCATGCATAACAAG-AAAATGTTGTGAC
* * *
13497645 ACGCCATGCATAACAATTAAATTGTTCTGAC
1 ACGCCATGCATAACAA-GAAAATGTTGTGAC
*
13497676 CCGCCATGCATAACAAG
1 ACGCCATGCATAACAAG
13497693 TTTTGGTGTG
Statistics
Matches: 209, Mismatches: 40, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
29 3 0.01
30 13 0.06
31 178 0.85
32 12 0.06
33 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (30 bp):
ACGCCATGCATAACAAGAAAATGTTGTGAC
Found at i:13497518 original size:62 final size:62
Alignment explanation
Indices: 13497397--13497694 Score: 314
Period size: 62 Copynumber: 4.8 Consensus size: 62
13497387 AATGTGAGAG
* * * * * * ** *
13497397 ACGCCATGTATAACAAGTAAAATGTTGTGACACGCCGTGCATATCAAAGAAAAT-ATTGTGAC
1 ACGCCATGCATAACAATTAAATTGTTCTGACACGCCATGCATAAC-AAGTTAATCGTTGTGAC
* * *
13497459 ATGCCATGCATAACAAGTTAAA-TGTTATGACATGCCATGCATAACAAGTTAATCGTTGTGAC
1 ACGCCATGCATAACAA-TTAAATTGTTCTGACACGCCATGCATAACAAGTTAATCGTTGTGAC
* * * * * * **
13497521 ACGCTATACATAACAAATAAATTGTGCTGACACGCCATGCATAACTA-TTAAATTGTCCTGAC
1 ACGCCATGCATAACAATTAAATTGTTCTGACACGCCATGCATAACAAGTT-AATCGTTGTGAC
* * * * *
13497583 TCACCATGCATAACAAATAAATTGTGCTGACACGCCATGCATAACAAGTTAAACGTTGTGAC
1 ACGCCATGCATAACAATTAAATTGTTCTGACACGCCATGCATAACAAGTTAATCGTTGTGAC
*
13497645 ACGCCATGCATAACAATTAAATTGTTCTGACCCGCCATGCATAACAAGTT
1 ACGCCATGCATAACAATTAAATTGTTCTGACACGCCATGCATAACAAGTT
13497695 TTGGTGTGTA
Statistics
Matches: 196, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
61 12 0.06
62 178 0.91
63 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (62 bp):
ACGCCATGCATAACAATTAAATTGTTCTGACACGCCATGCATAACAAGTTAATCGTTGTGAC
Found at i:13497558 original size:93 final size:90
Alignment explanation
Indices: 13497399--13497693 Score: 301
Period size: 93 Copynumber: 3.2 Consensus size: 90
13497389 TGTGAGAGAC
* * * * *
13497399 GCCATGTATAACAAGTAAAATGTTGTGACACGCCGTGCATATCAAAGAAAATAT-TGTGACATGC
1 GCCATGCATAACAAGT-AAATGTTGTGACACGCCATGCATAACAAA-TAAAT-TGTGTGACACGC
*
13497463 CATGCATAACAAGTTAAA-TGTTATGACAT
63 CATGCATAACAA-TTAAATTGTTCTGAC-T
* * *
13497492 GCCATGCATAACAAGTTAATCGTTGTGACACGCTATACATAACAAATAAATTGTGCTGACACGCC
1 GCCATGCATAACAAGTAAAT-GTTGTGACACGCCATGCATAACAAATAAATTGTG-TGACACGCC
* *
13497557 ATGCATAACTATTAAATTGTCCTGACT
64 ATGCATAACAATTAAATTGTTCTGACT
* * * *
13497584 CACCATGCATAACAAATAAAT-TGTGCTGACACGCCATGCATAACAAGTTAAA-CGTTGTGACAC
1 -GCCATGCATAACAAGTAAATGT-TG-TGACACGCCATGCATAACAA-ATAAATTG-TGTGACAC
*
13497647 GCCATGCATAACAATTAAATTGTTCTGACCC
61 GCCATGCATAACAATTAAATTGTTCTGA-CT
13497678 GCCATGCATAACAAGT
1 GCCATGCATAACAAGT
13497694 TTTGGTGTGT
Statistics
Matches: 169, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
91 2 0.01
92 17 0.10
93 143 0.85
94 7 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (90 bp):
GCCATGCATAACAAGTAAATGTTGTGACACGCCATGCATAACAAATAAATTGTGTGACACGCCAT
GCATAACAATTAAATTGTTCTGACT
Found at i:13498747 original size:13 final size:15
Alignment explanation
Indices: 13498719--13498761 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
13498709 TATAGGCAAA
13498719 AAAATAATTGTGTAC
1 AAAATAATTGTGTAC
13498734 AAAATAA-T-TGTAC
1 AAAATAATTGTGTAC
*
13498747 AAAGTATATTGTGTA
1 AAAATA-ATTGTGTA
13498762 TACAGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 8 0.33
16 4 0.17
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.35
Consensus pattern (15 bp):
AAAATAATTGTGTAC
Found at i:13498815 original size:16 final size:15
Alignment explanation
Indices: 13498794--13498852 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
13498784 TACAATGAAT
13498794 TGTATAAAATAAATTG
1 TGTATAAAATAAA-TG
13498810 TGTATATAAA-AAATG
1 TGTATA-AAATAAATG
* *
13498825 TGTATAAGATGAAT-
1 TGTATAAAATAAATG
*
13498839 TGTATAAAAAAAAT
1 TGTATAAAATAAAT
13498853 TCTGTATACC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 13 0.36
15 11 0.31
16 9 0.25
17 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.34
Consensus pattern (15 bp):
TGTATAAAATAAATG
Found at i:13498860 original size:16 final size:16
Alignment explanation
Indices: 13498794--13498873 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 16
13498784 TACAATGAAT
*
13498794 TGTATAAAATAAATTG
1 TGTATAAAAAAAATTG
*
13498810 TGTATATAAAAAA-TG
1 TGTATAAAAAAAATTG
* **
13498825 TGTATAAGATGAA-T-
1 TGTATAAAAAAAATTG
*
13498839 TGTATAAAAAAAATTC
1 TGTATAAAAAAAATTG
13498855 TGTATACCAAAAAAATTG
1 TGTATA--AAAAAAATTG
13498873 T
1 T
13498874 ACAGACAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 10 0.20
15 13 0.26
16 17 0.34
18 10 0.20
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (16 bp):
TGTATAAAAAAAATTG
Found at i:13498874 original size:16 final size:14
Alignment explanation
Indices: 13498791--13498874 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 14
13498781 GTTTACAATG
13498791 AATTGTATAAAATAA
1 AATTGTATAAAA-AA
* *
13498806 ATTGTGTATATAAAA
1 AAT-TGTATAAAAAA
* **
13498821 AATGTGTATAAGATG
1 AAT-TGTATAAAAAA
13498836 AATTGTATAAAAAA
1 AATTGTATAAAAAA
13498850 AATTCTGTATACCAAAAA
1 AA-T-TGTATA--AAAAA
13498868 AATTGTA
1 AATTGTA
13498875 CAGACAAGGG
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
14 10 0.19
15 18 0.33
16 18 0.33
17 1 0.02
18 7 0.13
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (14 bp):
AATTGTATAAAAAA
Found at i:13500460 original size:62 final size:62
Alignment explanation
Indices: 13500332--13500593 Score: 255
Period size: 62 Copynumber: 4.2 Consensus size: 62
13500322 CATAAACAAT
* * * * * * * * *
13500332 AAAATGTTGTGACACG-CAGTGCATACCAAG-TAAAATATTGTCACACGCCATGCAAAACAAGT
1 AAAATGTTATGACACGCCA-TGCATAACAAGATAAACT-TGGTGACACGCCAAGGATAACAAGC
* * **
13500394 AAAAT-TTCATGACACGCTATGCATAACAAGATAAACTTGGTGACATGCCAAGGATAATGAGC
1 AAAATGTT-ATGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
*
13500456 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
1 AAAATGTTATGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
* * * * * * *
13500518 AAAATGTTGTGACACACCATGCATATCAA-ATCAAACGTT-GTGACACGCCATGAATAATAAGT
1 AAAATGTTATGACACGCCATGCATAACAAGAT-AAAC-TTGGTGACACGCCAAGGATAACAAGC
13500580 AAAATGTTATGACA
1 AAAATGTTATGACA
13500594 TGCTAAGGCT
Statistics
Matches: 169, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
61 4 0.02
62 155 0.92
63 10 0.06
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (62 bp):
AAAATGTTATGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
Found at i:13500593 original size:31 final size:31
Alignment explanation
Indices: 13500326--13500593 Score: 222
Period size: 31 Copynumber: 8.7 Consensus size: 31
13500316 ACAAACCATA
13500326 AACAA-TAAAATGTTGTGACACG-CAGTGCAT
1 AACAAGTAAAATGTTGTGACACGCCA-TGCAT
* * * *
13500356 ACCAAGTAAAATATTGTCACACGCCATGCAA
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* *
13500387 AACAAGTAAAAT-TTCATGACACGCTATGCAT
1 AACAAGTAAAATGTT-GTGACACGCCATGCAT
* * * * *
13500418 AACAAGATAAACT-TGGTGACATGCCAAGGAT
1 AACAAG-TAAAATGTTGTGACACGCCATGCAT
** *
13500449 AATGAGCAAAATGTTGTGACACGCCATGCAT
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* * * *
13500480 AACAAGATAAACT-TGGTGACACGCCAAGGAT
1 AACAAG-TAAAATGTTGTGACACGCCATGCAT
* *
13500511 AACAAGCAAAATGTTGTGACACACCATGCAT
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* * * * *
13500542 ATCAAATCAAACGTTGTGACACGCCATGAAT
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* *
13500573 AATAAGTAAAATGTTATGACA
1 AACAAGTAAAATGTTGTGACA
13500594 TGCTAAGGCT
Statistics
Matches: 181, Mismatches: 50, Indels: 13
0.74 0.20 0.05
Matches are distributed among these distances:
30 14 0.08
31 155 0.86
32 12 0.07
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (31 bp):
AACAAGTAAAATGTTGTGACACGCCATGCAT
Found at i:13501236 original size:156 final size:155
Alignment explanation
Indices: 13500949--13501407 Score: 623
Period size: 156 Copynumber: 2.9 Consensus size: 155
13500939 CGACTGGGTC
* * *
13500949 AACTACAATAACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCG
1 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTG
* * * * ** * *
13501014 TTACAACTTTAATATCCTAATCGGCTGCTCGTTCGTAGTTTGTGGTGGAGCCGGACAGATCAGTG
66 TTACAACTTTAATATCCTAACCGGCGGCTCGTTCGCAGTTTGCGGTGGAG-ATGACCGATCGGTG
* *
13501079 CTTGAGAACCTGTCGTCACTTTTGCA
130 CTTGAGGACCTGTCGTCACTTTCGCA
13501105 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTG
1 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTG
*
13501170 TTACAACTTTAATATACTAACCGGCGGCTCGTTCGCAGTTTGCGGTGGAGATAGACCGATCGGTG
66 TTACAACTTTAATATCCTAACCGGCGGCTCGTTCGCAGTTTGCGGTGGAGAT-GACCGATCGGTG
* *
13501235 CTTGAGGACCTGTCATCGCTTTCGCA
130 CTTGAGGACCTGTCGTCACTTTCGCA
* *
13501261 AACTGCAATTACATATATAACTATGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTG
1 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTG
* * * * * * * * *
13501326 CTACAACTTTAATATCCGT-ACTGTCGGCTTGTTAGCTGTTTGCGATTGAGCATGACCGATAGGT
66 TTACAACTTTAATATCC-TAACCGGCGGCTCGTTCGCAGTTTGCGGTGGAG-ATGACCGATCGGT
*
13501390 GCTTGAGGACCTATCGTC
129 GCTTGAGGACCTGTCGTC
13501408 GCTTCCATAA
Statistics
Matches: 270, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
156 267 0.99
157 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (155 bp):
AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTG
TTACAACTTTAATATCCTAACCGGCGGCTCGTTCGCAGTTTGCGGTGGAGATGACCGATCGGTGC
TTGAGGACCTGTCGTCACTTTCGCA
Found at i:13501474 original size:156 final size:156
Alignment explanation
Indices: 13500965--13501474 Score: 434
Period size: 156 Copynumber: 3.3 Consensus size: 156
13500955 AATAACATAT
* * * * * * *
13500965 ATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTTAATATC
1 ATAACTATGTTACTCAATAAACATATATGGAATTGTAGAACATTAACTGCTACAACTTTAATATA
* * * * * * *** * * * *
13501030 CTAATCGGCTGCTCGTTCGTAGTTTGTGGTGGAGCCGGACAGATCA-GTGCTTGAGAACCTGTCG
66 CTAACCGGCGGCTCGTTAGCAGTTTGCGATGGAGATAGACCGAT-AGGTGCTTGAGGACCTATCA
* *** * * *
13501094 TCACTTTTGCAAACTACAATTACATAT
130 TCGCTTCCACAAACTGCAATTACAAAA
* * * * * *
13501121 ATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTGTTACAACTTTAATATA
1 ATAACTATGTTACTCAATAAACATATATGGAATTGTAGAACATTAACTGCTACAACTTTAATATA
* * * *
13501186 CTAACCGGCGGCTCGTTCGCAGTTTGCGGTGGAGATAGACCGATCGGTGCTTGAGGACCTGTCAT
66 CTAACCGGCGGCTCGTTAGCAGTTTGCGATGGAGATAGACCGATAGGTGCTTGAGGACCTATCAT
* * * *
13501251 CGCTTTCGCAAACTGCAATTACATAT
131 CGCTTCCACAAACTGCAATTACAAAA
* * * * *
13501277 ATAACTATGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTGCTACAACTTTAATATC
1 ATAACTATGTTACTCAATAAACATATATGGAATTGTAGAACATTAACTGCTACAACTTTAATATA
* * * * *
13501342 CGT-ACTGTCGGCTTGTTAGCTGTTTGCGATTGAGCAT-GACCGATAGGTGCTTGAGGACCTATC
66 C-TAACCGGCGGCTCGTTAGCAGTTTGCGATGGAG-ATAGACCGATAGGTGCTTGAGGACCTATC
* * *
13501405 GTCGCTTCCATAAACTGTAATTACAAAA
129 ATCGCTTCCACAAACTGCAATTACAAAA
* * * *
13501433 ATTACTGTGTTACTCGATAAACATATGTGGTAA-TGTAGAACA
1 ATAACTATGTTACTCAATAAACATATATGG-AATTGTAGAACA
13501475 CAAACCGTTA
Statistics
Matches: 306, Mismatches: 44, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
156 301 0.98
157 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (156 bp):
ATAACTATGTTACTCAATAAACATATATGGAATTGTAGAACATTAACTGCTACAACTTTAATATA
CTAACCGGCGGCTCGTTAGCAGTTTGCGATGGAGATAGACCGATAGGTGCTTGAGGACCTATCAT
CGCTTCCACAAACTGCAATTACAAAA
Found at i:13503224 original size:31 final size:31
Alignment explanation
Indices: 13503077--13503342 Score: 263
Period size: 31 Copynumber: 8.6 Consensus size: 31
13503067 AATAAGGAAT
* *
13503077 AAATGTTGTGACACACCATGCAT-TGCAA-TCA
1 AAATGTTGTCACACGCCATGCATAT-CAAGT-A
* * **
13503108 AAATGTTATGACACGCCATGCAT-TGCAAACA
1 AAATGTTGTCACACGCCATGCATAT-CAAGTA
* * * *
13503139 AAATGTTATGACACGCCATGCATAACAAGTT
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* * *
13503170 AAACGTTATGACACGCCATGCATATCAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
13503201 AAATGCTGTCACACGCCATGCATAACAAG-A
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
13503231 AAA-GTTCTGTGACATGCCATGCATATCAAGTA
1 AAATG-T-TGTCACACGCCATGCATATCAAGTA
* *
13503263 AAATGCTGTCACATGCCATGCATATCAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
13503294 CAATGTTGTCACACGCTATGCATATCAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
13503325 AAATGTTGTCACACGCCA
1 AAATGTTGTCACACGCCA
13503343 ATAATAACTA
Statistics
Matches: 202, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.00
30 4 0.02
31 192 0.95
32 4 0.02
33 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (31 bp):
AAATGTTGTCACACGCCATGCATATCAAGTA
Found at i:13503884 original size:53 final size:52
Alignment explanation
Indices: 13503808--13503926 Score: 175
Period size: 53 Copynumber: 2.3 Consensus size: 52
13503798 TCTATTTCAA
* *
13503808 ACCATGACGTGTCAGCTGCTCAAGCACTGCCATGTCACACACTCTAAACCATG
1 ACCATGGCGTGTCAGCTGCTCAAGCAATGCCATGTCACACACTCTAAA-CATG
* ** *
13503861 ACCATGGCGTGTCATCTTTTCAAGCAATGCCGTGTCACACACTCTAAACATG
1 ACCATGGCGTGTCAGCTGCTCAAGCAATGCCATGTCACACACTCTAAACATG
13503913 ACCATGGCGTGTCA
1 ACCATGGCGTGTCA
13503927 CCAACTCTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
52 18 0.30
53 42 0.70
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (52 bp):
ACCATGGCGTGTCAGCTGCTCAAGCAATGCCATGTCACACACTCTAAACATG
Found at i:13503985 original size:47 final size:47
Alignment explanation
Indices: 13503914--13504333 Score: 424
Period size: 47 Copynumber: 9.0 Consensus size: 47
13503904 CTAAACATGA
* *
13503914 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACA-ACTTCCCT
1 CCATGGCGTCTCACCAACTTTGAACTCTGGCGTGTCACAGA-TTCCCT
* * * * *
13503961 CCATGGCATGTCACCAACTTTGAACTTTGGCATGTCATAGATTCCCT
1 CCATGGCGTCTCACCAACTTTGAACTCTGGCGTGTCACAGATTCCCT
* * *
13504008 CCATGGCGTCTCACCAACTCTGAACGCTAGCGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTTTGAACTCTGGCGTGTCACAGATTCCCT
* * * *
13504055 CCATAGCGTATCACCAACTCTT-AACTCTAGCGTCTCACAGATTCCCT
1 CCATGGCGTCTCACCAACT-TTGAACTCTGGCGTGTCACAGATTCCCT
* * *
13504102 CCATGGCGTCTCACCAACTCTGAA-TGCTGACGTGTCATAGATTCCCT
1 CCATGGCGTCTCACCAACTTTGAACT-CTGGCGTGTCACAGATTCCCT
* *
13504149 CCAT-GCTGTGTCACCAACTCTT-AA-TCTGGCGTGTCACAAATTCCCT
1 CCATGGC-GTCTCACCAACT-TTGAACTCTGGCGTGTCACAGATTCCCT
* * * * * *
13504195 CCATGGCGTCTCA-CAACTCTAAACGCTGCCATGTCACAGATTCCCA
1 CCATGGCGTCTCACCAACTTTGAACTCTGGCGTGTCACAGATTCCCT
* * *
13504241 CCATGGCGTGTCACCAACTCTT-AACTCTAGCGTCTCACAGATTCCCT
1 CCATGGCGTCTCACCAACT-TTGAACTCTGGCGTGTCACAGATTCCCT
* * ** * *
13504288 CCATGGCATCTCACCAACTTTGAGCGGTGTCGTGTCACACATTCCC
1 CCATGGCGTCTCACCAACTTTGAACTCTGGCGTGTCACAGATTCCC
13504334 AACATGATGT
Statistics
Matches: 307, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.00
45 7 0.02
46 62 0.20
47 233 0.76
48 4 0.01
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (47 bp):
CCATGGCGTCTCACCAACTTTGAACTCTGGCGTGTCACAGATTCCCT
Found at i:13504028 original size:94 final size:94
Alignment explanation
Indices: 13503914--13504333 Score: 535
Period size: 94 Copynumber: 4.5 Consensus size: 94
13503904 CTAAACATGA
* * *
13503914 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACA-ACTTCCCTCCATGGCATGTCACCAA
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGA-TTCCCTCCATGGCGTGTCACCAA
* * * * *
13503978 CT-TTGAACTTTGGCATGTCATAGATTCCCT
65 CTCTT-AACTCTAGCGTCTCACAGATTCCCT
* * *
13504008 CCATGGCGTCTCACCAACTCTGAACGCTAGCGTGTCACAGATTCCCTCCATAGCGTATCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAAC
13504073 TCTTAACTCTAGCGTCTCACAGATTCCCT
66 TCTTAACTCTAGCGTCTCACAGATTCCCT
* * *
13504102 CCATGGCGTCTCACCAACTCTGAATGCTGACGTGTCATAGATTCCCTCCAT-GCTGTGTCACCAA
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGC-GTGTCACCAA
* * *
13504166 CTCTTAA-TCTGGCGTGTCACAAATTCCCT
65 CTCTTAACTCTAGCGTCTCACAGATTCCCT
* * * *
13504195 CCATGGCGTCTCA-CAACTCTAAACGCTGCCATGTCACAGATTCCCACCATGGCGTGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAAC
13504259 TCTTAACTCTAGCGTCTCACAGATTCCCT
66 TCTTAACTCTAGCGTCTCACAGATTCCCT
* * * * * *
13504288 CCATGGCATCTCACCAACTTTGAGCGGTGTCGTGTCACACATTCCC
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCC
13504334 AACATGATGT
Statistics
Matches: 284, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
92 48 0.17
93 67 0.24
94 166 0.58
95 3 0.01
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (94 bp):
CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAAC
TCTTAACTCTAGCGTCTCACAGATTCCCT
Found at i:13504281 original size:186 final size:188
Alignment explanation
Indices: 13503914--13504306 Score: 566
Period size: 186 Copynumber: 2.1 Consensus size: 188
13503904 CTAAACATGA
* *
13503914 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAACTTCCCTCCATGGCATGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAACTTCCCTCCATGGCATGTCACCAAC
* * * * *
13503979 TTTGAACTTTGGCATGTCATAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGCTAGCGTGTC
66 TTTGAACTCTGGCATGTCACAAATTCCCTCCATGGCGTCTCACCAACTCTAAACGCTAGCATGTC
*
13504044 ACAGATTCCCTCCATAGCGTATCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
131 ACAGATTCCCACCATAGCGTATCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
* *
13504102 CCATGGCGTCTCACCAACTCTGAA-TGCTGACGTGTCATAGA-TTCCCTCCAT-GCTGTGTCACC
1 CCATGGCGTCTCACCAACTCTGAACT-CTGACGTGTCACA-ACTTCCCTCCATGGC-ATGTCACC
*
13504164 AACTCTT-AA-TCTGGCGTGTCACAAATTCCCTCCATGGCGTCTCA-CAACTCTAAACGCT-GCC
63 AACT-TTGAACTCTGGCATGTCACAAATTCCCTCCATGGCGTCTCACCAACTCTAAACGCTAG-C
* *
13504225 ATGTCACAGATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
126 ATGTCACAGATTCCCACCATAGCGTATCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
*
13504288 CCATGGCATCTCACCAACT
1 CCATGGCGTCTCACCAACT
13504307 TTGAGCGGTG
Statistics
Matches: 186, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
185 1 0.01
186 91 0.49
187 34 0.18
188 57 0.31
189 3 0.02
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.27
Consensus pattern (188 bp):
CCATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAACTTCCCTCCATGGCATGTCACCAAC
TTTGAACTCTGGCATGTCACAAATTCCCTCCATGGCGTCTCACCAACTCTAAACGCTAGCATGTC
ACAGATTCCCACCATAGCGTATCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
Found at i:13514234 original size:60 final size:60
Alignment explanation
Indices: 13514131--13514421 Score: 367
Period size: 60 Copynumber: 4.9 Consensus size: 60
13514121 AAACATCATC
* * * *
13514131 ACCTATTCATGGGAACTACGCAC-TCCACC--ATATGAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGT-CACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * * * *
13514189 GCCTACTCGGGGGAATTACCCACATCACCAAATATAAATCGGGGCTTTAGGTCCCCCTTA
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
13514249 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * * *
13514309 GCCTACTCGTGGGAATTACCTACGTCACCAAATATAAATCGAGGCTTCAGGTCGCCCTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * *
13514369 ACCTACTCGTGGGAACTGCCCACGCCACC--ATATTAATCGGGGCTTCAAGTCCC
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCC
13514422 ACTATAAAAT
Statistics
Matches: 201, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
58 41 0.20
59 1 0.00
60 159 0.79
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
Found at i:13514342 original size:120 final size:118
Alignment explanation
Indices: 13514131--13514421 Score: 413
Period size: 120 Copynumber: 2.4 Consensus size: 118
13514121 AAACATCATC
* * * *
13514131 ACCTATTCATGGGAACTACGCAC-TCCACCATATGAATCGGGGCTTCAGGTCCCCCTTTGCCTAC
1 ACCTACTCGTGGGAACTACCCACGT-CACCATATAAATCGGGGCTTCAGGTCCCCCTTTGCCTAC
* *
13514195 TCGGGGGAATTACCCACATCACCAAATATAAATCGGGGCTTTAGGTCCCCCTTA
65 TCGGGGGAATTACCCACATCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTA
13514249 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTGCCTA
1 ACCTACTCGTGGGAACTACCCACGTCACC--ATATAAATCGGGGCTTCAGGTCCCCCTTTGCCTA
* * * * *
13514314 CTCGTGGGAATTACCTACGTCACCAAATATAAATCGAGGCTTCAGGTCGCCCTTT
64 CTCGGGGGAATTACCCACATCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTA
* * * *
13514369 ACCTACTCGTGGGAACTGCCCACGCCACCATATTAATCGGGGCTTCAAGTCCC
1 ACCTACTCGTGGGAACTACCCACGTCACCATATAAATCGGGGCTTCAGGTCCC
13514422 ACTATAAAAT
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
118 46 0.30
119 1 0.01
120 108 0.70
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (118 bp):
ACCTACTCGTGGGAACTACCCACGTCACCATATAAATCGGGGCTTCAGGTCCCCCTTTGCCTACT
CGGGGGAATTACCCACATCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTA
Found at i:13515055 original size:25 final size:26
Alignment explanation
Indices: 13515025--13515081 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
13515015 GTGCTCCCTC
*
13515025 TTTTCTTCT-CCTTCTTTTTCTTT-CT
1 TTTTCTTCTGCC-TCTTTCTCTTTCCT
*
13515050 TTTTCTTTTGCCTCTTTCTCTTTCCT
1 TTTTCTTCTGCCTCTTTCTCTTTCCT
13515076 TTTTCT
1 TTTTCT
13515082 GCTCTATCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTCTTCTGCCTCTTTCTCTTTCCT
Found at i:13515133 original size:15 final size:14
Alignment explanation
Indices: 13515105--13515139 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13515095 CTCTCTCTCC
13515105 TTTCTTTTTATCTT
1 TTTCTTTTTATCTT
*
13515119 TTTCTTTTTCTTCTT
1 TTTCTTTTT-ATCTT
13515134 TTTCTT
1 TTTCTT
13515140 CTCTCTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTATCTT
Found at i:13523358 original size:15 final size:15
Alignment explanation
Indices: 13523338--13523369 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13523328 GATGGAGTCT
13523338 TAATTTACAATTAAG
1 TAATTTACAATTAAG
13523353 TAATTTACAATTAAG
1 TAATTTACAATTAAG
13523368 TA
1 TA
13523370 GCCTTTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TAATTTACAATTAAG
Found at i:13529522 original size:35 final size:35
Alignment explanation
Indices: 13529483--13529552 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
13529473 ACTCAGCTTT
*
13529483 TGTGCACTCCTTACACGCACATTTCAATATCATCA
1 TGTGCACTCCCTACACGCACATTTCAATATCATCA
13529518 TGTGCACTCCCTACACGCACATTTCAATATCATCA
1 TGTGCACTCCCTACACGCACATTTCAATATCATCA
13529553 CACGTATTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.30
Consensus pattern (35 bp):
TGTGCACTCCCTACACGCACATTTCAATATCATCA
Found at i:13537823 original size:17 final size:17
Alignment explanation
Indices: 13537801--13537837 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13537791 AAATGAGGAT
13537801 TGCTCCCCCTAAGTGAG
1 TGCTCCCCCTAAGTGAG
* *
13537818 TGCTCCCCCTTAGTGTG
1 TGCTCCCCCTAAGTGAG
13537835 TGC
1 TGC
13537838 ATATTTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.35, G:0.24, T:0.30
Consensus pattern (17 bp):
TGCTCCCCCTAAGTGAG
Found at i:13537913 original size:2 final size:2
Alignment explanation
Indices: 13537906--13537934 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13537896 ACATTTAGAG
13537906 TA 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 TA T
13537935 GTAGATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13548203 original size:2 final size:2
Alignment explanation
Indices: 13548191--13548224 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13548181 ACCGTATACC
*
13548191 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13548225 CAATCATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13548256 original size:23 final size:23
Alignment explanation
Indices: 13548227--13548275 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
13548217 ATATATATCA
* *
13548227 ATCATCATGTACACCATCCCGTC
1 ATCATCATGCACACCATCCCATC
*
13548250 ATCATCATGCACATCATCCCATC
1 ATCATCATGCACACCATCCCATC
13548273 ATC
1 ATC
13548276 CCCAACTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.39, G:0.06, T:0.27
Consensus pattern (23 bp):
ATCATCATGCACACCATCCCATC
Found at i:13556995 original size:39 final size:39
Alignment explanation
Indices: 13556940--13557033 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
13556930 AGCGAGATTC
* * * *
13556940 TTTCTCGCTACGGCGAAATT-GTAACCCAAAAACAGAAGG
1 TTTCTCGCTGCAGCGAAATTACT-ACCCAAAAACAGAAAG
*
13556979 TTTCTCGCTGCAGCGAAATTACTACCCAGAAACAGAAAG
1 TTTCTCGCTGCAGCGAAATTACTACCCAAAAACAGAAAG
13557018 TTTCTCGCTGCAGCGA
1 TTTCTCGCTGCAGCGA
13557034 GAATGTATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 48 0.98
40 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (39 bp):
TTTCTCGCTGCAGCGAAATTACTACCCAAAAACAGAAAG
Found at i:13557473 original size:43 final size:43
Alignment explanation
Indices: 13557425--13557534 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
13557415 TCACCAGCTC
** ** **
13557425 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGACTT
13557468 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGACTT
13557511 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
13557535 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGACTT
Found at i:13559674 original size:25 final size:24
Alignment explanation
Indices: 13559626--13559680 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
13559616 GTCGCAATCG
* *
13559626 CGTATATCACTCGTGGCCTAGCCA
1 CGTATATCACCCATGGCCTAGCCA
*
13559650 CGTATATCATCCCATGGCCTTGCCA
1 CGTATATCA-CCCATGGCCTAGCCA
*
13559675 CATATA
1 CGTATA
13559681 ACCACAGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (24 bp):
CGTATATCACCCATGGCCTAGCCA
Found at i:13560969 original size:4 final size:4
Alignment explanation
Indices: 13560960--13561013 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
13560950 CGTTTCATCA
*
13560960 TCAT TCAT TCA- TCAT TCA- TCAT TCAT CCAT TCATT TCA- TCA- TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCA-T TCAT TCAT TCAT
13561005 TCAT TCAT T
1 TCAT TCAT T
13561014 TTTTACCTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 12 0.27
4 28 0.64
5 4 0.09
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (4 bp):
TCAT
Found at i:13561012 original size:11 final size:10
Alignment explanation
Indices: 13560953--13561008 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
13560943 ATTCTTTCGT
13560953 TTCATCATCA
1 TTCATCATCA
13560963 TTCATTCATCA
1 TTCA-TCATCA
13560974 TTCATCATTCA
1 TTCATCA-TCA
*
13560985 TCCAT--TCA
1 TTCATCATCA
13560993 TTTCATCATCA
1 -TTCATCATCA
13561004 TTCAT
1 TTCAT
13561009 TCATTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.08
9 4 0.10
10 12 0.31
11 20 0.51
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCATCATCA
Found at i:13561458 original size:12 final size:13
Alignment explanation
Indices: 13561429--13561461 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13561419 CTTTCCCTCT
13561429 TTTCTCTCTTTAC
1 TTTCTCTCTTTAC
*
13561442 TTTCTCT-TTTTC
1 TTTCTCTCTTTAC
13561454 TTTCTCTC
1 TTTCTCTC
13561462 AGGTGGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTCTCTCTTTAC
Found at i:13569304 original size:55 final size:55
Alignment explanation
Indices: 13569214--13569420 Score: 254
Period size: 55 Copynumber: 3.8 Consensus size: 55
13569204 CCCGTGGCTT
* * * * * *
13569214 ATCAGTTCATGTGCACTCACACACTATACATAGCTGGAATTATCATCCACTGGTC
1 ATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCATCCACTAGTC
* *
13569269 ATTAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCATCCACCAGTC
1 ATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCATCCACTAGTC
* * *
13569324 ATCAGCTCATGTGCACTCCCACATCGCACATAGCTAGAATCATCATCCA-TCAGTC
1 ATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCATCCACT-AGTC
* ** **
13569379 ATCAACTCATGTGCACTTGCACACTGCACATAGCTGGAATCA
1 ATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCA
13569421 CCCGTCATCA
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
55 132 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (55 bp):
ATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCATCCACTAGTC
Found at i:13569528 original size:14 final size:14
Alignment explanation
Indices: 13569492--13569521 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13569482 TATTATCATT
13569492 CAAAGCACAACATA
1 CAAAGCACAACATA
13569506 CAAAGCACAACATA
1 CAAAGCACAACATA
13569520 CA
1 CA
13569522 TATCACATAA
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:0.57, C:0.30, G:0.07, T:0.07
Consensus pattern (14 bp):
CAAAGCACAACATA
Found at i:13575536 original size:9 final size:9
Alignment explanation
Indices: 13575522--13575546 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13575512 AATCTCCTTG
13575522 AATTCTTCA
1 AATTCTTCA
13575531 AATTCTTCA
1 AATTCTTCA
13575540 AATTCTT
1 AATTCTT
13575547 ATTAGCTTCA
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:0.20, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTCTTCA
Found at i:13580821 original size:28 final size:28
Alignment explanation
Indices: 13580738--13580956 Score: 215
Period size: 29 Copynumber: 7.6 Consensus size: 28
13580728 TGGCAGCTTT
* *
13580738 AACAAGTTTATCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
13580766 AACATGTTATGTCTTAATTTAGATAAGAA
1 AACATGTT-TGTCTTAATTTAGACAAGAA
* *
13580795 AAAATGTTTATCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* * *
13580823 ATCATGTTTGGTATTAACTTAGACAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* * *
13580852 AATATGTTTGCCTTAATTCAAGACAAGAA
1 AACATGTTTGTCTTAATT-TAGACAAGAA
* * *
13580881 GA-ATAGTTTGTCTTAATCTAGACACGAA
1 AACAT-GTTTGTCTTAATTTAGACAAGAA
* *
13580909 AACATATTTGTCTCAATTTAGACAAGATGA
1 AACATGTTTGTCTTAATTTAGACAAGA--A
* *
13580939 AATATTTTTGTCTTAATT
1 AACATGTTTGTCTTAATT
13580957 AAAGATAAGA
Statistics
Matches: 154, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
28 67 0.44
29 71 0.46
30 16 0.10
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:13580845 original size:57 final size:57
Alignment explanation
Indices: 13580743--13580935 Score: 187
Period size: 57 Copynumber: 3.4 Consensus size: 57
13580733 GCTTTAACAA
* * *
13580743 GTTTATCTTAATTTAGACAAGAAAACATGTTATGTCTTAATTTAGATAAGAAAAAAT
1 GTTTATCTTAATTTAGACAAGAAAACATGTTATGTATTAACTTAGACAAGAAAAAAT
* *
13580800 GTTTATCTTAATTTAGACAAGAAATCATGTT-TGGTATTAACTTAGACAAGAAAATAT
1 GTTTATCTTAATTTAGACAAGAAAACATGTTAT-GTATTAACTTAGACAAGAAAAAAT
** * * * * *
13580857 GTTTGCCTTAATTCAAGACAAGAAGA-ATAGTT-TGTCTTAA-TCTAGACACGAAAACAT
1 GTTTATCTTAATT-TAGACAAGAAAACAT-GTTATGTATTAACT-TAGACAAGAAAAAAT
* * *
13580914 ATTTGTCTCAATTTAGACAAGA
1 GTTTATCTTAATTTAGACAAGA
13580936 TGAAATATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
56 10 0.09
57 92 0.80
58 13 0.11
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (57 bp):
GTTTATCTTAATTTAGACAAGAAAACATGTTATGTATTAACTTAGACAAGAAAAAAT
Found at i:13589262 original size:38 final size:39
Alignment explanation
Indices: 13589172--13589277 Score: 128
Period size: 38 Copynumber: 2.7 Consensus size: 39
13589162 CACACCCGGC
* *
13589172 TCATGTACATCCCTCCACATCGTGCACATAGCCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAGG-ACCA
*
13589212 TCATGTGA-ATCCCCCCACATCGTGCACA-ATCAGTG-CCA
1 TCATGT-ACATCCCCCCACATCGTGCACATAGCAG-GACCA
*
13589250 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
13589278 CGGGCACTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.02
38 28 0.47
39 3 0.05
40 26 0.44
41 1 0.02
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.21
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCAGGACCA
Found at i:13592404 original size:38 final size:39
Alignment explanation
Indices: 13592362--13592464 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 39
13592352 ATATTGCCCG
*
13592362 TGTGCACGATGTGGGGGGATGCACACGATGGCATT-AAC-
1 TGTGCACGATGTGGGGGGATGCACACGATGAC-TTCAACA
*
13592400 TGTGCACGATGTGGGGGGATACACACGATGACTTCAACTA
1 TGTGCACGATGTGGGGGGATGCACACGATGACTTCAAC-A
* *
13592440 TGTGCACAATGTTGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
13592465 TGAACTGGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.04
38 33 0.58
40 22 0.39
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.22
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACTTCAACA
Found at i:13592514 original size:54 final size:53
Alignment explanation
Indices: 13592436--13592580 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 53
13592426 GATGACTTCA
* * *
13592436 ACTATGTGCACAATGTTGGGGGATGCACATGAACTGGGTGAGAT-GGGATGTCTG
1 ACTATGTGCACGATG-TGGGGGATGCACATGAGCTGGGTGAGATAGGG-TGTCCG
*
13592490 GCTATGTGCACGATGTGGGAGGATGCACATGAGCTGGGTGAGATAGGGTGTCCG
1 ACTATGTGCACGATGTGGG-GGATGCACATGAGCTGGGTGAGATAGGGTGTCCG
13592544 ACTATGTGCACGATGTGAGGGGATGCACATGAGCTGG
1 ACTATGTGCACGATGTG-GGGGATGCACATGAGCTGG
13592581 ATGAAATGCG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
53 4 0.05
54 74 0.89
55 5 0.06
ACGTcount: A:0.23, C:0.14, G:0.39, T:0.23
Consensus pattern (53 bp):
ACTATGTGCACGATGTGGGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCG
Found at i:13607688 original size:25 final size:26
Alignment explanation
Indices: 13607647--13607697 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
13607637 TTGTGCAAAA
*
13607647 TATGATAAGCAAGGTGA-AAAAAAGT
1 TATGATAAGCAAAGTGAGAAAAAAGT
*
13607672 TATGAT-AGCATAAGTGAGGAAAAAGT
1 TATGATAAGCA-AAGTGAGAAAAAAGT
13607698 GACACTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 11 0.50
26 7 0.32
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.22
Consensus pattern (26 bp):
TATGATAAGCAAAGTGAGAAAAAAGT
Found at i:13616381 original size:39 final size:38
Alignment explanation
Indices: 13616310--13616383 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
13616300 TCTAATAGCA
* *
13616310 CCTATAAATGATATTCAATGATGAATACTCTCAAACTC
1 CCTATAAATGATATTCAATCATCAATACTCTCAAACTC
* *
13616348 CCTATAAAATGATATTTAATCATCAATATTCTCAAA
1 CCTAT-AAATGATATTCAATCATCAATACTCTCAAA
13616384 AACTCCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 5 0.16
39 26 0.84
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (38 bp):
CCTATAAATGATATTCAATCATCAATACTCTCAAACTC
Found at i:13616958 original size:72 final size:72
Alignment explanation
Indices: 13616823--13616959 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 72
13616813 AGGTTTTGCG
* * *
13616823 TTTCACCCATTTTCCCTTCACAAGATCGACTATAAAGGGCCTATAGTCAATCTTAGACTAGAATG
1 TTTCACCCATTTTCCCTTCACAAGATCGACTATAAAGGGCCTATAGTAAATCTCAGACCAGAATG
13616888 TCCACTT
66 TCCACTT
* * * * * *
13616895 TTTCACTCATTTTTCCTTCATAGGATCGACTATATAGGGTCTATAGTAAATC-CAGGACCAGAAT
1 TTTCACCCATTTTCCCTTCACAAGATCGACTATAAAGGGCCTATAGTAAATCTCA-GACCAGAAT
13616959 G
65 G
13616960 CCTATATTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (72 bp):
TTTCACCCATTTTCCCTTCACAAGATCGACTATAAAGGGCCTATAGTAAATCTCAGACCAGAATG
TCCACTT
Found at i:13618899 original size:83 final size:83
Alignment explanation
Indices: 13618774--13618974 Score: 330
Period size: 83 Copynumber: 2.4 Consensus size: 83
13618764 TCCCACACCG
* * *
13618774 CACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCAACTCGCACATAGCTAGGTCATCATCAT
1 CACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCAACTCGCACATAGCTAGGTCATCATCAG
13618839 CTCATGTGTACTCCTCCA
66 CTCATGTGTACTCCTCCA
* *
13618857 CACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCATTAG
1 CACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCAACTCGCACATAGCTAGGTCATCATCAG
*
13618922 GTCATGTGTACTCCTCCA
66 CTCATGTGTACTCCTCCA
* *
13618940 CACATGGTTGGGTTATCATCAGCTCATGTGCACTC
1 CACATGGCTGGGTCATCATCAGCTCATGTGCACTC
13618975 TTACACTGCA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 110 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (83 bp):
CACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCAACTCGCACATAGCTAGGTCATCATCAG
CTCATGTGTACTCCTCCA
Found at i:13618987 original size:126 final size:126
Alignment explanation
Indices: 13618749--13618998 Score: 292
Period size: 126 Copynumber: 2.0 Consensus size: 126
13618739 CAACTCTTTC
*
13618749 TCAGCTTATGTGCACTCCCACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCAAC
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCAAC
* * * *
13618814 TCGCACATAGCTAGGTCATCATCATCTCATGTGTACTCCTCCACACATGGCTGGGTCATCA
66 TCACACATAGCTAGGTCATCATCAGCTCATGTGCACTCCTCCACACATGACTGGGTCATCA
* * * * *
13618875 TCAGCTCATGTGCACTCCCTAC-TCGCACATAGCTAGGTCATCATTAGGTCATGTGTACT-CC-T
1 TCAGCTCATGTGCACTCCC-ACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCAA
* * * * * *
13618937 C-CACACATGGTTGGGTTATCATCAGCTCATGTGCACTCTTACACTGCACATGACTGGGTCAT
65 CTCACACATAGCTAGGTCATCATCAGCTCATGTGCACTCCT-C-C-ACACATGACTGGGTCAT
13618999 AATTATCACA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
123 31 0.30
124 2 0.02
125 3 0.03
126 66 0.63
127 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.28
Consensus pattern (126 bp):
TCAGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCAAC
TCACACATAGCTAGGTCATCATCAGCTCATGTGCACTCCTCCACACATGACTGGGTCATCA
Found at i:13618995 original size:43 final size:42
Alignment explanation
Indices: 13618749--13618987 Score: 243
Period size: 43 Copynumber: 5.7 Consensus size: 42
13618739 CAACTCTTTC
* *
13618749 TCAGCTTATGTGCACTCCCACACCGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTCCTACA-CGCACATAGCTAGGTCATCA
* *
13618792 TCAGCTCATGTGCACTCCCAACTCGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACT-CCTACACGCACATAGCTAGGTCATCA
* * * * *
13618835 TCATCTCATGTGTACTCCT-C-CACACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACGCACATAGCTAGGTCATCA
*
13618875 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACT-CCTACACGCACATAGCTAGGTCATCA
* * * * * * * *
13618918 TTAGGTCATGTGTACTCCT-C-CACACATGGTTGGGTTATCA
1 TCAGCTCATGTGCACTCCTACACGCACATAGCTAGGTCATCA
*
13618958 TCAGCTCATGTGCACTCTTACACTGCACAT
1 TCAGCTCATGTGCACTCCTACAC-GCACAT
13618988 GACTGGGTCA
Statistics
Matches: 162, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
40 61 0.38
41 6 0.04
42 7 0.04
43 84 0.52
44 4 0.02
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (42 bp):
TCAGCTCATGTGCACTCCTACACGCACATAGCTAGGTCATCA
Found at i:13624434 original size:49 final size:49
Alignment explanation
Indices: 13624381--13624492 Score: 154
Period size: 49 Copynumber: 2.3 Consensus size: 49
13624371 TAATATTGTG
** * *
13624381 TGATGAT-ATTGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTAA
1 TGATGATGA-TGACCCAACTATGTGCGAGTAGGGAGTACGCATAAGCCAA
*
13624430 TGATGATGATGACCCAACTATGTGCGAGTAGGGAGTACGCATAAGCCGA
1 TGATGATGATGACCCAACTATGTGCGAGTAGGGAGTACGCATAAGCCAA
*
13624479 TGATGATTATGACC
1 TGATGATGATGACC
13624493 TAGCTGTGAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 55 0.98
50 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (49 bp):
TGATGATGATGACCCAACTATGTGCGAGTAGGGAGTACGCATAAGCCAA
Found at i:13625053 original size:21 final size:21
Alignment explanation
Indices: 13625021--13625062 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13625011 TTTGGCCACT
*
13625021 TGAATCTTGCTGCAGTGAGAA
1 TGAATCTTGCTGCAGCGAGAA
13625042 TGAA-CTTCGCTGCAGCGAGAA
1 TGAATCTT-GCTGCAGCGAGAA
13625063 AGTTGTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
TGAATCTTGCTGCAGCGAGAA
Found at i:13636087 original size:15 final size:15
Alignment explanation
Indices: 13636051--13636087 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13636041 AATGTGGCCC
13636051 CAAGTTAAGTTAAGT
1 CAAGTTAAGTTAAGT
*
13636066 TAAGTTAAGTTAAGT
1 CAAGTTAAGTTAAGT
*
13636081 CAGGTTA
1 CAAGTTA
13636088 GGTTGAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (15 bp):
CAAGTTAAGTTAAGT
Found at i:13636091 original size:5 final size:5
Alignment explanation
Indices: 13636052--13636080 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13636042 ATGTGGCCCC
13636052 AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
13636081 CAGGTTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
AAGTT
Found at i:13647477 original size:43 final size:43
Alignment explanation
Indices: 13647409--13647521 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
13647399 GCTCATGCGT
* **
13647409 ACTCCCTACTCGCACATGGTTGGGTCATCGCCGAG-TTATGAGC
1 ACTCCCTACTCGCACATAGCCGGGTCATC-CCGAGCTTATGAGC
* ** **
13647452 ACTCCCTACTCGCACATAACCGGGTCATCCTTAGCTTATGCTC
1 ACTCCCTACTCGCACATAGCCGGGTCATCCCGAGCTTATGAGC
* *
13647495 ACTCTCTACTCGCACATAGCCGAGTCA
1 ACTCCCTACTCGCACATAGCCGGGTCA
13647522 ATGTCATTAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 3 0.05
43 55 0.95
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.26
Consensus pattern (43 bp):
ACTCCCTACTCGCACATAGCCGGGTCATCCCGAGCTTATGAGC
Found at i:13655570 original size:22 final size:22
Alignment explanation
Indices: 13655545--13655587 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13655535 CTTCCAAATT
*
13655545 GATTTTCAATGCAGCAAGAATG
1 GATTTTCAATGCAACAAGAATG
* *
13655567 GATTTTCGATGTAACAAGAAT
1 GATTTTCAATGCAACAAGAAT
13655588 CTTTCAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (22 bp):
GATTTTCAATGCAACAAGAATG
Found at i:13667284 original size:19 final size:19
Alignment explanation
Indices: 13667244--13667285 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13667234 AAACCTAAGG
* *
13667244 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
13667263 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
13667282 AATA
1 AATA
13667286 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:13667533 original size:20 final size:21
Alignment explanation
Indices: 13667502--13667545 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
13667492 GGCATAAATA
*
13667502 TCTAAGTTTCTAGCAATTTCT
1 TCTAAGTTTCTAGCAACTTCT
13667523 TCTAA-TTTCTAGCAACTTCT
1 TCTAAGTTTCTAGCAACTTCT
13667543 TCT
1 TCT
13667546 TTTTCTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (21 bp):
TCTAAGTTTCTAGCAACTTCT
Found at i:13669380 original size:42 final size:42
Alignment explanation
Indices: 13669317--13669403 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
13669307 GTGATGATAT
* *
13669317 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGTCGATGC
1 TGACCCGACTATGTGCAAGTGGGAGTGCGCATAAGTCGATGC
* *
13669359 TGACCCGACTATGTGCAAGTGGGAGTGTGCATAAGTTGATGC
1 TGACCCGACTATGTGCAAGTGGGAGTGCGCATAAGTCGATGC
13669401 TGA
1 TGA
13669404 GCTAGCCATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (42 bp):
TGACCCGACTATGTGCAAGTGGGAGTGCGCATAAGTCGATGC
Found at i:13669415 original size:42 final size:42
Alignment explanation
Indices: 13669327--13669442 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
13669317 TGACCCGGCT
* * * * *
13669327 ATGTGCGAGTGGGAGTGCGCATAAGTCGATGCTGACCCGACT
1 ATGTGCAAGTGGGAGTGTGCATAAGTTGATGCTGACCAGACC
*
13669369 ATGTGCAAGTGGGAGTGTGCATAAGTTGATGCTGAGCTAG-CC
1 ATGTGCAAGTGGGAGTGTGCATAAGTTGATGCTGA-CCAGACC
* *
13669411 ATGTGCTAGTGGG-GAGTGCATATGAGTTGATG
1 ATGTGCAAGTGGGAGTGTGCATA--AGTTGATG
13669443 ATGATGGGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 8 0.13
42 45 0.71
43 10 0.16
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (42 bp):
ATGTGCAAGTGGGAGTGTGCATAAGTTGATGCTGACCAGACC
Found at i:13670995 original size:35 final size:35
Alignment explanation
Indices: 13670936--13671019 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
13670926 ATGTGTATGG
* *
13670936 TGATACTGAGATGTGCGAGCAGGGAGTGCACAAGA
1 TGATATTGAAATGTGCGAGCAGGGAGTGCACAAGA
* * *
13670971 TGATGTTGAAATGTGCGAGTAGGGAGTGCACATGA
1 TGATATTGAAATGTGCGAGCAGGGAGTGCACAAGA
13671006 TGATATTGAAATGT
1 TGATATTGAAATGT
13671020 ACGTGTAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.31, C:0.10, G:0.35, T:0.25
Consensus pattern (35 bp):
TGATATTGAAATGTGCGAGCAGGGAGTGCACAAGA
Found at i:13671039 original size:35 final size:35
Alignment explanation
Indices: 13670962--13671040 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 35
13670952 GAGCAGGGAG
* * * * *
13670962 TGCACAAGATGATGTTGAAATGTGCGAGTAGGGAG
1 TGCACATGATGATATTGAAATGTACGAGTAAGGAA
*
13670997 TGCACATGATGATATTGAAATGTACGTGTAAGGAA
1 TGCACATGATGATATTGAAATGTACGAGTAAGGAA
*
13671032 TGTACATGA
1 TGCACATGA
13671041 GCTGAGTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (35 bp):
TGCACATGATGATATTGAAATGTACGAGTAAGGAA
Found at i:13678180 original size:40 final size:38
Alignment explanation
Indices: 13678081--13678183 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
13678071 ATAGTGCCTG
* * *
13678081 TGTGCATGATGTAGGGGGATGTACACGATGGCACTGAT
1 TGTGCATGATGTGGGGGGATGCACACGATGGCACGGAT
* * * *
13678119 TATGCATGATGTGGGGAGATGCACACGATGGCCCCGGCT
1 TGTGCATGATGTGGGGGGATGCACACGATGG-CACGGAT
*
13678158 ATGTGCACGATGTGGGGGGATGCACA
1 -TGTGCATGATGTGGGGGGATGCACA
13678184 TGAGCCGGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 27 0.51
39 4 0.08
40 22 0.42
ACGTcount: A:0.22, C:0.17, G:0.38, T:0.22
Consensus pattern (38 bp):
TGTGCATGATGTGGGGGGATGCACACGATGGCACGGAT
Found at i:13680313 original size:33 final size:33
Alignment explanation
Indices: 13680223--13680323 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
13680213 GGCTGTTTAT
*
13680223 TTTTGGAGGAAGAATAGAGCAGCTTAGCTGCTAA
1 TTTT-GAGGAAGAATAGAGCAGCTTGGCTGCTAA
* * *
13680257 TTTTTAGGAAGAATAAAGTAGCTTGGCTGCTAA
1 TTTTGAGGAAGAATAGAGCAGCTTGGCTGCTAA
* * *
13680290 TTTTGAGG-TGGATATGAGCAGCTTTGGCTACTAA
1 TTTTGAGGAAGAATA-GAGCAGC-TTGGCTGCTAA
13680324 AAATTTTTGG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
32 4 0.07
33 37 0.67
34 14 0.25
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.32
Consensus pattern (33 bp):
TTTTGAGGAAGAATAGAGCAGCTTGGCTGCTAA
Found at i:13687757 original size:21 final size:22
Alignment explanation
Indices: 13687732--13687772 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13687722 CCTAGGTGGA
*
13687732 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
13687753 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
13687773 ACAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:13687778 original size:22 final size:21
Alignment explanation
Indices: 13687732--13687778 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13687722 CCTAGGTGGA
* **
13687732 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGAC
13687753 AAAATTCAAGGAAACAAGTGAC
1 AAAATTCAAGGAAA-AAGTGAC
13687775 AAAA
1 AAAA
13687779 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGAC
Found at i:13693690 original size:42 final size:42
Alignment explanation
Indices: 13693622--13693705 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
13693612 GTAATGATAT
* * **
13693622 TGACCTGGCTATGTGTGAGTAGGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGC
13693664 TGACCCGGCTATGTGCGAGT-GAGAGTGCACATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAG-GAGTGCACATAAGCCGATGC
13693706 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.03
42 36 0.97
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGC
Found at i:13701270 original size:23 final size:23
Alignment explanation
Indices: 13701240--13701293 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
13701230 NNNNNNNNNN
* *
13701240 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTATACA
13701263 TGATGATGATGGGATGGTATACA
1 TGATGATGATGGGATGGTATACA
13701286 TGATGATG
1 TGATGATG
13701294 TTTGGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.04, G:0.39, T:0.31
Consensus pattern (23 bp):
TGATGATGATGGGATGGTATACA
Found at i:13715192 original size:15 final size:15
Alignment explanation
Indices: 13715147--13715192 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
13715137 AGATCAGAGA
13715147 TTTTGGTTTTAAAG-
1 TTTTGGTTTTAAAGT
*
13715161 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
13715177 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
13715192 T
1 T
13715193 GTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:13737400 original size:42 final size:42
Alignment explanation
Indices: 13737353--13737478 Score: 182
Period size: 42 Copynumber: 3.0 Consensus size: 42
13737343 ATCTCATATG
* *
13737353 CAACGGCTTATGCGCACTCCCACTAGCACATAGCCGGGTCAA
1 CAACGGCTTATGTGCACTCTCACTAGCACATAGCCGGGTCAA
*
13737395 CAACGGCTTATGTGCACTCTCAC-ACGCACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCTCACTA-GCACATAGCCGGGTCAA
* * *
13737437 CAACGGCTTATGTGCACTCTTACTCGCACATAGCTGGGTCAA
1 CAACGGCTTATGTGCACTCTCACTAGCACATAGCCGGGTCAA
13737479 TATCATTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCTCACTAGCACATAGCCGGGTCAA
Found at i:13742418 original size:22 final size:22
Alignment explanation
Indices: 13742390--13742432 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13742380 AGTTATAAGA
*
13742390 ATTCTTGTTACAACGAAAATCC
1 ATTCTTGCTACAACGAAAATCC
* *
13742412 ATTCTTGCTGCAATGAAAATC
1 ATTCTTGCTACAACGAAAATC
13742433 AATTTGGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (22 bp):
ATTCTTGCTACAACGAAAATCC
Found at i:13742628 original size:35 final size:36
Alignment explanation
Indices: 13742546--13742629 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
13742536 TCTCACCAGC
13742546 TCATGTGCACTCCCACACTACACATAGCTAGAATCA
1 TCATGTGCACTCCCACACTACACATAGCTAGAATCA
*
13742582 TCATGTGCACTCCCACACTGCACA-AGGC-A-ATATCA
1 TCATGTGCACTCCCACACTACACATA-GCTAGA-ATCA
*
13742617 TCATGTACACTCC
1 TCATGTGCACTCC
13742630 ATACCACACC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
34 1 0.02
35 18 0.41
36 25 0.57
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.23
Consensus pattern (36 bp):
TCATGTGCACTCCCACACTACACATAGCTAGAATCA
Found at i:13747019 original size:19 final size:19
Alignment explanation
Indices: 13746979--13747020 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13746969 AAGCCTAAGG
* *
13746979 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
13746998 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
13747017 AATA
1 AATA
13747021 TTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:13753688 original size:22 final size:22
Alignment explanation
Indices: 13753646--13753686 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
13753636 TACCTTTTAT
13753646 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTTCCTTGAATTTTCA
13753668 CACTT-TTTCCTTGAATTTT
1 CACTTGTTTCCTTGAATTTT
13753687 TCCACCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.17, C:0.22, G:0.07, T:0.54
Consensus pattern (22 bp):
CACTTGTTTCCTTGAATTTTCA
Found at i:13753733 original size:11 final size:11
Alignment explanation
Indices: 13753703--13753745 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
13753693 TAGGGTTTTA
13753703 TTCTTCCTTT-
1 TTCTTCCTTTG
13753713 TTCTTCCTTTG
1 TTCTTCCTTTG
*
13753724 TTCTTGCTTTG
1 TTCTTCCTTTG
13753735 TTCTTCCTTTG
1 TTCTTCCTTTG
13753746 GCCTACCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (11 bp):
TTCTTCCTTTG
Found at i:13757943 original size:22 final size:22
Alignment explanation
Indices: 13757915--13757957 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13757905 AGTTATAAGA
*
13757915 ATTCTTGTTACAACGAAAATCC
1 ATTCTTGCTACAACGAAAATCC
* *
13757937 ATTCTTGCTGCAATGAAAATC
1 ATTCTTGCTACAACGAAAATC
13757958 AATTTGGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (22 bp):
ATTCTTGCTACAACGAAAATCC
Found at i:13762512 original size:19 final size:19
Alignment explanation
Indices: 13762472--13762513 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13762462 AAGCCTAAGG
* *
13762472 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
13762491 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
13762510 AATA
1 AATA
13762514 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:13767260 original size:22 final size:21
Alignment explanation
Indices: 13767235--13767275 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13767225 TACCATTTGT
*
13767235 CACTTGTTTCCATGAATTTTCA
1 CACTT-TTCCCATGAATTTTCA
*
13767257 CACTTTTCCCTTGAATTTT
1 CACTTTTCCCATGAATTTT
13767276 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.49
Consensus pattern (21 bp):
CACTTTTCCCATGAATTTTCA
Found at i:13767322 original size:11 final size:11
Alignment explanation
Indices: 13767288--13767334 Score: 78
Period size: 11 Copynumber: 4.4 Consensus size: 11
13767278 CACCTAGGGT
13767288 TTTGTTCTTCC
1 TTTGTTCTTCC
13767299 TTT-TTCTTCC
1 TTTGTTCTTCC
*
13767309 TTTGTTCTTGC
1 TTTGTTCTTCC
13767320 TTTGTTCTTCC
1 TTTGTTCTTCC
13767331 TTTG
1 TTTG
13767335 GCCGGCCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 10 0.30
11 23 0.70
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:13767330 original size:22 final size:21
Alignment explanation
Indices: 13767288--13767334 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13767278 CACCTAGGGT
13767288 TTTGTTCTTCCTTTTTCTTCC
1 TTTGTTCTTCCTTTTTCTTCC
*
13767309 TTTGTTCTTGCTTTGTTCTTCC
1 TTTGTTCTTCCTTT-TTCTTCC
13767331 TTTG
1 TTTG
13767335 GCCGGCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (21 bp):
TTTGTTCTTCCTTTTTCTTCC
Found at i:13767595 original size:28 final size:28
Alignment explanation
Indices: 13767536--13767620 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
13767526 AAGTGTTGGT
*
13767536 TGGT-GTAAAATTATAATTTTGCCCCTG
1 TGGTGGTAAAATTATAATTTTGCCCCTA
*
13767563 GGGTGGTAAAATTATAATTTTGCCCCTA
1 TGGTGGTAAAATTATAATTTTGCCCCTA
* * *
13767591 TGGTGGCAAAATGACT-ATTTTACCCCTA
1 TGGTGGTAAAATTA-TAATTTTGCCCCTA
13767619 TG
1 TG
13767621 CTCGAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 3 0.06
28 46 0.92
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (28 bp):
TGGTGGTAAAATTATAATTTTGCCCCTA
Found at i:13772135 original size:42 final size:42
Alignment explanation
Indices: 13772075--13772191 Score: 198
Period size: 42 Copynumber: 2.8 Consensus size: 42
13772065 CATCTCATAT
*
13772075 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* *
13772117 GCAACGGCTTATGTGCACTCCCACTCACACATAGCTGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
*
13772159 GCAACGGCTTATGTGCACTCCTACTCGCACATA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATA
13772192 ACCAGGTCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:13774455 original size:37 final size:34
Alignment explanation
Indices: 13774414--13774557 Score: 168
Period size: 31 Copynumber: 4.2 Consensus size: 34
13774404 GCATATATCG
**
13774414 TCATCATGTGCACACTCCCTACTCGCACACTCTGTCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTC---CA
*
13774451 TCATCATGTGTGCACTCCCTACTCACACACT-C-
1 TCATCATGTGTGCACTCCCTACTCGCACACTCCA
13774483 -CATCATGTGTGCACTCCCTACTCGCACACTCAACA
1 TCATCATGTGTGCACTCCCTACTCGCACACTC--CA
* *
13774518 TCATCATGCGTGCACTCCCTACTCGCACACTTCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCCA
*
13774552 ACATCA
1 TCATCA
13774558 CTACCCAACA
Statistics
Matches: 95, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
31 29 0.31
33 1 0.01
34 8 0.08
36 29 0.31
37 28 0.29
ACGTcount: A:0.24, C:0.40, G:0.10, T:0.26
Consensus pattern (34 bp):
TCATCATGTGTGCACTCCCTACTCGCACACTCCA
Found at i:13774547 original size:67 final size:68
Alignment explanation
Indices: 13774415--13774548 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 68
13774405 CATATATCGT
** *
13774415 CATCATGTGCACACTCCCTACTCGCACACTCTGTCATCATCATGTGTGCACTCCCTACTCACACA
1 CATCATGTGCACACTCCCTACTCGCACACTCTAACATCATCATGCGTGCACTCCCTACTCACACA
13774480 CTC
66 CTC
** *
13774483 CATCATGTGTGCACTCCCTACTCGCACACTC-AACATCATCATGCGTGCACTCCCTACTCGCACA
1 CATCATGTGCACACTCCCTACTCGCACACTCTAACATCATCATGCGTGCACTCCCTACTCACACA
13774547 CT
66 CT
13774549 TCAACATCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 31 0.52
68 29 0.48
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.25
Consensus pattern (68 bp):
CATCATGTGCACACTCCCTACTCGCACACTCTAACATCATCATGCGTGCACTCCCTACTCACACA
CTC
Found at i:13787904 original size:19 final size:19
Alignment explanation
Indices: 13787867--13787931 Score: 103
Period size: 19 Copynumber: 3.4 Consensus size: 19
13787857 TTTTGGCTCC
* *
13787867 ATTTGAGTTATTAGTGTATG
1 ATTTGAG-TATTGGAGTATG
13787887 ATTTGAGTATTGGAGTATG
1 ATTTGAGTATTGGAGTATG
13787906 ATTTGAGTATTGGAGTATG
1 ATTTGAGTATTGGAGTATG
13787925 ATTTGAG
1 ATTTGAG
13787932 GTTTAGAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 36 0.84
20 7 0.16
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (19 bp):
ATTTGAGTATTGGAGTATG
Found at i:13795072 original size:43 final size:43
Alignment explanation
Indices: 13794952--13795073 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
13794942 TAACTCGGCT
* **
13794952 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCGACC
** * * *
13794995 ATGTGCGAGTAAAGAATGCGCATAACCCGGTGATGACCC-AGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCGA-CC
* * *
13795038 ATGTGCGAGTAGGGAGTACGCATGAGCCGTTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGA
13795074 TGATGATGGG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCGACC
Found at i:13795481 original size:39 final size:39
Alignment explanation
Indices: 13795427--13795518 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
13795417 CTGTAGCTTC
*
13795427 TCGCTGCAGCGAGAAACTTTCTATTTTTGGGTTGCAATT
1 TCGCTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATT
*
13795466 TCGCTGCAGCGAGAAACTTTCTGTTTTTGGGTTACAATT
1 TCGCTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATT
*
13795505 TTGCTGCAGCGAGA
1 TCGCTGCAGCGAGA
13795519 TTGAATCTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (39 bp):
TCGCTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATT
Found at i:13801303 original size:38 final size:37
Alignment explanation
Indices: 13801242--13801343 Score: 150
Period size: 38 Copynumber: 2.7 Consensus size: 37
13801232 ATATCATCTA
* *
13801242 TGCACAATGTGAGGGGATGCACACGACGGTATTAGTTG
1 TGCACGATGTG-GGGGATGCACACGACGATATTAGTTG
*
13801280 TGCACGATGTGGGGTGATACACACGACGATATTAGTTG
1 TGCACGATGTGGGG-GATGCACACGACGATATTAGTTG
13801318 TGCACGATGTGGGGGGATGCACACGA
1 TGCACGATGT-GGGGGATGCACACGA
13801344 TGACTCCAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 3 0.05
38 51 0.88
39 4 0.07
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (37 bp):
TGCACGATGTGGGGGATGCACACGACGATATTAGTTG
Found at i:13801369 original size:40 final size:38
Alignment explanation
Indices: 13801242--13801372 Score: 129
Period size: 38 Copynumber: 3.4 Consensus size: 38
13801232 ATATCATCTA
* * * * **
13801242 TGCACAATGTGAGGGGATGCACACGACGGTATTAGTTG
1 TGCACGATGTGGGGGGATACACACGACGATACCAGTTG
* **
13801280 TGCACGATGTGGGGTGATACACACGACGATATTAGTTG
1 TGCACGATGTGGGGGGATACACACGACGATACCAGTTG
* *
13801318 TGCACGATGTGGGGGGATGCACACGATGACT-CCAGCTATG
1 TGCACGATGTGGGGGGATACACACGACGA-TACCAG-T-TG
13801358 TGCACGATGTGGGGG
1 TGCACGATGTGGGGG
13801373 TTGTACATGA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 61 0.76
39 2 0.03
40 17 0.21
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (38 bp):
TGCACGATGTGGGGGGATACACACGACGATACCAGTTG
Found at i:13802894 original size:15 final size:15
Alignment explanation
Indices: 13802869--13802908 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
13802859 GGGAATGAAT
*
13802869 TACATTGAAAAGCTC
1 TACACTGAAAAGCTC
* *
13802884 TGCACTGAAAAGGTC
1 TACACTGAAAAGCTC
13802899 TACACTGAAA
1 TACACTGAAA
13802909 GATTGTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (15 bp):
TACACTGAAAAGCTC
Found at i:13824631 original size:13 final size:13
Alignment explanation
Indices: 13824613--13824638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13824603 TTCCAAAAAA
13824613 TTTATAAAATCAT
1 TTTATAAAATCAT
13824626 TTTATAAAATCAT
1 TTTATAAAATCAT
13824639 AATTTTTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13825880 original size:19 final size:19
Alignment explanation
Indices: 13825856--13825893 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13825846 ACTTATAAAC
*
13825856 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13825875 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13825894 AGTCAAATTG
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:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13871951 original size:73 final size:73
Alignment explanation
Indices: 13871872--13872073 Score: 280
Period size: 73 Copynumber: 2.8 Consensus size: 73
13871862 AAGAGGGCCA
* * *
13871872 GTTCAGAAACAGAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTATGAGCTTACTGCCA
1 GTTCAGAAACAAAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTGACTGCCA
13871937 GAAACTAG
66 GAAACTAG
* * * * *
13871945 GTTCAGAGACAAAGATGACTTAATCGACTAAGAAGCATTATTAGTTGACTAAGAGCTGATTGTCA
1 GTTCAGAAACAAAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTGACTGCCA
13872010 GAAACTAG
66 GAAACTAG
** * *
13872018 GTTC-GAAGACAAAGACAACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 GTTCAGAA-ACAAAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGC
13872074 ATTCTGCTGA
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
72 2 0.02
73 111 0.98
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (73 bp):
GTTCAGAAACAAAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTGACTGCCA
GAAACTAG
Found at i:13886639 original size:23 final size:23
Alignment explanation
Indices: 13886609--13886653 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
13886599 ACCACACTTG
13886609 ATGAAATATGCGAGTCTCTTCTA
1 ATGAAATATGCGAGTCTCTTCTA
13886632 ATGAAATATGCGAGTCTCTTCT
1 ATGAAATATGCGAGTCTCTTCT
13886654 TACTCATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (23 bp):
ATGAAATATGCGAGTCTCTTCTA
Found at i:13910775 original size:73 final size:73
Alignment explanation
Indices: 13910574--13910776 Score: 300
Period size: 73 Copynumber: 2.8 Consensus size: 73
13910564 AAAGATGTTT
* * * *
13910574 AGTTCATAAACAGAGACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAACTTACTGCC
1 AGTTCAGAGACAGAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTTACTGCC
*
13910639 AGAAATTG
66 AGAAATAG
* * * *
13910647 AGTTTAGAGACAAAGATGACTTAATCAACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTGCC
1 AGTTCAGAGACAGAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTTACTGCC
13910712 AGAAACTAG
66 AGAAA-TAG
*
13910721 -GTTCAGAGACAGAGATGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 AGTTCAGAGACAGAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGC
13910777 ATTTTGCTTG
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
73 113 0.98
74 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (73 bp):
AGTTCAGAGACAGAGATGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTTACTGCC
AGAAATAG
Found at i:13913747 original size:341 final size:340
Alignment explanation
Indices: 13913124--13913804 Score: 1299
Period size: 341 Copynumber: 2.0 Consensus size: 340
13913114 CCAATTCTCA
*
13913124 TTTCTTTTACACTTTGAAATTTGTTATTTATATGGCCACCCACTTAACCAATCAAATTGCATGCA
1 TTTCTTTTACACTTTGAAATTTGGTATTTATATGGCCACCCACTTAACCAATCAAATTGCATGCA
13913189 CACATTTGCCTTTTTTTCTATTTGGCCGCCTTGCCAACCTATAAGATTTCATGCATCCAATTTCC
66 CACATTTGCCTTTTTTTCTATTTGGCCGCCTTGCCAACCTATAAGATTTCATGCATCCAATTTCC
*
13913254 ATCTCTTTTAATTGGTTGAATATCTACTTCCATTATCCATCCATTCTTTAATCTATCTTCATGCA
131 ATCTCTTTTAATTGGTTGAATATCCACTTCCATTATCCATCCATTCTTTAATCTATCTTCATGCA
*
13913319 TTCTTTATGCATTTCCATTTCATCCACCTTACTTATATCCAATAACCTTGCATGATTCAACCTTC
196 TTCTTAATGCATTTCCATTTCATCCACCTTACTTATATCCAATAACCTTGCATGATTCAACCTTC
13913384 TTTCTCATTTGGCCTCCCATTTAGCCAATAACAATACAGGCATATTTCACCTTTTACATTTGTCT
261 TTTCTCATTTGGCCTCCCATTTAGCCAATAACAATACAGGCATATTTCACCTTTTACATTTGTCT
13913449 CTTTCCTTTTTATTT
326 CTTTCCTTTTTATTT
13913464 NTTTCTTTTACACTTTGAAATTTGGTATTTATATGGCCACCCACTTAACCAATCAAATTGCATGC
1 -TTTCTTTTACACTTTGAAATTTGGTATTTATATGGCCACCCACTTAACCAATCAAATTGCATGC
13913529 ACACATTTGCCTTTTTTTCTATTTGGCCGCCTTGCCAACCTATAAGATTTCATGCATCCAATTTC
65 ACACATTTGCCTTTTTTTCTATTTGGCCGCCTTGCCAACCTATAAGATTTCATGCATCCAATTTC
*
13913594 CATCTCTTTTCATTGGTTGAATATCCACTTCCATTATCCATCCATTCTTTAATCTATCTTCATGC
130 CATCTCTTTTAATTGGTTGAATATCCACTTCCATTATCCATCCATTCTTTAATCTATCTTCATGC
13913659 ATTCTTAATGCATTTCCATTTCATCCACCTTACTTATATCCAATAACCTTGCATGATTCAACCTT
195 ATTCTTAATGCATTTCCATTTCATCCACCTTACTTATATCCAATAACCTTGCATGATTCAACCTT
* *
13913724 CTTTCTCATTTGGCCTCCCATTTAGCCAATAACATTACATGCATATTTCACCTTTTACATTTGTC
260 CTTTCTCATTTGGCCTCCCATTTAGCCAATAACAATACAGGCATATTTCACCTTTTACATTTGTC
13913789 TCTTTCCTTTTTATTT
325 TCTTTCCTTTTTATTT
13913805 GTCACATGGT
Statistics
Matches: 334, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
341 334 1.00
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.43
Consensus pattern (340 bp):
TTTCTTTTACACTTTGAAATTTGGTATTTATATGGCCACCCACTTAACCAATCAAATTGCATGCA
CACATTTGCCTTTTTTTCTATTTGGCCGCCTTGCCAACCTATAAGATTTCATGCATCCAATTTCC
ATCTCTTTTAATTGGTTGAATATCCACTTCCATTATCCATCCATTCTTTAATCTATCTTCATGCA
TTCTTAATGCATTTCCATTTCATCCACCTTACTTATATCCAATAACCTTGCATGATTCAACCTTC
TTTCTCATTTGGCCTCCCATTTAGCCAATAACAATACAGGCATATTTCACCTTTTACATTTGTCT
CTTTCCTTTTTATTT
Found at i:13922731 original size:28 final size:28
Alignment explanation
Indices: 13922681--13922900 Score: 224
Period size: 29 Copynumber: 7.6 Consensus size: 28
13922671 TTATCTTAAT
* *
13922681 TTAAGACAAAAATATTTTATCTTGTCTAAA
1 TTAAGACAAACAT-GTTT-TCTTGTCTAAA
* * *
13922711 TTGAGACAAATATGTTTTCTTGTCTAGA
1 TTAAGACAAACATGTTTTCTTGTCTAAA
* *
13922739 TTAAGACAAAAAATATTTCTCTTGTCTTAAA
1 TTAAGAC-AAACATGTTT-TCTTGTC-TAAA
* *
13922770 TTAAGACAAACATATATTTCTTCTCTAAA
1 TTAAGACAAACATGT-TTTCTTGTCTAAA
* * *
13922799 TTAAGACCAAACAAGATTTCTTATCTAAA
1 TTAAGA-CAAACATGTTTTCTTGTCTAAA
* *
13922828 TTGAGACGAACATGTTTTCTTGTCTAAA
1 TTAAGACAAACATGTTTTCTTGTCTAAA
* *
13922856 TTAAAACATAACATGTTTTCCTGTCTAAA
1 TTAAGACA-AACATGTTTTCTTGTCTAAA
13922885 TTAAGACAAACATGTT
1 TTAAGACAAACATGTT
13922901 AAAGCTACCA
Statistics
Matches: 160, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
28 47 0.29
29 64 0.40
30 37 0.23
31 12 0.08
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (28 bp):
TTAAGACAAACATGTTTTCTTGTCTAAA
Found at i:13936545 original size:5 final size:5
Alignment explanation
Indices: 13936537--13936566 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13936527 TAACCTGGCG
*
13936537 TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT
13936567 GGACTTAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
TAACT
Found at i:13943193 original size:13 final size:13
Alignment explanation
Indices: 13943175--13943199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13943165 TTTCAGAAAA
13943175 TTTATAAAATCAT
1 TTTATAAAATCAT
13943188 TTTATAAAATCA
1 TTTATAAAATCA
13943200 CAATTTCCCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13946019 original size:22 final size:22
Alignment explanation
Indices: 13945967--13946019 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
13945957 GCTATAAATG
13945967 TCATT-TTCCAGCAGCTTCTTC
1 TCATTCTTCCAGCAGCTTCTTC
* *
13945988 TCATTTTTCCAGTAGCTTCTTC
1 TCATTCTTCCAGCAGCTTCTTC
13946010 TTC-TTCTTCC
1 -TCATTCTTCC
13946020 TCCCATCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.18
22 21 0.75
23 2 0.07
ACGTcount: A:0.11, C:0.32, G:0.08, T:0.49
Consensus pattern (22 bp):
TCATTCTTCCAGCAGCTTCTTC
Found at i:13946729 original size:2 final size:2
Alignment explanation
Indices: 13946722--13946772 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
13946712 TGTTATGTTG
* * * *
13946722 AT AT AT AT AT AT AT AT AT AT CT AC AT AT AT AT AT CT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13946764 AT AT GAT AT
1 AT AT -AT AT
13946773 GTATCAGTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:13953221 original size:22 final size:22
Alignment explanation
Indices: 13953178--13953221 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13953168 GGTGAAGAGT
**
13953178 TTCAAGAGAAAAAGTGTGAAAA
1 TTCAAGAGAAAAAGTGACAAAA
13953200 TTCAAGA-AAACAAGTGACAAAA
1 TTCAAGAGAAA-AAGTGACAAAA
13953222 GGTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.57, C:0.09, G:0.18, T:0.16
Consensus pattern (22 bp):
TTCAAGAGAAAAAGTGACAAAA
Found at i:13954076 original size:13 final size:13
Alignment explanation
Indices: 13954058--13954082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13954048 GAAGAAATTG
13954058 TGATTTTATAAAA
1 TGATTTTATAAAA
13954071 TGATTTTATAAA
1 TGATTTTATAAA
13954083 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:13957259 original size:20 final size:20
Alignment explanation
Indices: 13957236--13957280 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
13957226 CTTCTAAACC
13957236 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
13957256 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
13957276 TCAAA
1 TCAAA
13957281 GGGGCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:13962952 original size:43 final size:43
Alignment explanation
Indices: 13962859--13963114 Score: 309
Period size: 43 Copynumber: 5.8 Consensus size: 43
13962849 GTCGTCATGT
* * *
13962859 GCACTCCCTACTCGCACATAGCTCTGTCATCATCATCAGCTTATGT
1 GCACTCCCTACTCGCACATAGCT-AG--GTCATCATCAGCTTATGC
13962905 GCACTCCCTACTCGCACATAGCTAGGTCATCATCAGCTTATGC
1 GCACTCCCTACTCGCACATAGCTAGGTCATCATCAGCTTATGC
* *
13962948 GCACTCCCTACTCGCACATAGC-AGGGTCATCATCATCAACTTATGT
1 GCACTCCCTACTCGCACATAGCTA-GG---TCATCATCAGCTTATGC
* *
13962994 GCACTCCCTACTCGCACATAGCTGGGTCATCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAGCTAGGTCATCATCAGCTTATGC
* * ** *
13963037 GCACTCTCTACTTGCACATAGCCGGGTCATCATTAGCTTATGC
1 GCACTCCCTACTCGCACATAGCTAGGTCATCATCAGCTTATGC
*
13963080 GCACTCCTTACTCGCACATAGCCTA-GTCATCATCA
1 GCACTCCCTACTCGCACATAG-CTAGGTCATCATCA
13963115 TCACACAACA
Statistics
Matches: 184, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 119 0.65
44 1 0.01
45 1 0.01
46 62 0.34
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAGCTAGGTCATCATCAGCTTATGC
Found at i:13963010 original size:89 final size:89
Alignment explanation
Indices: 13962859--13963114 Score: 376
Period size: 89 Copynumber: 2.9 Consensus size: 89
13962849 GTCGTCATGT
***
13962859 GCACTCCCTACTCGCACATAGCTCTGTCATCATCATCAGCTTATGTGCACTCCCTACTCGCACAT
1 GCACTCCCTACTCGCACATAGCAGGGTCATCATCATCAGCTTATGTGCACTCCCTACTCGCACAT
13962924 AGCTAGGTCATCATCAGCTTATGC
66 AGCTAGGTCATCATCAGCTTATGC
*
13962948 GCACTCCCTACTCGCACATAGCAGGGTCATCATCATCAACTTATGTGCACTCCCTACTCGCACAT
1 GCACTCCCTACTCGCACATAGCAGGGTCATCATCATCAGCTTATGTGCACTCCCTACTCGCACAT
* *
13963013 AGCTGGGTCATCATCGGCTTATGC
66 AGCTAGGTCATCATCAGCTTATGC
* * * * *
13963037 GCACTCTCTACTTGCACATAGCCGGGTCATCAT--T-AGCTTATGCGCACTCCTTACTCGCACAT
1 GCACTCCCTACTCGCACATAGCAGGGTCATCATCATCAGCTTATGTGCACTCCCTACTCGCACAT
13963099 AGCCTA-GTCATCATCA
66 AG-CTAGGTCATCATCA
13963115 TCACACAACA
Statistics
Matches: 152, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
86 36 0.24
87 3 0.02
89 113 0.74
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (89 bp):
GCACTCCCTACTCGCACATAGCAGGGTCATCATCATCAGCTTATGTGCACTCCCTACTCGCACAT
AGCTAGGTCATCATCAGCTTATGC
Found at i:13963134 original size:20 final size:21
Alignment explanation
Indices: 13963109--13963153 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13963099 AGCCTAGTCA
13963109 TCATC-ATCACACAACAT-TAT
1 TCATCAAT-ACACAACATATAT
*
13963129 TCATCAATGCACAACATATAT
1 TCATCAATACACAACATATAT
13963150 TCAT
1 TCAT
13963154 ATATATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (21 bp):
TCATCAATACACAACATATAT
Found at i:13963997 original size:23 final size:22
Alignment explanation
Indices: 13963949--13964036 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
13963939 TAATTAATTT
*
13963949 TTTTATTTTTTCTTT-TTCTTCCC
1 TTTT-TTTTTTCTTTCTTCTT-TC
13963972 TTTTTTTTTTCTTTCGTTCTTTC
1 TTTTTTTTTTCTTTC-TTCTTTC
* ** *
13963995 TTTCTCGTTTCTTTCTCTCTCTC
1 TTTTTTTTTTCTTTCT-TCTTTC
*
13964018 TTTTTTTTTGCTCTTCTTC
1 TTTTTTTTTTCT-TTCTTC
13964037 CCCGCCAGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
22 11 0.21
23 32 0.62
24 9 0.17
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTTCTTTCTTCTTTC
Found at i:13964242 original size:34 final size:35
Alignment explanation
Indices: 13964172--13964266 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
13964162 TCTTGTTTTC
* *
13964172 TCTCTC-AAATTTGTAGCAGAACTCTTTCTTTCTT
1 TCTCTCAAAATTTGTAGCAAAACTCTTTCTATCTT
*
13964206 TCTCTCAAAATTTGTAACAAAACTCTTTCTAT-TT
1 TCTCTCAAAATTTGTAGCAAAACTCTTTCTATCTT
* * *
13964240 TCTTCTAAAAAGTTGCAGCAAAACTCT
1 TC-TCTCAAAATTTGTAGCAAAACTCT
13964267 AACTTTTTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 10 0.19
35 42 0.81
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (35 bp):
TCTCTCAAAATTTGTAGCAAAACTCTTTCTATCTT
Found at i:13964275 original size:34 final size:36
Alignment explanation
Indices: 13964223--13964294 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 36
13964213 AAATTTGTAA
** *
13964223 CAAAACTCTTTCTATTTTCTTC-TAAAAAGTTGCAG
1 CAAAACTCTAACTATTTTCCTCTTAAAAAGTTGCAG
**
13964258 CAAAACTCTAACT-TTTTCCTCTTAAAATTTTGCAG
1 CAAAACTCTAACTATTTTCCTCTTAAAAAGTTGCAG
13964293 CA
1 CA
13964295 CAAGGCCTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 7 0.23
35 24 0.77
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (36 bp):
CAAAACTCTAACTATTTTCCTCTTAAAAAGTTGCAG
Found at i:13965689 original size:22 final size:22
Alignment explanation
Indices: 13965664--13965708 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13965654 TTATGTAGTG
*
13965664 AAATTAATAGAAGAAATAA-AAT
1 AAATAAATAG-AGAAATAATAAT
*
13965686 AAATAAATAGTGAAATAATAAT
1 AAATAAATAGAGAAATAATAAT
13965708 A
1 A
13965709 TAAGTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AAATAAATAGAGAAATAATAAT
Found at i:13965918 original size:2 final size:2
Alignment explanation
Indices: 13965911--13965945 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13965901 TGAAAGAATA
13965911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13965946 ATTGAATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13966602 original size:30 final size:30
Alignment explanation
Indices: 13966568--13966638 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 30
13966558 AAAAGAAAGT
13966568 AACAAGAAAGAAAAAAAATAGGCATGACCC
1 AACAAGAAAGAAAAAAAATAGGCATGACCC
* * *
13966598 AACAAGAAAG---AAAAATGGGTATGGCCC
1 AACAAGAAAGAAAAAAAATAGGCATGACCC
13966625 AACAAGAAAGAAAA
1 AACAAGAAAGAAAA
13966639 TGGGCATGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 24 0.69
30 11 0.31
ACGTcount: A:0.59, C:0.14, G:0.20, T:0.07
Consensus pattern (30 bp):
AACAAGAAAGAAAAAAAATAGGCATGACCC
Found at i:13966625 original size:27 final size:27
Alignment explanation
Indices: 13966575--13966661 Score: 115
Period size: 26 Copynumber: 3.3 Consensus size: 27
13966565 AGTAACAAGA
* *
13966575 AAGAAA-AAAAATAGGCATGACCCAAC
1 AAGAAAGAAAAATGGGCATGGCCCAAC
*
13966601 AAGAAAGAAAAATGGGTATGGCCCAAC
1 AAGAAAGAAAAATGGGCATGGCCCAAC
*
13966628 AAGAAAG-AAAATGGGCATGGCCCAAT
1 AAGAAAGAAAAATGGGCATGGCCCAAC
*
13966654 TAGAAAGA
1 AAGAAAGA
13966662 GATGGGAAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 29 0.55
27 24 0.45
ACGTcount: A:0.52, C:0.15, G:0.23, T:0.10
Consensus pattern (27 bp):
AAGAAAGAAAAATGGGCATGGCCCAAC
Found at i:13969851 original size:2 final size:2
Alignment explanation
Indices: 13969844--13969882 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13969834 GTTATGTATG
13969844 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
13969883 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13974897 original size:2 final size:2
Alignment explanation
Indices: 13974890--13974932 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13974880 NNNNNGATGC
13974890 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13974932 A
1 A
13974933 ATAAGCCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13976835 original size:29 final size:28
Alignment explanation
Indices: 13976745--13976916 Score: 202
Period size: 29 Copynumber: 6.0 Consensus size: 28
13976735 TTAAGACAAC
* * *
13976745 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGACAAACAT-GTTT
*
13976775 ATCTTGTCTAAATTGAGACAAACAT-TCTT
1 -TCTTGTCTAAATTAAGACAAACATGT-TT
*
13976804 TCTTGTCTAAATTAAGACCAAACATGATT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
* * * *
13976833 TCTTGCCTCAATTGAGATAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
13976861 TCTTGTCTAAATTAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
13976890 TCTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
13976917 AAAGCTACTT
Statistics
Matches: 123, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
28 49 0.40
29 53 0.43
30 14 0.11
31 7 0.06
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:13976846 original size:57 final size:57
Alignment explanation
Indices: 13976745--13976916 Score: 215
Period size: 57 Copynumber: 3.0 Consensus size: 57
13976735 TTAAGACAAC
*
13976745 TCTTGTCTTTAATTAAGACAAAA-AT-ATTTTATCTTGTCTAAATTGAGACAAACAT-TCTT
1 TCTTGTC-TAAATTAAGACAAAACATGA--TT-TCTTGTCTAAATTGAGACAAACATGT-TT
* * * *
13976804 TCTTGTCTAAATTAAGACCAAACATGATTTCTTGCCTCAATTGAGATAAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGATTTCTTGTCTAAATTGAGACAAACATGTTT
* *
13976861 TCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAAACATGATTTCTTGTCTAAATTGAGACAAACATGTT
13976917 AAAGCTACTT
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 73 0.74
58 16 0.16
59 9 0.09
60 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (57 bp):
TCTTGTCTAAATTAAGACAAAACATGATTTCTTGTCTAAATTGAGACAAACATGTTT
Found at i:13979863 original size:43 final size:43
Alignment explanation
Indices: 13979803--13979981 Score: 200
Period size: 43 Copynumber: 4.2 Consensus size: 43
13979793 ACCATCTCGC
* * *
13979803 CATCATCAGCTCATGTGCACTCCTCACTCGCACGTAGCTAGGT
1 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGT
* * *
13979846 CATCATTAGCTCATGTGCATTCCCCACTCGCACAAAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGT
* * * *
13979889 CATCATTAGCTCATGTGCACTCCCCACTCACACATGGTTGGGT
1 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGT
** * **
13979932 CATCATCAGCTCATGTTAACT-CCTACAT-GCACATAATTGGGT
1 CATCATCAGCTCATGTGCACTCCCCAC-TCGCACATAGCTGGGT
13979974 CATCATCA
1 CATCATCA
13979982 TCACACAACA
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 23 0.20
43 94 0.80
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGT
Found at i:13981421 original size:37 final size:37
Alignment explanation
Indices: 13981380--13981472 Score: 159
Period size: 37 Copynumber: 2.5 Consensus size: 37
13981370 ATGATATTGC
*
13981380 TTGTGCACGATGTGGGGGTTGCGCATAATGGCATTAG
1 TTGTGCACGATGTGGGGGTTGCACATAATGGCATTAG
13981417 TTGTGCACGATGTGGGGGTTGCACATAATGGCATTAG
1 TTGTGCACGATGTGGGGGTTGCACATAATGGCATTAG
**
13981454 TTGTGTGCGATGTGGGGGT
1 TTGTGCACGATGTGGGGGT
13981473 GCATACGATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.17, C:0.12, G:0.40, T:0.31
Consensus pattern (37 bp):
TTGTGCACGATGTGGGGGTTGCACATAATGGCATTAG
Found at i:14008649 original size:22 final size:22
Alignment explanation
Indices: 14008624--14008667 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14008614 TTTAAAACAA
*
14008624 CTTTAAAACTAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
14008646 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
14008668 ACCAATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:14019247 original size:5 final size:5
Alignment explanation
Indices: 14019239--14019271 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14019229 ACCTAACCTG
14019239 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTT
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
14019272 GGGCCACGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ACTTA
Found at i:14019258 original size:14 final size:15
Alignment explanation
Indices: 14019239--14019271 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14019229 ACCTAACCTG
14019239 ACTTAACTTAAC-TA
1 ACTTAACTTAACTTA
14019253 ACTTAACTTAACTTA
1 ACTTAACTTAACTTA
14019268 ACTT
1 ACTT
14019272 GGGCCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTTAACTTAACTTA
Done.