Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 35 of 297
Found at i:12262902 original size:15 final size:15
Alignment explanation
Indices: 12262882--12262912 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12262872 AATTATGAAA
12262882 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
12262897 GATATGTTTTGTATT
1 GATATGTTTTGGATT
12262912 G
1 G
12262913 GAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:12267155 original size:16 final size:16
Alignment explanation
Indices: 12267134--12267167 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12267124 TATTGATTGA
*
12267134 TCCTGGTTTGACTCAT
1 TCCTGGTTCGACTCAT
*
12267150 TCCTGGTTCGATTCAT
1 TCCTGGTTCGACTCAT
12267166 TC
1 TC
12267168 TTATGTGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (16 bp):
TCCTGGTTCGACTCAT
Found at i:12269068 original size:27 final size:27
Alignment explanation
Indices: 12269038--12269270 Score: 279
Period size: 27 Copynumber: 8.6 Consensus size: 27
12269028 TTAGTTTACC
*
12269038 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
12269065 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
12269092 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
12269119 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
12269146 AAATTACCAAAATACCCCCAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
12269173 AAATTACCAAAATACCCCTAGTTTGTAA
1 AAATTACCAAAATACCCCTGGTTTGT-A
*
12269201 AAATT-CCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
12269227 AAATTACCAAAATACCTCTGATTTCTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
12269254 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
12269271 TCGACCTATA
Statistics
Matches: 176, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 6 0.03
27 164 0.93
28 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:12269258 original size:81 final size:81
Alignment explanation
Indices: 12269038--12269343 Score: 289
Period size: 81 Copynumber: 3.8 Consensus size: 81
12269028 TTAGTTTACC
* * * * *
12269038 AAATTATCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTGATTTATAAAATTACCAAA
*
12269103 ATACCCCTGGTTTGTA
66 ATACCCCTAGTTTGTA
* * * ** *
12269119 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACC-CCCAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTGA-TTTATAAAATTACCAA
12269183 AATACCCCTAGTTTGTAA
65 AATACCCCTAGTTTGT-A
* * * **
12269201 AAATT-CCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTGATTTCTGAAATTACTGAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTGATTTATAAAATTACCAAA
* ** *
12269265 ATA-CCCTCGACCTATA
66 ATACCCCTAG-TTTGTA
** ** * *
12269281 AAATTATTAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACC-CTCGATTTACAAAATTACCA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCTCT-GATTTATAAAATTACCA
12269344 TTTTACCCTC
Statistics
Matches: 181, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
80 17 0.09
81 156 0.86
82 8 0.04
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTGATTTATAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:12269267 original size:54 final size:54
Alignment explanation
Indices: 12269038--12269377 Score: 280
Period size: 54 Copynumber: 6.3 Consensus size: 54
12269028 TTAGTTTACC
* * * * *
12269038 AAATTATCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTGATTTATA
* * * *
12269092 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACC-CTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTC-TGATTTATA
* * *
12269146 AAATTACCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTGA-TTTAT-A
* *
12269201 AAATT-CCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTGATTTCTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTGATTTATA
** * ** * ** * *
12269254 AAATTACTGAAATA-CCCTCGACCTATAAAATTATTAAAATACC-CTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCTCT-GATTTATA
* * ** *** *
12269308 AAATTACCAAAGTA-CCCTCGATTTACAAAATTACCATTTTACC-CTCGATTTACA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCTCT-GATTTATA
12269362 AAATTACCAAAATACC
1 AAATTACCAAAATACC
12269378 ACTGTAGGGT
Statistics
Matches: 238, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
53 12 0.05
54 217 0.91
55 9 0.04
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTGATTTATA
Found at i:12269337 original size:27 final size:27
Alignment explanation
Indices: 12269038--12269377 Score: 253
Period size: 27 Copynumber: 12.6 Consensus size: 27
12269028 TTAGTTTACC
* * *
12269038 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * * *
12269065 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
12269092 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
12269119 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
12269146 AAATTACCAAAATACCC-CCAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
12269173 AAATTACCAAAATACCC-CTAGTTTGTAA
1 AAATTACCAAAATACCCTCGA-TTTAT-A
* *
12269201 AAATT-CCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
12269227 AAATTACCAAAATA-CCTCTGATTTCTG
1 AAATTACCAAAATACCCTC-GATTTATA
** **
12269254 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTATA
** * *
12269281 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
12269308 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*** *
12269335 AAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
12269362 AAATTACCAAAATACC
1 AAATTACCAAAATACC
12269378 ACTGTAGGGT
Statistics
Matches: 259, Mismatches: 45, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.03
27 240 0.93
28 11 0.04
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:12269393 original size:27 final size:27
Alignment explanation
Indices: 12269371--12269799 Score: 504
Period size: 27 Copynumber: 15.9 Consensus size: 27
12269361 AAAATTACCA
* *
12269371 AAATACCACTGTAGGGTATAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * * *
12269398 AAGTATCCTTGTAAGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
12269425 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
12269452 AAATACCCCTATAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
12269479 AAATACCCCTGTATGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* * **
12269506 AAATACCCCTATAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
12269533 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
12269560 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
12269587 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
12269614 -AATACCCCTGTAGGGTAGAATTGCTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* **
12269640 AAATACCCCTGTAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
12269667 AAATACCCGTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
12269694 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* * *
12269721 AAATACCCTTGTAGGGTAGAAATGCTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
12269748 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
12269775 AGATA-CCCTCGTGGGGTAAAATTAC
1 AAATACCCCT-GTAGGGTAGAATTAC
12269800 CATTTTGCCC
Statistics
Matches: 343, Mismatches: 55, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 28 0.08
27 314 0.92
28 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:12270280 original size:22 final size:22
Alignment explanation
Indices: 12270228--12270292 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
12270218 TTAAAGCCTT
* *
12270228 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
12270250 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
12270272 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
12270293 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:12270482 original size:27 final size:26
Alignment explanation
Indices: 12270452--12270552 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
12270442 TTCTGTTAAG
* * *
12270452 TGGCTTTGCCACATTATCTGTTTCTTA
1 TGGCTATGCCACAATATCTG-TTCTGA
*
12270479 TGGCTATGCCACAAATATCTGTTCTGG
1 TGGCTATGCCAC-AATATCTGTTCTGA
* * *
12270506 TGGCTCTGCCACAATATCTATATCTGG
1 TGGCTATGCCACAATATCTGT-TCTGA
* * *
12270533 TGACTCTGTCACAATATCTG
1 TGGCTATGCCACAATATCTG
12270553 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.13
27 48 0.76
28 7 0.11
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (26 bp):
TGGCTATGCCACAATATCTGTTCTGA
Found at i:12270747 original size:31 final size:31
Alignment explanation
Indices: 12270697--12270861 Score: 195
Period size: 31 Copynumber: 5.3 Consensus size: 31
12270687 ACATTCTAAT
* * *
12270697 TTTTTATTCTGTTACCTGATACTGATTCTAA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* *
12270728 TTTTGATTCTATTAACTGATACTGATACTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
*
12270759 TTTTGTTTCTATTACCTGATACTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* *
12270790 TTTTGATTCTGTTACCTGATACTGATTTTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* * * * * *
12270821 TTCTGATTCTGTCACTTAATTCTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
*
12270852 TTCTGATTCT
1 TTTTGATTCT
12270862 TATTCTGATT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 117 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
TTTTGATTCTATTACCTGATACTGATTCTGA
Found at i:12270789 original size:6 final size:6
Alignment explanation
Indices: 12270712--12270882 Score: 100
Period size: 6 Copynumber: 27.8 Consensus size: 6
12270702 ATTCTGTTAC
* * * * *
12270712 CTGATA CTGATT CTAATT TTGATT CT-ATT AACTGATA CTGATA CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * *
12270761 TTGTTT CT-ATT ACCTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT
* * *
12270811 CTGATT TTGATT CTGATT CTG-TCA CTTAATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT-T C-TGATT CTGATT CTGATT CTGATT
*
12270860 CTTATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
12270883 AATGTTTCTT
Statistics
Matches: 126, Mismatches: 25, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
5 9 0.07
6 101 0.80
7 10 0.08
8 6 0.05
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:12270846 original size:25 final size:24
Alignment explanation
Indices: 12270774--12270883 Score: 91
Period size: 25 Copynumber: 4.5 Consensus size: 24
12270764 TTTCTATTAC
* * * *
12270774 CTGATACTGATTCTGATTTTGATT
1 CTGATTCTGATACTTATTCTGATT
* *
12270798 CTG-TTACCTGATACTGATTTTGATT
1 CTGATT--CTGATACTTATTCTGATT
12270823 CTGATTCTG-TCACTTAATTCTGATT
1 CTGATTCTGAT-ACTT-ATTCTGATT
*
12270848 CTGATTCTGATTCTTATTCTGATT
1 CTGATTCTGATACTTATTCTGATT
12270872 CT-AGTTCTGATA
1 CTGA-TTCTGATA
12270884 ATGTTTCTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
23 3 0.04
24 27 0.37
25 40 0.55
26 3 0.04
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (24 bp):
CTGATTCTGATACTTATTCTGATT
Found at i:12273762 original size:9 final size:10
Alignment explanation
Indices: 12273735--12273760 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12273725 CTCACCGTGG
12273735 ATTTTTTATA
1 ATTTTTTATA
12273745 ATTTTTTATA
1 ATTTTTTATA
12273755 ATTTTT
1 ATTTTT
12273761 ATGTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:12273886 original size:15 final size:15
Alignment explanation
Indices: 12273866--12273896 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12273856 AATTATGAAA
*
12273866 GATATGTTTTGGATT
1 GATATGTTTTGCATT
12273881 GATATGTTTTGCATT
1 GATATGTTTTGCATT
12273896 G
1 G
12273897 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (15 bp):
GATATGTTTTGCATT
Found at i:12278601 original size:28 final size:29
Alignment explanation
Indices: 12278536--12278601 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
12278526 AAGTCTACAT
*
12278536 ACATGCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
12278565 ACATTCATATGGCCCA-TCGTCCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
12278593 ACATTCATA
1 ACATTCATA
12278602 GTCATGCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:12282891 original size:29 final size:28
Alignment explanation
Indices: 12282825--12282918 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
12282815 AAATCTACAT
* * * *
12282825 ACATGCATGTGGCCCACTAGTCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
12282853 TCACTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
12282882 ACATTCATATGGCCCATCAGCCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
12282910 ACATTCATA
1 ACATTCATA
12282919 GTCATGCAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 31 0.56
29 24 0.44
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:12301583 original size:46 final size:46
Alignment explanation
Indices: 12301417--12301634 Score: 192
Period size: 46 Copynumber: 4.7 Consensus size: 46
12301407 TGTAACCCGC
* * * * *
12301417 CCATAAGCGAACTCGGAATCAACTCAACGAGCTCGTACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
12301463 CCATCAGTGAACTCGGACTCAACTCAATGCGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
12301513 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
** ** *
12301556 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAAATGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
12301602 CCATAAGTGAAATCAGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
12301635 TGGATGCCCA
Statistics
Matches: 139, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 2 0.01
46 94 0.68
47 27 0.19
48 3 0.02
49 1 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:12305685 original size:10 final size:10
Alignment explanation
Indices: 12305670--12305698 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
12305660 GTCATCCATA
12305670 CCAAATCATG
1 CCAAATCATG
12305680 CCAAATCATG
1 CCAAATCATG
12305690 CCAAATCAT
1 CCAAATCAT
12305699 AATCTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (10 bp):
CCAAATCATG
Found at i:12308400 original size:101 final size:99
Alignment explanation
Indices: 12308201--12308401 Score: 276
Period size: 101 Copynumber: 2.0 Consensus size: 99
12308191 TATGTAGCCA
* * * *
12308201 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATCCAGTACACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACAAACGCGACCAATTATCCAGTACACA
*
12308266 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * ** **
12308300 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACAAACGCGA-CCAA-TTATCCAGTACA
12308365 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
12308401 A
1 A
12308402 GCTACATATA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 42 0.48
100 3 0.03
101 43 0.49
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACAAACGCGACCAATTATCCAGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:12317014 original size:47 final size:47
Alignment explanation
Indices: 12316914--12317033 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 47
12316904 AGGCACCGAT
* * *
12316914 GCCATGTCCCAGACACGGTCTTACACTGGCTCATATCTTAAGTCAAA
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATATCTTAAGCCAAA
*
12316961 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGT-AGCCGAA
1 GCCATGTCCCAGACATGGTCTTACACTGACTCAT-ATCT--TAAGCCAAA
* *
12317009 G-CATGTCCGAGACAT-ATCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
12317034 AGCTTACGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
46 11 0.17
47 46 0.72
48 6 0.09
49 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATATCTTAAGCCAAA
Found at i:12321150 original size:54 final size:54
Alignment explanation
Indices: 12321071--12321253 Score: 249
Period size: 54 Copynumber: 3.4 Consensus size: 54
12321061 TGGATAAGTT
* * *
12321071 GTAGAATTACCGAAATACCCCTATAAGATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTATAAGGTAGAATTACCGAAATACCCCTGTAGG
* **
12321125 GTAAAATTATTGAAATACCCTTATAAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTATAAGGTAGAATTACCGAAATACCCCTGTAGG
* * * * * *
12321179 ATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCTTATAAGGTAGAATTACCGAAATACCCCTGTAGG
*
12321233 GTAGAATTACCGAGATACCCT
1 GTAGAATTACCGAAATACCCT
12321254 CGTGGGGTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCTTATAAGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:12321206 original size:81 final size:81
Alignment explanation
Indices: 12321071--12321252 Score: 258
Period size: 81 Copynumber: 2.2 Consensus size: 81
12321061 TGGATAAGTT
* *
12321071 GTAGAATTACCGAAATACCCCTATAAGATAGAATTATCGAAATACCCCTGTAGGGTA-AAATTAT
1 GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCCTGTAGGGTAGAAA-TAC
** *
12321135 TGAAATACCCTTATAAG
65 CAAAATACCCCTATAAG
* * *
12321152 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
1 GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCCTGTAGGGTAGAAATACC
*
12321217 AAAATACCCCTGTAAG
66 AAAATACCCCTATAAG
*
12321233 GTAGAATTACCGAGATACCC
1 GTAGAATTACCGAAATACCC
12321253 TCGTGGGGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 87 0.97
82 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCCTGTAGGGTAGAAATACC
AAAATACCCCTATAAG
Found at i:12321262 original size:27 final size:27
Alignment explanation
Indices: 12321071--12321270 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
12321061 TGGATAAGTT
* *
12321071 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
12321098 ATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** * * *
12321125 GTAAAATTATTGAAATACCCTTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
12321152 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
12321179 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
12321206 GTAGAAATACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
12321233 GTAGAATTACCGAGATA-CCCTCGTGGG
1 GTAGAATTACCGAAATACCCCT-GTAGG
*
12321260 GTAAAATTACC
1 GTAGAATTACC
12321271 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 4 0.03
27 139 0.97
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:12324045 original size:17 final size:18
Alignment explanation
Indices: 12324023--12324056 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12324013 TGAAGCATAC
12324023 AGAAAG-TCAGAATCGTG
1 AGAAAGATCAGAATCGTG
12324040 AGAAAGATCAGAATCGT
1 AGAAAGATCAGAATCGT
12324057 TTTAGGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (18 bp):
AGAAAGATCAGAATCGTG
Found at i:12326080 original size:40 final size:40
Alignment explanation
Indices: 12326036--12326259 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
12326026 TCCTCGTTCA
* *
12326036 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
12326076 AATGCCTTCGGGACTTAACCCGAATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
12326116 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
12326156 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
12326196 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
12326236 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12326260 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.93
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:12330266 original size:22 final size:22
Alignment explanation
Indices: 12330238--12330282 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
12330228 TTATCGACTT
12330238 TCGAGGCAATTGGGAGGATTAC
1 TCGAGGCAATTGGGAGGATTAC
*
12330260 TCGAGGCAGTTGGGAGGATTAC
1 TCGAGGCAATTGGGAGGATTAC
12330282 T
1 T
12330283 TACCGTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.24
Consensus pattern (22 bp):
TCGAGGCAATTGGGAGGATTAC
Found at i:12331863 original size:27 final size:27
Alignment explanation
Indices: 12331822--12331994 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
12331812 TGGATAAGTT
12331822 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
12331849 GTAGAATTATTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
12331876 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
12331903 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
12331930 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
12331957 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
12331984 GTAAAATTACC
1 GTAGAATTACC
12331995 ATTTTGCCCC
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:12332733 original size:27 final size:27
Alignment explanation
Indices: 12332703--12332755 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
12332693 CCTCGCTACA
*
12332703 ATCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGACCTAGCCACAATATCTGT
* * *
12332730 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTAGCCACAATATCTG
12332756 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
ATCTGGTGACCTAGCCACAATATCTGT
Found at i:12332735 original size:67 final size:67
Alignment explanation
Indices: 12332618--12332771 Score: 265
Period size: 67 Copynumber: 2.3 Consensus size: 67
12332608 GAGGAAGCGT
* *
12332618 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
12332683 TA
66 TA
*
12332685 TGTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACATATATCTGT-TCTGGTGACTTCGTCACA
12332749 ATA
65 ATA
12332752 TCTGGCAGCCTCGCTACAAT
1 TCTGGCAGCCTCGCTACAAT
12332772 TTCTGTGGTG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 8 0.10
67 74 0.90
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:12365841 original size:46 final size:46
Alignment explanation
Indices: 12365695--12366367 Score: 303
Period size: 46 Copynumber: 14.4 Consensus size: 46
12365685 ATTGTGAGCT
* * * ** *
12365695 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGA--GACATGAGTC
* * * *
12365741 AGTGTAAAACCATGTCTAGGACATGGCATCGACATTGAGAC--GAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACATGAGT-C
* *
12365788 TAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGACATAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACATGAGTC
* * * *
12365835 AATGTAAGACATGTCTGAGACATGCATCG-GCTACGAG--ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGACATGAGTC
* * *** * * *
12365879 AGTGTAAGACCATGTCTGGGATATGGCATTGGTATAGATATGC-TAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGA--CAT-GAGTC
* * * * ** *
12365929 TGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGA--GACATGAGTC
* * * *
12365975 AGTGTAAAACCATGTCTAGGACATGGCATCGACATTGAGAC--GAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACATGAGT-C
* *
12366022 TAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGACATAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACATGAGTC
* * * *
12366069 AATGTAAGACATGTCTGAGACATGCATCG-GCTACGAG--ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGACATGAGTC
* * *** * * *
12366113 AGTGTAAGACCATGTCTGGGATATGGCATTGGTATAGATATGC-TAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGA--CAT-GAGTC
* * * * ** *
12366163 TGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGA--GACATGAGTC
* * * *
12366209 AGTGTAAAACCATGTCTAGGACATGGCATCGACATTGAGAC--GAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACATGAGT-C
* *
12366256 TAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGACATAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACATGAGTC
* * * *
12366303 AATGTAAGACATGTCTGAGACATGCATCG-GCTACGAG--ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGACATGAGTC
12366347 AGTGTAAGACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
12366368 TATGGCATTG
Statistics
Matches: 474, Mismatches: 106, Indels: 95
0.70 0.16 0.14
Matches are distributed among these distances:
44 39 0.08
45 40 0.08
46 184 0.39
47 94 0.20
48 66 0.14
49 29 0.06
50 22 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACATGAGTC
Found at i:12365943 original size:94 final size:92
Alignment explanation
Indices: 12365695--12366429 Score: 300
Period size: 94 Copynumber: 7.9 Consensus size: 92
12365685 ATTGTGAGCT
* ** * * *
12365695 AGTGTAAGACATGTCTAGGACATGCATCGG-CCACA-TTG-TGAGAGCCAGTGTAAAACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGTATAGAGATGCT-AGAGCCAGTGTAAGA-CATGTC
* * *
12365757 T-AGGACATGGCATCGAC-ATTGAGACGAGTGC
64 TGA-GACAT-GCATCGGCTA-CGAGATGAGT-C
* *** * * *
12365788 TAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGA--CATA-AGTCAATGTAAGACATGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGTATAGAGATGC-TAGAGCCAGTGTAAGACATGTC
*
12365850 TGAGACATGCATCGGCTACGAGATGTGTC
64 TGAGACATGCATCGGCTACGAGATGAGTC
* * * *
12365879 AGTGTAAGACCATGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCTGTGTAAGACATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTATAGAGATGCTAGAGCCAGTGTAAGACATGTC
* * *
12365944 T-AGGACATGCATCGGCCACATTGTGA-GAGCC
64 TGA-GACATGCATCGGCTAC---GAGATGAGTC
* * ** * * * *
12365975 AGTGTAAAACCATGTCTAGGACATGGCATCGACATTGAGA--CGAGTGCTAGTGTAAGACATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTATAGAGATGCTAGAGCCAGTGTAAGACATGTC
* * * *
12366038 TGGGACATGTATCGACCT-CGAGACATAAGTC
64 TGAGACATGCATCG-GCTACGAG--ATGAGTC
* * * *
12366069 AATGTAAGACATGTCTGAGACATGCATCGGCTA-CGAGATG-T---GTCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-TATAGAGATGCTAGAGCCAGTGTAAGA-CATGTC
* * * * * *
12366129 TGGGATATGGCATTGG-TATAGATATGCTAGAGCC
64 TGAGACAT-GCATCGGCTA-CG--A-GAT-GAGTC
* * ** * * *
12366163 TGTGTAAGACATGTCTAGGACATGCATCGG-CCACA-TTG-TGAGAGCCAGTGTAAAACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGTATAGAGATGCT-AGAGCCAGTGTAAGA-CATGTC
* * *
12366225 T-AGGACATGGCATCGAC-ATTGAGACGAGTGC
64 TGA-GACAT-GCATCGGCTA-CGAGATGAGT-C
* *** * * *
12366256 TAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGA--CATA-AGTCAATGTAAGACATGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGTATAGAGATGC-TAGAGCCAGTGTAAGACATGTC
*
12366318 TGAGACATGCATCGGCTACGAGATGTGTC
64 TGAGACATGCATCGGCTACGAGATGAGTC
* * * *
12366347 AGTGTAAGACCATGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCTGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTATAGAGATGCTAGAGCCAGTGTAAGA-CATGT
* *
12366412 TTGGGACATGGCATCGGC
63 CTGAGACAT-GCATCGGC
12366430 ATCTTACCCC
Statistics
Matches: 476, Mismatches: 112, Indels: 104
0.69 0.16 0.15
Matches are distributed among these distances:
90 29 0.06
91 43 0.09
92 65 0.14
93 49 0.10
94 191 0.40
95 20 0.04
96 76 0.16
97 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGTATAGAGATGCTAGAGCCAGTGTAAGACATGTCTG
AGACATGCATCGGCTACGAGATGAGTC
Found at i:12366105 original size:234 final size:234
Alignment explanation
Indices: 12365696--12366429 Score: 1432
Period size: 234 Copynumber: 3.1 Consensus size: 234
12365686 TTGTGAGCTA
12365696 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
1 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
12365761 ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
66 ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
12365826 ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
131 ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
12365891 TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
196 TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
12365930 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
1 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
12365995 ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
66 ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
12366060 ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
131 ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
12366125 TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
196 TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
12366164 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
1 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
12366229 ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
66 ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
12366294 ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
131 ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
12366359 TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
196 TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
* *
12366398 GTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGC
12366430 ATCTTACCCC
Statistics
Matches: 496, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
234 476 0.96
235 12 0.02
236 8 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (234 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGAGAGCCAGTGTAAAACCATGTCTAGG
ACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGACCTCGAG
ACATAAGTCAATGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCA
TGTCTGGGATATGGCATTGGTATAGATATGCTAGAGCCT
Found at i:12377880 original size:8 final size:8
Alignment explanation
Indices: 12377867--12377904 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
12377857 CTAGATACCG
12377867 TTCTTCTC
1 TTCTTCTC
12377875 TTCTTCTC
1 TTCTTCTC
*
12377883 ATCTTCTC
1 TTCTTCTC
*
12377891 ATCTTCTC
1 TTCTTCTC
12377899 TT-TTCT
1 TTCTTCT
12377905 ATGCTTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (8 bp):
TTCTTCTC
Found at i:12386887 original size:40 final size:39
Alignment explanation
Indices: 12386811--12386887 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
12386801 ATTGTGCTGA
* * *
12386811 GATTGTATCTGGGTTAGAGACCCGCTGGCTTCATGCTAG
1 GATTGTATCTGGGTTAAAGACCCGCAGGCTTAATGCTAG
*
12386850 GATTGTATCTGGGTTTAAAGTCCCGCAGGCTTAATGCT
1 GATTGTATCTGGG-TTAAAGACCCGCAGGCTTAATGCT
12386888 GGTGAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 13 0.39
40 20 0.61
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (39 bp):
GATTGTATCTGGGTTAAAGACCCGCAGGCTTAATGCTAG
Found at i:12389258 original size:40 final size:40
Alignment explanation
Indices: 12389203--12389480 Score: 502
Period size: 40 Copynumber: 7.0 Consensus size: 40
12389193 TGAGAGTTAG
*
12389203 ATATCCGGGCTAAGTCTTGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
12389243 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
12389283 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
12389323 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
12389363 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
12389403 ATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
* * *
12389443 ATATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTG
12389481 ATGTGTATTC
Statistics
Matches: 230, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 230 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
Found at i:12391283 original size:47 final size:45
Alignment explanation
Indices: 12391230--12391350 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
12391220 TGGCCATGAT
12391230 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
12391277 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
* *
12391322 AGGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
12391351 AAAGTGTGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
45 19 0.31
46 7 0.11
47 35 0.57
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:12397464 original size:92 final size:94
Alignment explanation
Indices: 12397247--12397466 Score: 256
Period size: 94 Copynumber: 2.4 Consensus size: 94
12397237 GCTATTGTGA
* * ** *
12397247 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--A-TTGTGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCC-TCGAGACGT-A-AGTCAGTGTAAGACCAT
**
12397309 GTCTGGGACATGGCATCGGCTTTGAGACGAGT
63 GTCTGGGACATGGCATCGGCTACGAGACGAGT
12397341 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGACGTAAGTCAGTGTAAGA-CATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGACGTAAGTCAGTGTAAGACCATGTC
* *
12397405 TGGGACAT-GCATCGGCTACGAGATGTGT
66 TGGGACATGGCATCGGCTACGAGACGAGT
*
12397433 -C-AGTGTAAGACCATGTTTGGGACATGGTATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGC
12397467 ACAAATATGC
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
90 9 0.08
91 14 0.13
92 24 0.22
93 15 0.14
94 45 0.41
95 2 0.02
96 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGACGTAAGTCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCTACGAGACGAGT
Found at i:12397465 original size:46 final size:43
Alignment explanation
Indices: 12397250--12397458 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 43
12397240 ATTGTGAGCT
* * * * *
12397250 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGC---TCGAGACGTGTC
* *
12397296 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGACGTGT-C
*
12397343 TAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACGT--GTC
*
12397390 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGTGTC
*
12397434 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12397459 GTATCGGCAC
Statistics
Matches: 143, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
44 12 0.08
45 21 0.15
46 61 0.43
47 33 0.23
48 16 0.11
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGTGTC
Found at i:12397490 original size:94 final size:93
Alignment explanation
Indices: 12397247--12397512 Score: 249
Period size: 94 Copynumber: 2.8 Consensus size: 93
12397237 GCTATTGTGA
* * * **
12397247 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCC-ATA-TTGTGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTAAAGACGT-A-AGCCAGTGTAAGA-CATG
**
12397310 TCTGGGACATGGCATCGGCTTTGAGACGAGT
63 TCTGGGACATGGCATCGGCTACGAGACGAGT
** *
12397341 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGACGTAAGTCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTAAAGACGTAAGCCAGTGTAAGACATGTCT
* *
12397406 GGGACAT-GCATCGGCTACGAGATGTGT
66 GGGACATGGCATCGGCTACGAGACGAGT
* * * *
12397433 -C-AGTGTAAGACCATGTTTGGGACATGGTATCGGCAC-AAATATGCTAAAGCCTGTGTAAGACG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGC-CTAAAGACG-T-AAGCCAGTGTAAGAC-
*
12397495 ATGT-TTGGACATGGCATC
60 ATGTCTGGGACATGGCATC
12397513 AGCATCTTAC
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
90 9 0.06
91 14 0.10
92 27 0.19
93 16 0.11
94 65 0.45
95 11 0.08
96 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTAAAGACGTAAGCCAGTGTAAGACATGTCT
GGGACATGGCATCGGCTACGAGACGAGT
Found at i:12402462 original size:18 final size:18
Alignment explanation
Indices: 12402439--12402476 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12402429 CAAAAGGAAT
* *
12402439 TTTTCATTTTCATTTTTA
1 TTTTCAATTTCAATTTTA
12402457 TTTTCAATTTCAATTTTA
1 TTTTCAATTTCAATTTTA
12402475 TT
1 TT
12402477 ATTTTGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCAATTTCAATTTTA
Found at i:12405762 original size:11 final size:11
Alignment explanation
Indices: 12405746--12405776 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12405736 TAGGATACGA
12405746 ATGACATGTAT
1 ATGACATGTAT
12405757 ATGACATGTAT
1 ATGACATGTAT
*
12405768 ACGACATGT
1 ATGACATGT
12405777 GTTGCGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGACATGTAT
Found at i:12410672 original size:30 final size:30
Alignment explanation
Indices: 12410616--12410673 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
12410606 TTTTCGAGCA
* *
12410616 TAGGGGTAAAATGGTCATTTCGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTCACCAAAGTT
12410646 TAGGGGCAAAATGGTCACTTT-ACCAAAG
1 TAGGGGCAAAATGGTCA-TTTCACCAAAG
12410674 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTCACCAAAGTT
Found at i:12411195 original size:47 final size:45
Alignment explanation
Indices: 12411018--12411235 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 45
12411008 TTTGTGAGCT
* * * ** * *
12411018 AGTGTAAGACATGTTTGGGATATGCATCGGCATTGAGACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGAC-TTGAGATTATAGCC
*
12411064 AGTGTAAGACATGTCTGGGACATGCATCGGTCTTGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTTGAGAT-TATAGCC
* * * *
12411110 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATTATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-TGAGATTATAGCC
* * *
12411156 AGTGTAAGACCGTGTCTGGGACATGGCATTGACTTGAGA-TATGAACC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTTGAGATTAT-AGCC
*
12411203 AGTGTAAGACCGTGTCTGGGACATGGCATCGAC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
12411236 ACCTTACCCA
Statistics
Matches: 147, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
45 5 0.03
46 82 0.56
47 53 0.36
48 7 0.05
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTTGAGATTATAGCC
Found at i:12420085 original size:64 final size:64
Alignment explanation
Indices: 12420004--12420187 Score: 212
Period size: 67 Copynumber: 2.8 Consensus size: 64
12419994 AGACATTATG
* * *
12420004 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
12420068 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
12420133 AA
63 AA
* * *
12420135 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
12420188 CGAACTATAT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 22 0.22
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:12420121 original size:67 final size:64
Alignment explanation
Indices: 12419980--12420133 Score: 182
Period size: 67 Copynumber: 2.3 Consensus size: 64
12419970 CATCATGTGT
* * * *
12419980 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATG
12420045 TAG
62 TAG
* * *
12420048 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGT
12420113 AG
63 AG
12420115 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
12420134 AACTGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 25 0.33
65 3 0.04
66 4 0.05
67 30 0.40
68 13 0.17
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAG
Found at i:12423255 original size:40 final size:39
Alignment explanation
Indices: 12423218--12423402 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
12423208 GCTACTCGTT
*
12423218 CAAATGCCTTCGAGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGATT-TAGTAACTCGCA
*
12423258 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * *
12423298 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
12423337 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
12423378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
12423403 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 37 0.30
40 72 0.58
41 16 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:12423329 original size:79 final size:81
Alignment explanation
Indices: 12423218--12423402 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
12423208 GCTACTCGTT
* * *
12423218 CAAATGCCTTCGAGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCG-GGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
12423281 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
12423298 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
12423362 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
12423378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
12423403 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:12426054 original size:15 final size:14
Alignment explanation
Indices: 12426036--12426075 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
12426026 TTTTTGTGTC
*
12426036 TTGGATTTCTTTAT
1 TTGGATTTCTATAT
12426050 GTTGGATTTCTATAT
1 -TTGGATTTCTATAT
12426065 TCTGGATTTCT
1 T-TGGATTTCT
12426076 CCGTTATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.57
Consensus pattern (14 bp):
TTGGATTTCTATAT
Found at i:12428262 original size:20 final size:20
Alignment explanation
Indices: 12428239--12428285 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
12428229 GGGTTAAGAT
*
12428239 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
12428259 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
12428279 TGAGCTG
1 TGAGCTG
12428286 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:12435064 original size:27 final size:27
Alignment explanation
Indices: 12435019--12435110 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
12435009 GTACAAATCT
* * * * *
12435019 GTCATTTTAACTTACAGGGGTATTACA
1 GTCATTTTACCATATAGGGGTATTTCG
12435046 GTCATTTTACCATATAGGGGTATTTCG
1 GTCATTTTACCATATAGGGGTATTTCG
** * *
12435073 GTCATTCAACCCTATGGGGGTATTTCG
1 GTCATTTTACCATATAGGGGTATTTCG
12435100 GTCATTTTACC
1 GTCATTTTACC
12435111 TTACAAGGCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATATAGGGGTATTTCG
Found at i:12462527 original size:46 final size:46
Alignment explanation
Indices: 12462477--12462648 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
12462467 GGTTGAGCAT
* * *
12462477 CTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGC
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGC
* * *
12462523 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--ACGC
** *
12462568 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGC
* *
12462616 CTTAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
12462649 GGGGCAGATT
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.54
47 26 0.25
48 5 0.05
50 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGC
Found at i:12470454 original size:15 final size:15
Alignment explanation
Indices: 12470434--12470495 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
12470424 TCTTGGGTTT
12470434 CTTTATTCTGGATTC
1 CTTTATTCTGGATTC
* *
12470449 CTTTATTCTAGATTT
1 CTTTATTCTGGATTC
* *
12470464 CTCTA-TCTTGGATTT
1 CTTTATTC-TGGATTC
*
12470479 CTTTATTC-GGTTTC
1 CTTTATTCTGGATTC
12470493 CTT
1 CTT
12470496 GTTATCTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 9 0.24
15 27 0.71
16 2 0.05
ACGTcount: A:0.13, C:0.19, G:0.11, T:0.56
Consensus pattern (15 bp):
CTTTATTCTGGATTC
Found at i:12476336 original size:55 final size:54
Alignment explanation
Indices: 12476228--12476435 Score: 217
Period size: 55 Copynumber: 3.8 Consensus size: 54
12476218 ATTAGGGTTT
* * * *
12476228 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATCGGTATGGTT-TCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTA-AGTTCTATAAGGA
* * *
12476283 AAGGATACCATGTAAGACCATGTCAAGACATGTCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG-A
* * * *
12476339 AAGG-T-CTCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATAC-CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
* * *
12476391 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
12476436 TCAAAAGGAT
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 8 0.06
55 69 0.54
56 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
Found at i:12476434 original size:108 final size:109
Alignment explanation
Indices: 12476236--12476435 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 109
12476226 TTAAGGATAC
12476236 CATGTAAGACCATGCCAAGGCATGGCAATCGGTATGGTTTCTAAGGAAAGGATACCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCAATCGGTA-GGTTTCTAAGGAAAGGATACCATGTAAGAC
* *
12476301 CATGTCAAGACATGTCATTGATAAGTTACTATAAGGCAAAGGTCT
65 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
* * *
12476346 CATGTAAGACTATGCCAAGGCATGGC-ATTGGT-GAG-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATCGGTAG-GTTTC-TAAGGAAAGGATACCATGTAAGA
* *
12476408 CCATGTCGAGACATGGCAATGGTAAGTT
64 CCATGTCAAGACATGGCAATGATAAGTT
12476436 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 4 0.05
108 47 0.58
109 5 0.06
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCAATCGGTAGGTTTCTAAGGAAAGGATACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:12496242 original size:20 final size:20
Alignment explanation
Indices: 12496219--12496268 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
12496209 CAGCTCGAAC
*
12496219 CAGCTCACTTGAGCTTAATT
1 CAGCTCACTTGAGCCTAATT
12496239 CAGCTCA-TCTGAGCCTAATT
1 CAGCTCACT-TGAGCCTAATT
* *
12496259 TAGCTTACTT
1 CAGCTCACTT
12496269 TCAGCTCGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (20 bp):
CAGCTCACTTGAGCCTAATT
Found at i:12507533 original size:27 final size:27
Alignment explanation
Indices: 12507503--12507680 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12507493 ATATTGAGTC
* * * *
12507503 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12507530 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12507557 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12507585 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12507612 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12507639 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12507666 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12507681 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12507642 original size:82 final size:81
Alignment explanation
Indices: 12507524--12507679 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12507514 TGCTATATAA
* *
12507524 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12507589 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12507606 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12507670 CACTTAGTGC
65 CACTTAGTGC
12507680 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12514015 original size:20 final size:20
Alignment explanation
Indices: 12513976--12514020 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12513966 CAGCTTGAAC
**
12513976 CAGCTCATTTGAGCTTAATT
1 CAGCTCATTTGAGCCCAATT
12513996 CAGCTCATTTGAGCCCAATT
1 CAGCTCATTTGAGCCCAATT
*
12514016 TAGCT
1 CAGCT
12514021 TACTTTCAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (20 bp):
CAGCTCATTTGAGCCCAATT
Found at i:12523711 original size:11 final size:10
Alignment explanation
Indices: 12523679--12523733 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
12523669 CATGAGATTT
12523679 TGATAT-ACA
1 TGATATGACA
*
12523688 TGATTTGACA
1 TGATATGACA
12523698 TGATATGCACA
1 TGATATG-ACA
*
12523709 TGATATG-TA
1 TGATATGACA
12523718 TGATATGCACA
1 TGATATG-ACA
12523729 TGATA
1 TGATA
12523734 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:12526909 original size:48 final size:48
Alignment explanation
Indices: 12526843--12526981 Score: 197
Period size: 48 Copynumber: 2.9 Consensus size: 48
12526833 GTGAATTGCT
*
12526843 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAACGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCC
* * * * **
12526891 GGTGCTATGTCCCAAACATGGTCTTACACTTGCTCTCATATCATGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCC
* *
12526939 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
12526982 CCCAAATGTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCC
Found at i:12527338 original size:30 final size:31
Alignment explanation
Indices: 12527299--12527357 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
12527289 ATAATTCATA
*
12527299 TTTTGACAAAATGACCATTTTGCCCCTAGAC
1 TTTTGACAAAATGACCATTTTACCCCTAGAC
* *
12527330 TTTT-ACAAAATTACTATTTTACCCCTAG
1 TTTTGACAAAATGACCATTTTACCCCTAG
12527358 GCTTGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (31 bp):
TTTTGACAAAATGACCATTTTACCCCTAGAC
Found at i:12545970 original size:13 final size:13
Alignment explanation
Indices: 12545952--12545978 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12545942 GGGCCAATCG
12545952 CACACGGGCGTGT
1 CACACGGGCGTGT
12545965 CACACGGGCGTGT
1 CACACGGGCGTGT
12545978 C
1 C
12545979 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:12546372 original size:12 final size:13
Alignment explanation
Indices: 12546336--12546373 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
12546326 AAATATTTGA
12546336 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
12546349 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
12546363 CTTG-TCTTAAT
1 CTTGTTCTTAAT
12546374 ACTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:12549537 original size:17 final size:17
Alignment explanation
Indices: 12549497--12549538 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
12549487 AGGCTAATTT
*
12549497 TGGGCCGAAGTGGGTCG
1 TGGGCCCAAGTGGGTCG
12549514 TGTGGCCCAA-TGGGCTCG
1 TG-GGCCCAAGTGGG-TCG
12549532 TGGGCCC
1 TGGGCCC
12549539 CATTCGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.10, C:0.26, G:0.45, T:0.19
Consensus pattern (17 bp):
TGGGCCCAAGTGGGTCG
Found at i:12561786 original size:21 final size:20
Alignment explanation
Indices: 12561762--12561800 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12561752 TTGTAAATGT
12561762 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
12561783 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
12561801 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:12563726 original size:21 final size:20
Alignment explanation
Indices: 12563702--12563740 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12563692 TTGTAAATGT
12563702 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
12563723 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
12563741 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:12571937 original size:27 final size:26
Alignment explanation
Indices: 12571893--12571944 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12571883 CTCGCTGCAA
*
12571893 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
12571920 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
12571945 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:12580728 original size:47 final size:47
Alignment explanation
Indices: 12580670--12581017 Score: 624
Period size: 47 Copynumber: 7.4 Consensus size: 47
12580660 CAGCCAAGAC
12580670 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12580717 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12580764 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12580811 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12580858 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12580905 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
12580952 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
12580999 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
12581018 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 291 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:12581192 original size:37 final size:37
Alignment explanation
Indices: 12581136--12581214 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12581126 CCGAGCTCTA
* * *
12581136 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
12581173 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
12581210 AAGAC
1 AAGAC
12581215 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:12584846 original size:29 final size:28
Alignment explanation
Indices: 12584810--12584887 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
12584800 TCATGAGATT
12584810 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
12584840 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
12584867 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
12584888 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:12585107 original size:145 final size:145
Alignment explanation
Indices: 12584865--12585138 Score: 521
Period size: 145 Copynumber: 1.9 Consensus size: 145
12584855 GTTTAAAGTA
*
12584865 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGGGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
**
12584930 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTTGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
12584995 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
12585010 CATGGCACTAAGTGTGCGGGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGGGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
12585075 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
12585139 ACCTTGAGTT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 126 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGGGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:12589794 original size:68 final size:68
Alignment explanation
Indices: 12589644--12589801 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
12589634 CTAGCCAATT
* * *
12589644 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
12589709 TTTA
65 CATA
* * *
12589713 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
12589775 CTACATA
63 C-ACATA
*
12589782 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
12589802 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:12596710 original size:253 final size:259
Alignment explanation
Indices: 12596208--12596714 Score: 600
Period size: 253 Copynumber: 2.0 Consensus size: 259
12596198 ATTCATATAA
* *
12596208 CTAAACGGATAATTTCATATACACATATATTCTCAAAAATCAGTCCTACTTCACATTTCCAACCC
1 CTAAACGGATAATCTCATATACACATATATTCTCAAAAATCAGTCCTACTTCACATTGCCAACCC
* ** *
12596273 TTATATTCATACATAAGGGATCAACTTAACCAAAAACCAGAAGCTCCTTAATCGACTGAGCGAAT
66 TTATATTCATACACAAAAGATCAACTTAACCAAAAACCAGAAGCTCATTAATCGACTGAGCGAAT
* * * * *
12596338 GCTATATAAGAGGAATCAATTAATCCAATGCATGTACAAAACATACCTCATTGTTGGGATTTTAC
131 ACTATATAAGAGGAATCAATCAACCCAATGCATATACAAAACATACCTCATCGTTGGGATTTTAC
* * * * *
12596403 GAGCATGTTAATTGAAACTATTACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGTATGG
196 GAGCATATCAATTGAAACTATTACAGCAAGATCACTCATTCCCAAACCAAGTACCTTCGTATGG
* * *
12596467 CTAAACGGATAATCTCATATGCACA-A-ATTCTC-AATATCA-TACTTACTTCACATTGCCAACC
1 CTAAACGGATAATCTCATATACACATATATTCTCAAAAATCAGT-CCTACTTCACATTGCCAACC
* * ** * **
12596528 CTTATATTCATGCACAAAAGATCAACTTAGCC-AAGGCCGGAAGCTCATTAATTTACTGAGCGAA
65 CTTATATTCATACACAAAAGATCAACTTAACCAAAAACCAGAAGCTCATTAATCGACTGAGCGAA
* * * * **
12596592 TATTATTTAA-ACGGAATC-A-CCACCCTAATGCATATACGAAATGTACCTCATCGTTGGG-TTT
130 TACTATATAAGA-GGAATCAATCAACCC-AATGCATATACAAAACATACCTCATCGTTGGGATTT
* * * *
12596653 TACGAGCGTATCAATTTAAATTATTACAGCAAGATCACTCGTTCCCAAACCAAGTACCTTCG
193 TACGAGCATATCAATTGAAACTATTACAGCAAGATCACTCATTCCCAAACCAAGTACCTTCG
12596715 GAGTTTAGCC
Statistics
Matches: 209, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
253 59 0.28
254 29 0.14
255 40 0.19
256 51 0.24
257 6 0.03
258 1 0.00
259 23 0.11
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (259 bp):
CTAAACGGATAATCTCATATACACATATATTCTCAAAAATCAGTCCTACTTCACATTGCCAACCC
TTATATTCATACACAAAAGATCAACTTAACCAAAAACCAGAAGCTCATTAATCGACTGAGCGAAT
ACTATATAAGAGGAATCAATCAACCCAATGCATATACAAAACATACCTCATCGTTGGGATTTTAC
GAGCATATCAATTGAAACTATTACAGCAAGATCACTCATTCCCAAACCAAGTACCTTCGTATGG
Found at i:12596786 original size:40 final size:40
Alignment explanation
Indices: 12596742--12596886 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
12596732 GCCACTAGCT
* *
12596742 CAAATGCCTTTGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
12596782 CAAATGCCTTCGGGACTTAGCCAGGAATTAGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
12596822 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCT-ACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG-TAACTCGCA
12596862 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
12596887 TTATCATCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:12603661 original size:50 final size:49
Alignment explanation
Indices: 12603546--12603721 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 49
12603536 TGAGGTCGCA
* * * * *
12603546 TGTGTAGTACTAAGTGCAGGCTACCATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* * **
12603597 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * ** *
12603647 TGTGTAGTACTAAGTGCAGGATACTACGTGTACCGGATAATTGGTTTCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
12603696 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
12603722 TGCGTACTAG
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
49 29 0.28
50 44 0.42
51 32 0.30
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:12604164 original size:27 final size:27
Alignment explanation
Indices: 12604129--12604183 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
12604119 GATATTCTAA
* *
12604129 TTTTTGTGAGATAGTATCAGAATGAAT
1 TTTTTGTGAGACAGTATCAGAATAAAT
*
12604156 TTTTTGTGAGACAGTGTCAGAATAAAT
1 TTTTTGTGAGACAGTATCAGAATAAAT
12604183 T
1 T
12604184 CGAGATCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (27 bp):
TTTTTGTGAGACAGTATCAGAATAAAT
Found at i:12605682 original size:7 final size:7
Alignment explanation
Indices: 12605670--12605697 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
12605660 TCAATCATCC
12605670 CTCACCA
1 CTCACCA
12605677 CTCACCA
1 CTCACCA
12605684 CTCACCA
1 CTCACCA
12605691 CTCACCA
1 CTCACCA
12605698 TCCCATCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.57, G:0.00, T:0.14
Consensus pattern (7 bp):
CTCACCA
Found at i:12609298 original size:14 final size:15
Alignment explanation
Indices: 12609274--12609305 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
12609264 CTGCATGATA
12609274 TTTCTTTCTCCTCCT
1 TTTCTTTCTCCTCCT
12609289 TTTC-TTCTCCTCCT
1 TTTCTTTCTCCTCCT
12609303 TTT
1 TTT
12609306 ATTTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCTTTCTCCTCCT
Found at i:12613455 original size:21 final size:21
Alignment explanation
Indices: 12613431--12613481 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
12613421 TTTTCAGCAG
12613431 CTTCTTCTTCT-TCAGCAACAA
1 CTTCTTCTTCTAT-AGCAACAA
* *
12613452 CTTCCTCTTCTATAGCAACAG
1 CTTCTTCTTCTATAGCAACAA
12613473 CTTCCTTCT
1 CTT-CTTCT
12613482 CAAATATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (21 bp):
CTTCTTCTTCTATAGCAACAA
Found at i:12622865 original size:27 final size:27
Alignment explanation
Indices: 12622835--12623012 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12622825 ATATTGAGTC
* * * *
12622835 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12622862 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12622889 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12622917 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12622944 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12622971 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12622998 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12623013 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12622974 original size:82 final size:81
Alignment explanation
Indices: 12622856--12623011 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12622846 TGCTATATAA
* *
12622856 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12622921 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12622938 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12623002 CACTTAGTGC
65 CACTTAGTGC
12623012 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12623517 original size:12 final size:12
Alignment explanation
Indices: 12623500--12623525 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12623490 ATGGCATACT
12623500 TATGTATATATA
1 TATGTATATATA
12623512 TATGTATATATA
1 TATGTATATATA
12623524 TA
1 TA
12623526 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:12630981 original size:27 final size:27
Alignment explanation
Indices: 12630951--12631128 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12630941 ATATTGAGTC
* * * *
12630951 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12630978 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12631005 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12631033 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12631060 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12631087 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12631114 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12631129 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12631090 original size:82 final size:81
Alignment explanation
Indices: 12630972--12631127 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12630962 TGCTATATAA
* *
12630972 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12631037 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12631054 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12631118 CACTTAGTGC
65 CACTTAGTGC
12631128 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12635398 original size:47 final size:47
Alignment explanation
Indices: 12635340--12635429 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
12635330 ACTTACAAAC
12635340 TAATGACAACTAACATAAATCCACGTCAACTAACCCAATCATCGAAT
1 TAATGACAACTAACATAAATCCACGTCAACTAACCCAATCATCGAAT
*
12635387 TAATGATAACTAACATAAATCCACGTCAACTAACCCAATCATC
1 TAATGACAACTAACATAAATCCACGTCAACTAACCCAATCATC
12635430 ACACAAGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (47 bp):
TAATGACAACTAACATAAATCCACGTCAACTAACCCAATCATCGAAT
Found at i:12635554 original size:27 final size:27
Alignment explanation
Indices: 12635490--12635580 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
12635480 AGGAAAAAAT
* * * *
12635490 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
12635517 -GTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
12635543 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
12635570 GGTAATTCTAC
1 GGTAATTCTAC
12635581 AACTTATCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 22 0.39
27 35 0.61
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:12642373 original size:100 final size:100
Alignment explanation
Indices: 12642200--12642461 Score: 490
Period size: 100 Copynumber: 2.6 Consensus size: 100
12642190 ATAGAAATTC
12642200 CAGCGAGGCTGCCAGATATGGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGCGAGGCTGCCAGATATGGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAA
12642265 CAAATATATATGTGTGTGGCGAAGCCACCAGATTG
66 CAAATATATATGTGTGTGGCGAAGCCACCAGATTG
12642300 CAGCGAGGCTGCCAGATATGGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGCGAGGCTGCCAGATATGGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAA
12642365 CAAATATATATGTGTGTGGCGAAGCCACCAGATTG
66 CAAATATATATGTGTGTGGCGAAGCCACCAGATTG
* *
12642400 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCACCA
1 CAGCGAGGCTGCCAGATATGGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCCACCA
12642462 AATTGCAGCG
Statistics
Matches: 159, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
99 8 0.05
100 151 0.95
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (100 bp):
CAGCGAGGCTGCCAGATATGGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAA
CAAATATATATGTGTGTGGCGAAGCCACCAGATTG
Found at i:12643202 original size:27 final size:27
Alignment explanation
Indices: 12643115--12643204 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
12643105 GGCAAAATGG
* * * * * *
12643115 TAATTTTACCCTACAAGGGAATCTCGG
1 TAATTCTACCTTACAGGGGTATTTCGA
12643142 TAATTCTACCTTACAGGGGTATTTC-A
1 TAATTCTACCTTACAGGGGTATTTCGA
*
12643168 GTATTTCTACCTTACAGGGGTATTTCGA
1 -TAATTCTACCTTACAGGGGTATTTCGA
12643196 TAATTCTAC
1 TAATTCTAC
12643205 AACTTATCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCTTACAGGGGTATTTCGA
Found at i:12647990 original size:63 final size:62
Alignment explanation
Indices: 12647874--12648008 Score: 173
Period size: 63 Copynumber: 2.1 Consensus size: 62
12647864 CATGGGTGTC
* * * * *
12647874 TGTCAGGACATGTAACTCACTTTTTAGGAATTAGAGTCACACGGGCTAGAGACACGGGCGTT
1 TGTCAGGCCATGTAACTCACTTTTTAGGAATTAGAGTCACACAGGCCAAAGACACGGGCGTG
* *
12647936 TGTCTAGGCCATGTAACTCACTATTTT-GGAATTAGTGTCACACAGGCCAAAGACACGGGTGTG
1 TGTC-AGGCCATGTAACTCACT-TTTTAGGAATTAGAGTCACACAGGCCAAAGACACGGGCGTG
12647999 TGTCAAGGCC
1 TGTC-AGGCC
12648009 GTGTGAGAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 4 0.06
63 55 0.87
64 4 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (62 bp):
TGTCAGGCCATGTAACTCACTTTTTAGGAATTAGAGTCACACAGGCCAAAGACACGGGCGTG
Found at i:12651288 original size:40 final size:39
Alignment explanation
Indices: 12651244--12651506 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 39
12651234 CCACTAGCTG
*
12651244 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCAC
1 AAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCAC
*
12651284 AAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCAC
*
12651323 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCAC
1 AAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCAC
*
12651363 AAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCAC
* *
12651402 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCAC
** ** * *
12651442 AAATGCCTTCGGGACTTAGCCCGAAATTAGCCACTAGCTC
1 AAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCAC
12651482 AAATG-CTCTCGGGACTTAGCCCGGT
1 AAATGCCT-TCGGGACTTAGCCCGGT
12651507 TATCATCCGA
Statistics
Matches: 203, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
39 77 0.38
40 126 0.62
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
AAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCAC
Found at i:12651341 original size:79 final size:79
Alignment explanation
Indices: 12651244--12651509 Score: 401
Period size: 79 Copynumber: 3.4 Consensus size: 79
12651234 CCACTAGCTG
12651244 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGT
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGT
12651309 ATAATAACTCGCAC
66 ATAATAACTCGCAC
12651323 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGT
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGT
12651388 ATAATAACTCGCAC
66 ATAATAACTCGCAC
* * * *
12651402 AAATGCCTTCGGGACTTAGCCCGG-AATTAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGA
1 AAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
* *** * *
12651466 AATTAGCCACTAGCTC
65 TA-TAATAACTCGCAC
12651482 AAATG-CTCTCGGGACTTAGCCCGGTTAT
1 AAATGCCT-TCGGGACTTAGCCCGGTTAT
12651510 CATCCGAACA
Statistics
Matches: 172, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 140 0.81
80 30 0.17
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCAC
Found at i:12651485 original size:119 final size:118
Alignment explanation
Indices: 12651220--12651506 Score: 400
Period size: 119 Copynumber: 2.4 Consensus size: 118
12651210 CCTTCGGAGT
* * * *
12651220 TTAG-CCGGATATAGCCACTAGCTGAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCAC
1 TTAGCCCGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCAC
*
12651284 AAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGAC
65 AAATGCCTTCGGGACTTAGCCCGGAATAATAACTCGCACAAATGCCTTCGGGAC
** ** * *
12651338 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACA
1 TTAGCCCGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACA
* *
12651403 AATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCACAAATGCCTTCGGGAC
66 AATGCCTTCGGGACTTAGCCCGGAA-TAATAACTCGCACAAATGCCTTCGGGAC
12651457 TTAGCCCGAA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGT
1 TTAGCCCGAATA-TAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCCCGGT
12651507 TATCATCCGA
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
118 45 0.30
119 103 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (118 bp):
TTAGCCCGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACA
AATGCCTTCGGGACTTAGCCCGGAATAATAACTCGCACAAATGCCTTCGGGAC
Found at i:12659543 original size:39 final size:40
Alignment explanation
Indices: 12659454--12659676 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
12659444 GCCACTAGCT
* * *
12659454 CAAATGCCTTTGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
12659494 CAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
12659533 CAAATACCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
12659573 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * ** * *
12659612 CAAATGCCTTCGGAACTTAGCCCAGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
12659652 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
12659677 TTATCATCCG
Statistics
Matches: 161, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 70 0.43
40 91 0.57
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:12659565 original size:79 final size:79
Alignment explanation
Indices: 12659454--12659677 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
12659444 GCCACTAGCT
* * *
12659454 CAAATGCCTTTGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
12659518 GTA-TAATAACTCGCA
65 GTATTAATAACTCG-A
* * *
12659533 CAAATACCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
12659598 AATTAGTAGCTCGA
66 TATTAATAACTCGA
* * ** *
12659612 CAAATGCCTTCGGAACTTAGCCCAGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
12659676 GT
65 GT
12659678 TATCATCCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
78 2 0.02
79 114 0.91
80 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
TATTAATAACTCGA
Found at i:12669346 original size:33 final size:34
Alignment explanation
Indices: 12669253--12669346 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
12669243 GTTTCAGTTA
* **
12669253 AGGCCTTAGCCCATTTCAGAATCAAAAATAGTGT
1 AGGCCTAAGCCCATTTCAGAATCAGTAATAGTGT
* *
12669287 AGGCCTGAGCCCATTTCAGTAA-CAGTATTAGTG-
1 AGGCCTAAGCCCATTTCAG-AATCAGTAATAGTGT
*
12669320 AGGCCTAAGCCCATTACAGAATCAGTA
1 AGGCCTAAGCCCATTTCAGAATCAGTA
12669347 CAGTATGCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
32 2 0.04
33 22 0.42
34 26 0.50
35 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (34 bp):
AGGCCTAAGCCCATTTCAGAATCAGTAATAGTGT
Found at i:12669770 original size:27 final size:26
Alignment explanation
Indices: 12669738--12669899 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 26
12669728 GTAGGGAAAA
*
12669738 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
12669765 ACAGTCATTTTACCCTATATGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* * *
12669792 ACAGTCATTTTACCTTATAGGTGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
12669819 TCAATCATTTTACCCTATGGGAGTATT
1 TCAGTCATTTTACCCTAAGGG-GTATT
* *
12669846 TCAGTCATTTTACACTATGGGGTATT
1 TCAGTCATTTTACCCTAAGGGGTATT
* *
12669872 TCGGTCATTTTACCCTATGAGGGTATT
1 TCAGTCATTTTACCCTAAG-GGGTATT
12669899 T
1 T
12669900 TGGCCCAACA
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.21
27 93 0.79
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (26 bp):
TCAGTCATTTTACCCTAAGGGGTATT
Found at i:12669801 original size:54 final size:52
Alignment explanation
Indices: 12669739--12669898 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 52
12669729 TAGGGAAAAT
*
12669739 CAGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATATGGGTATTA
1 CAGTCATTTTACCTTA-AGGGGTATTTCAGTCATTTTACCCTATA-GGGTATTA
* * * *
12669793 CAGTCATTTTACCTTATAGGTGTATTTCAATCATTTTACCCTATGGGAGTATTT
1 CAGTCATTTTACCTTA-AGGGGTATTTCAGTCATTTTACCCTATAGG-GTATTA
* *
12669847 CAGTCATTTTACAC-TATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATT
1 CAGTCATTTTAC-CTTAAGGGGTATTTCAGTCATTTTACCCTAT-AGGGTATT
12669899 TTGGCCCAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
53 30 0.33
54 61 0.66
55 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (52 bp):
CAGTCATTTTACCTTAAGGGGTATTTCAGTCATTTTACCCTATAGGGTATTA
Found at i:12669851 original size:81 final size:80
Alignment explanation
Indices: 12669742--12669899 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 80
12669732 GGAAAATCAG
* * * *
12669742 TCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATATGGGTATTACAGTCATTTTACCT
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACACTAT-GGGGTATTACAGTCATTTTACCC
12669807 TAT-AGGTGTATTTCAA
65 TATGAGG-GTATTTCAA
* * * *
12669823 TCATTTTACCCTA-TGGGAGTATTTCAGTCATTTTACACTATGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTACAGGG-GTATTACAGTCATTTTACACTATGGGGTATTACAGTCATTTTACCC
12669887 TATGAGGGTATTT
65 TATGAGGGTATTT
12669900 TGGCCCAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 31 0.46
81 36 0.54
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTACAGGGGTATTACAGTCATTTTACACTATGGGGTATTACAGTCATTTTACCCT
ATGAGGGTATTTCAA
Found at i:12672572 original size:46 final size:46
Alignment explanation
Indices: 12672407--12672578 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
12672397 GGTTGAGCAT
* * * * *
12672407 CCGAACTGGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * * * *
12672453 CTGAACTCGTTGAGTTGAGTCCGATTTC-GTGA--AATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
12672498 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
12672546 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
12672579 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 56 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:12694789 original size:37 final size:37
Alignment explanation
Indices: 12694740--12694816 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
12694730 AATCATTTGG
12694740 AAAAAAAGTTAATCATATTTAATTGTTATTAACATTA
1 AAAAAAAGTTAATCATATTTAATTGTTATTAACATTA
*
12694777 AAAAAAATTTAATCATATTTAATTGTTATTAACATTA
1 AAAAAAAGTTAATCATATTTAATTGTTATTAACATTA
12694814 AAA
1 AAA
12694817 CATTATTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (37 bp):
AAAAAAAGTTAATCATATTTAATTGTTATTAACATTA
Found at i:12702117 original size:27 final size:27
Alignment explanation
Indices: 12702087--12702139 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
12702077 CATACATCTC
*
12702087 ATAAGGGC-ATAATAGTCATTTTACCAT
1 ATAAGGGCAAT-ACAGTCATTTTACCAT
12702114 ATAAGGGCAATACAGTCATTTTACCA
1 ATAAGGGCAATACAGTCATTTTACCA
12702140 CAAAGGGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (27 bp):
ATAAGGGCAATACAGTCATTTTACCAT
Found at i:12716250 original size:7 final size:7
Alignment explanation
Indices: 12716239--12716272 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
12716229 AAGTTATAAA
12716239 TTATATG
1 TTATATG
*
12716246 ATATATG
1 TTATATG
12716253 TTATATG
1 TTATATG
12716260 TTATATG
1 TTATATG
12716267 TTATAT
1 TTATAT
12716273 CATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
TTATATG
Found at i:12716255 original size:21 final size:21
Alignment explanation
Indices: 12716231--12716272 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12716221 AGAAAACCAA
12716231 GTTATAAATTATATGATATAT
1 GTTATAAATTATATGATATAT
** *
12716252 GTTATATGTTATATGTTATAT
1 GTTATAAATTATATGATATAT
12716273 CATAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
GTTATAAATTATATGATATAT
Found at i:12719383 original size:50 final size:50
Alignment explanation
Indices: 12719188--12719436 Score: 231
Period size: 50 Copynumber: 5.0 Consensus size: 50
12719178 GTTACACTGT
* * * * * *
12719188 GTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTGCTAT
1 GTGTATCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAC
* *
12719238 GTGTA-CAGATTGATAGGTCGCATGTGTAGTACTAAGTGCGGGATACTA-
1 GTGTATCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAC
* ** **
12719286 -TGCATACCCATT-A-ACTTCAATGACATGTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAT-CAGATTGATAGGTC---G-CATGTGTAGTACTAAGTGCAGGCTACTAC
* * * * *
12719338 GTGTATCAGATGGATAAGTCGCGTGTGTAGTACTAAGTGCGGGCTATTAC
1 GTGTATCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAC
*
12719388 GTGTA-CTAGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 GTGTATC-AGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
12719437 TGTATACCAG
Statistics
Matches: 159, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
47 6 0.04
48 1 0.01
49 41 0.26
50 73 0.46
51 27 0.17
52 3 0.02
53 5 0.03
54 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (50 bp):
GTGTATCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAC
Found at i:12719668 original size:16 final size:16
Alignment explanation
Indices: 12719647--12719677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12719637 AGAATGAAGT
12719647 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
12719663 AAGTGAAATTTTGTA
1 AAGTGAAATTATGTA
12719678 CTAAAACAAT
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:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:12720264 original size:180 final size:181
Alignment explanation
Indices: 12720008--12720335 Score: 543
Period size: 180 Copynumber: 1.8 Consensus size: 181
12719998 TCCGAGAGCT
* * * * *
12720008 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCGGACAGTGAAGCAGGGGTA
1 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGGACAGTGAAACAGGGGTA
*
12720073 TCTTTAATGAATAAACTGTACTAATTGGCTAAACTA-AA-AATTCTGAAAATTTTATGGTAAGAA
66 TCTTTAATGAATAAACTGTACTAATTGGATAAAC-ACAAGAATTCTGAAAATTTTATGGTAAGAA
*
12720136 TATATGTGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCCC
130 TATATATGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCCC
*
12720188 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGGACAGTGAAATAGGGGTA
1 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGGACAGTGAAACAGGGGTA
*
12720253 TCTTTAATGAATAAACTGTACTAATTGGATAAACACAAGAATTCTGAAAATTTTATGGTAATAAT
66 TCTTTAATGAATAAACTGTACTAATTGGATAAACACAAGAATTCTGAAAATTTTATGGTAAGAAT
*
12720318 ATATATGATTCTAGTTTC
131 ATATATGAGTCTAGTTTC
12720336 ATATAAAATT
Statistics
Matches: 136, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
179 1 0.01
180 94 0.69
181 41 0.30
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (181 bp):
GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGGACAGTGAAACAGGGGTA
TCTTTAATGAATAAACTGTACTAATTGGATAAACACAAGAATTCTGAAAATTTTATGGTAAGAAT
ATATATGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCCC
Found at i:12723010 original size:15 final size:15
Alignment explanation
Indices: 12722990--12723034 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
12722980 TATGATATTA
12722990 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
12723005 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
12723020 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
12723035 AATCCTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:12723048 original size:30 final size:30
Alignment explanation
Indices: 12722990--12723048 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
12722980 TATGATATTA
* * * *
12722990 TATCTTGGATTTCTTTATCTTGGATTTCTC
1 TATCTTGGACTTCTTAATCCTAGATTTCTC
*
12723020 TATCTTGGACTTCTTAATCCTAGTTTTCT
1 TATCTTGGACTTCTTAATCCTAGATTTCT
12723049 TGTTATTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCCTAGATTTCTC
Found at i:12724865 original size:46 final size:46
Alignment explanation
Indices: 12724722--12724865 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
12724712 CCCACCCATA
* * *
12724722 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTGGTTATATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC--CTAATATC-CT
* * ***
12724771 --CGAACTCGGACTCAACTCAACGAGTTCGG--GCGCTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAATATCC-T
*
12724814 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAATATCCT
12724861 AGTGA
1 AGTGA
12724866 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
45 2 0.03
46 33 0.43
47 28 0.37
48 7 0.09
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAATATCCT
Found at i:12727204 original size:31 final size:31
Alignment explanation
Indices: 12727169--12727245 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
12727159 GCATATACTA
*
12727169 GGCCGAAGCCTTTACATTATTCATACCACTG
1 GGCCGAAGCCTTTACATTATTCATACAACTG
* *
12727200 GGCCGAAGCCTTTTCATTATTCATATAACTG
1 GGCCGAAGCCTTTACATTATTCATACAACTG
12727231 GGCCGAAGCCTTTAC
1 GGCCGAAGCCTTTAC
12727246 TGTAAACGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (31 bp):
GGCCGAAGCCTTTACATTATTCATACAACTG
Found at i:12727498 original size:25 final size:25
Alignment explanation
Indices: 12727464--12727532 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
12727454 CTCTTTTAAT
* *
12727464 AACTTGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
12727489 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
12727514 AACTGGGGCATAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
12727533 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:12727601 original size:11 final size:10
Alignment explanation
Indices: 12727577--12727611 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
12727567 GCATATATAT
12727577 ATATCATGGC
1 ATATCATGGC
12727587 ATATCATGTGC
1 ATATCATG-GC
*
12727598 ATATCATGGA
1 ATATCATGGC
12727608 ATAT
1 ATAT
12727612 TATGTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:12727603 original size:21 final size:21
Alignment explanation
Indices: 12727577--12727616 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12727567 GCATATATAT
*
12727577 ATATCATGGCATATCATGTGC
1 ATATCATGGAATATCATGTGC
*
12727598 ATATCATGGAATATTATGT
1 ATATCATGGAATATCATGT
12727617 ACAAATCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGAATATCATGTGC
Found at i:12727624 original size:21 final size:21
Alignment explanation
Indices: 12727579--12727624 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12727569 ATATATATAT
* * *
12727579 ATCATGGCATATCATGTGCAT
1 ATCATGGAATATCATGTACAA
*
12727600 ATCATGGAATATTATGTACAA
1 ATCATGGAATATCATGTACAA
12727621 ATCA
1 ATCA
12727625 GTATCACATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGAATATCATGTACAA
Found at i:12735114 original size:31 final size:31
Alignment explanation
Indices: 12735078--12735156 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 31
12735068 CAGCATATAT
12735078 TGGGCC-AATGCCTTTACATTATTCATATCAC
1 TGGGCCGAA-GCCTTTACATTATTCATATCAC
*
12735109 TGGGCCGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
12735140 TGGGCCGAAGCCTTTAC
1 TGGGCCGAAGCCTTTAC
12735157 TGTAAACGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTACATTATTCATATCAC
Found at i:12735403 original size:25 final size:25
Alignment explanation
Indices: 12735375--12735443 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
12735365 CTCTTTTAAT
*
12735375 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
12735400 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
12735425 AACTGGGGCATAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
12735444 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:12735507 original size:10 final size:10
Alignment explanation
Indices: 12735494--12735528 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
12735484 ATATATATAT
12735494 ATATCATGGC
1 ATATCATGGC
12735504 ATATCATGTGC
1 ATATCATG-GC
12735515 ATATCATGGC
1 ATATCATGGC
12735525 ATAT
1 ATAT
12735529 TATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:12735520 original size:21 final size:21
Alignment explanation
Indices: 12735494--12735533 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12735484 ATATATATAT
12735494 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
12735515 ATATCATGGCATATTATGT
1 ATATCATGGCATATCATGT
12735534 ACAAATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:12735541 original size:21 final size:21
Alignment explanation
Indices: 12735496--12735541 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
12735486 ATATATATAT
* *
12735496 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
*
12735517 ATCATGGCATATTATGTACAA
1 ATCATGGCATATCATGTACAA
12735538 ATCA
1 ATCA
12735542 GTATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:12735818 original size:62 final size:62
Alignment explanation
Indices: 12735721--12735840 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
12735711 TGATTTTAAC
12735721 GCACTTTATCAAATTCAGGCTTTTGGGCCCAAAACCCCTAATGGGCCCTACGAATGCTAATT
1 GCACTTTATCAAATTCAGGCTTTTGGGCCCAAAACCCCTAATGGGCCCTACGAATGCTAATT
**
12735783 GCACTTTATCAAATTTGGGCTTTTGGGCCCAAAACCCCTAATGGGCCCTACGAATGCT
1 GCACTTTATCAAATTCAGGCTTTTGGGCCCAAAACCCCTAATGGGCCCTACGAATGCT
12735841 GATCTAGCCC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (62 bp):
GCACTTTATCAAATTCAGGCTTTTGGGCCCAAAACCCCTAATGGGCCCTACGAATGCTAATT
Done.