Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 58 of 185
Found at i:18110713 original size:88 final size:88
Alignment explanation
Indices: 18110618--18111901 Score: 1939
Period size: 88 Copynumber: 14.6 Consensus size: 88
18110608 GAAAAGCAGC
* * * * * * *
18110618 AGATCTTGTCTTCATGTAT-TGACATGAAGTAGATC-AGAGATAGTAGATCTTATCTTCATGTAC
1 AGATCTTGTCTTCATGTATCAG-CGTGAAGTAGATCGA-AGAAAGCAAATCTTGTCTTCATGTAT
* * * ** *
18110681 TGACATGAAGTAGATCGAAGATGGC
64 TGGCGTGAAGTAGATCAAAGAAAGT
** * * * * * * *** *
18110706 AGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGTAGATCCTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
* * *
18110771 GTGGTGAAGTAGATCGAAGAAAGC
66 G-CGTGAAGTAGATCAAAGAAAGT
** *
18110795 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18110860 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18110883 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18110948 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18110971 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111036 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111059 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111124 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111147 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111212 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111235 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111300 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111323 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111388 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111411 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111476 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111499 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
18111564 GCGTGAAGTAGATCAAAGAAAGT
66 GCGTGAAGTAGATCAAAGAAAGT
18111587 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
* *
18111652 GCGTGAAGTAGATCAAAGATAGC
66 GCGTGAAGTAGATCAAAGAAAGT
*** * * * *
18111675 AGATCTTGTCTTCCCATA-CTGGTGATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCATGTATC-AGCG-TGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTAT
** * *
18111739 CCGCGTGAAGTAGATCGAAGAAAGA
64 TGGCGTGAAGTAGATCAAAGAAAGT
* ** * * * * * *
18111764 AAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCCTATATTG
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
* * * *
18111829 GTGGTGAAGTAGATCGAAGATAGC
66 G-CGTGAAGTAGATCAAAGAAAGT
* * *
18111853 AGATCTTGTCTTCATGTAT-TGGGTGAAGTAGATCGAAGATA-CAAATCTT
1 AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTT
18111902 ATCCCCCTGA
Statistics
Matches: 1127, Mismatches: 62, Indels: 15
0.94 0.05 0.01
Matches are distributed among these distances:
87 8 0.01
88 931 0.83
89 188 0.17
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (88 bp):
AGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTG
GCGTGAAGTAGATCAAAGAAAGT
Found at i:18112549 original size:22 final size:22
Alignment explanation
Indices: 18112524--18112571 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
18112514 GCCGCAACCA
*
18112524 CTCCCGCACATCGCGCTCGTTG
1 CTCCCGCACATCGCGCTCGTCG
* *
18112546 CTCCCGCACGTCGCGCTTGTCG
1 CTCCCGCACATCGCGCTCGTCG
18112568 CTCC
1 CTCC
18112572 GTGCGCGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.48, G:0.23, T:0.23
Consensus pattern (22 bp):
CTCCCGCACATCGCGCTCGTCG
Found at i:18112831 original size:12 final size:11
Alignment explanation
Indices: 18112802--18112834 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
18112792 GTGAATCCAG
18112802 TTTTTTT-TTA
1 TTTTTTTCTTA
18112812 TTTTTTTCTTA
1 TTTTTTTCTTA
18112823 TTTTATTTCTTA
1 TTTT-TTTCTTA
18112835 ACGAGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 7 0.33
12 7 0.33
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTCTTA
Found at i:18113425 original size:3 final size:3
Alignment explanation
Indices: 18113417--18113495 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
18113407 GTCCCCATTT
18113417 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18113465 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18113496 CATAACAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18114690 original size:18 final size:19
Alignment explanation
Indices: 18114659--18114694 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18114649 AATAAAACAC
*
18114659 TAAAAATTTATTTTAAAAA
1 TAAAAATATATTTTAAAAA
18114678 TAAAAATAT-TTTTAAAA
1 TAAAAATATATTTTAAAA
18114695 TATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAATATATTTTAAAAA
Found at i:18116956 original size:2 final size:2
Alignment explanation
Indices: 18116944--18116979 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18116934 TTTATGTGAT
*
18116944 CA CA GA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
18116980 GATACATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18136055 original size:37 final size:37
Alignment explanation
Indices: 18135983--18136086 Score: 106
Period size: 37 Copynumber: 2.8 Consensus size: 37
18135973 CAATCACTTG
**
18135983 TAAGAGCTAATCCAGCCGATAACACAGCTGATGCTCA
1 TAAGAGCTAATCCAGCCGATAACACAGCCAATGCTCA
*
18136020 TAAGAGCTAATCCA-CACGATAACAC-GCCAATTGCTCC
1 TAAGAGCTAATCCAGC-CGATAACACAGCCAA-TGCTCA
* * * *
18136057 GAAGAGCTAGTCCAACCGAAAACACA-CCAA
1 TAAGAGCTAATCCAGCCGATAACACAGCCAA
18136087 AACAAAGAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
36 4 0.07
37 52 0.91
38 1 0.02
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.15
Consensus pattern (37 bp):
TAAGAGCTAATCCAGCCGATAACACAGCCAATGCTCA
Found at i:18156722 original size:25 final size:25
Alignment explanation
Indices: 18156694--18156742 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
18156684 ATATTTTTGA
*
18156694 TAGTATATCCTAAAACTACTATAGG
1 TAGTATATACTAAAACTACTATAGG
* *
18156719 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTAAAACTACTATAG
18156743 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (25 bp):
TAGTATATACTAAAACTACTATAGG
Found at i:18161293 original size:21 final size:22
Alignment explanation
Indices: 18161262--18161302 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
18161252 ATAACATATG
18161262 TAAATTATAT-AT-ATTTTTCA
1 TAAATTATATAATAATTTTTCA
18161282 TAAATATATATAATAATTTTT
1 TAAAT-TATATAATAATTTTT
18161303 GCTCCCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 2 0.11
23 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TAAATTATATAATAATTTTTCA
Found at i:18162920 original size:34 final size:35
Alignment explanation
Indices: 18162865--18162931 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18162855 CAAACACCAG
*
18162865 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
18162900 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18162932 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18166868 original size:14 final size:13
Alignment explanation
Indices: 18166849--18166878 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
18166839 TGATAAAGTT
18166849 TATATAAATATAAA
1 TATATAAAT-TAAA
18166863 TATATAAATTAAA
1 TATATAAATTAAA
18166876 TAT
1 TAT
18166879 GAATGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATAAATTAAA
Found at i:18171722 original size:15 final size:15
Alignment explanation
Indices: 18171702--18171760 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
18171692 TTTGACATGT
18171702 ATTAAAATAAAATAA
1 ATTAAAATAAAATAA
*
18171717 ATTAAAATAAATTAA
1 ATTAAAATAAAATAA
* *
18171732 ATTAAATTAAATTAA
1 ATTAAAATAAAATAA
18171747 ATTAAAATAAAATA
1 ATTAAAATAAAATA
18171761 TTATTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATAAAATAA
Found at i:18171760 original size:5 final size:5
Alignment explanation
Indices: 18171702--18171757 Score: 76
Period size: 5 Copynumber: 11.2 Consensus size: 5
18171692 TTTGACATGT
* * *
18171702 ATTAA AATAA AATAA ATTAA AATAA ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
*
18171752 AATAA A
1 ATTAA A
18171758 ATATTATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (5 bp):
ATTAA
Found at i:18177909 original size:14 final size:14
Alignment explanation
Indices: 18177890--18177923 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
18177880 TCATGATGAA
18177890 TGTATCAAATGTGT
1 TGTATCAAATGTGT
18177904 TGTATCAAATGTGT
1 TGTATCAAATGTGT
18177918 TGTATC
1 TGTATC
18177924 TTTGTTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (14 bp):
TGTATCAAATGTGT
Found at i:18183876 original size:10 final size:10
Alignment explanation
Indices: 18183833--18183867 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18183823 ATGCATTAAC
*
18183833 CACATATAGT
1 CACATATAAT
*
18183843 CACAAATAAT
1 CACATATAAT
18183853 CACATATAAT
1 CACATATAAT
18183863 CACAT
1 CACAT
18183868 TTAGTCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (10 bp):
CACATATAAT
Found at i:18186456 original size:27 final size:27
Alignment explanation
Indices: 18186426--18186500 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
18186416 AAAATTATTG
* *
18186426 AAATACCCTCGAAGGGTAAAATAATCA
1 AAATACCCTCGATGGGTAAAATAACCA
* *
18186453 AAATACCCTCGATGGGT-AAATGACCG
1 AAATACCCTCGATGGGTAAAATAACCA
*
18186479 AAATACCTTCGATGGGTAAAAT
1 AAATACCCTCGATGGGTAAAAT
18186501 GACCGTAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATAACCA
Found at i:18186482 original size:26 final size:27
Alignment explanation
Indices: 18186425--18186557 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 27
18186415 TAAAATTATT
* * *
18186425 GAAATACCCTCGAAGGGTAAAATAATC
1 GAAATACCCTCGATGGGTAAAATGACC
*
18186452 AAAATACCCTCGATGGGT-AAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
*
18186478 GAAATACCTTCGATGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* ** *
18186505 GTAATGGCCT-TATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGACC
* *
18186532 -ATAATGCCC-CTATAGGGTAAAATGAC
1 GA-AATACCCTCGAT-GGGTAAAATGAC
18186558 TGTAACACCC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.27
27 65 0.73
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGACC
Found at i:18186522 original size:27 final size:27
Alignment explanation
Indices: 18186492--18186692 Score: 240
Period size: 27 Copynumber: 7.4 Consensus size: 27
18186482 TACCTTCGAT
* *
18186492 GGGTAAAATGACCGTAATGGCCTTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
*
18186519 GGGTAAAATGACCATAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* ** *
18186546 GGGTAAAATGACTGTAACACCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* *
18186573 GGGTAAAATGACCATAATGCACCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
*
18186600 GGGTAAAATAACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* *
18186627 GGGTAAAATAACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
*** * *
18186654 GGGTAAAATGATTATAATGCCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
*
18186681 GGATAAAATGAC
1 GGGTAAAATGAC
18186693 TATTTTGCCC
Statistics
Matches: 149, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTATA
Found at i:18186704 original size:81 final size:81
Alignment explanation
Indices: 18186492--18186692 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 81
18186482 TACCTTCGAT
* * *
18186492 GGGTAAAATGACCGTAATGGCCTTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGA
1 GGGTAAAATGACCATAATGCCCTTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATAA
*
18186557 CTGTAACACCCCTGTA
66 CCGTAACACCCCTGTA
* *
18186573 GGGTAAAATGACCATAATGCACC-TATAGGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATA
1 GGGTAAAATGACCATAATGC-CCTTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATA
**
18186637 ACCGTAATGCCCCTGTA
65 ACCGTAACACCCCTGTA
** * *
18186654 GGGTAAAATGATTATAATGCCCTTGTAGGATAAAATGAC
1 GGGTAAAATGACCATAATGCCCTTATAGGGTAAAATGAC
18186693 TATTTTGCCC
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 101 0.96
82 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
GGGTAAAATGACCATAATGCCCTTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATAA
CCGTAACACCCCTGTA
Found at i:18186745 original size:24 final size:24
Alignment explanation
Indices: 18186709--18186819 Score: 132
Period size: 24 Copynumber: 4.6 Consensus size: 24
18186699 GCCCCTCAGG
*
18186709 GTAAATGATTGATTTGTCTGTGAT
1 GTAAATGACTGATTTGTCTGTGAT
* * * *
18186733 GTAAATAAATGATTTGTCCGAGAT
1 GTAAATGACTGATTTGTCTGTGAT
*
18186757 GTAAATGACTGATTTGTTTGTGAT
1 GTAAATGACTGATTTGTCTGTGAT
*
18186781 TTAAATGACTGATTTGTCTGTGAT
1 GTAAATGACTGATTTGTCTGTGAT
* **
18186805 TTGTATGACTGATTT
1 GTAAATGACTGATTT
18186820 TGTGGATGGC
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (24 bp):
GTAAATGACTGATTTGTCTGTGAT
Found at i:18186930 original size:27 final size:27
Alignment explanation
Indices: 18186887--18186946 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
18186877 AGAAGTACTG
18186887 TACTGGTGGCTCTGCCACA-ATCACTAT
1 TACTGGTGGCTCTGCCACATAT-ACTAT
*
18186914 TACTGGTGGCT-TGGCCACATATATTAT
1 TACTGGTGGCTCT-GCCACATATACTAT
18186941 TACTGG
1 TACTGG
18186947 CAGCTTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACATATACTAT
Found at i:18187018 original size:32 final size:32
Alignment explanation
Indices: 18186982--18187152 Score: 209
Period size: 32 Copynumber: 5.4 Consensus size: 32
18186972 GCTTTCTACA
* * *
18186982 GATCATATTACCATTACTGGTGGCTATGTGCC
1 GATCATATTACTATTACTGATGGCTGTGTGCC
* *
18187014 GATCATATTACCATTACTGATGGTTGTGTGCC
1 GATCATATTACTATTACTGATGGCTGTGTGCC
* * *
18187046 GATTATATTACTACTA-TGATGGCTTTGTGCC
1 GATCATATTACTATTACTGATGGCTGTGTGCC
* *
18187077 GATCATACTACTATTACTGATGGTTGTGTGCC
1 GATCATATTACTATTACTGATGGCTGTGTGCC
* * *
18187109 GATCATATTACTACTACTGATGACTTTGTGCC
1 GATCATATTACTATTACTGATGGCTGTGTGCC
*
18187141 AATCATATTACT
1 GATCATATTACT
18187153 GTACTTATGG
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
31 26 0.22
32 93 0.78
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (32 bp):
GATCATATTACTATTACTGATGGCTGTGTGCC
Found at i:18187078 original size:63 final size:64
Alignment explanation
Indices: 18186982--18187151 Score: 252
Period size: 63 Copynumber: 2.7 Consensus size: 64
18186972 GCTTTCTACA
* * * *
18186982 GATCATATTACCATTACTGGTGGCTATGTGCCGATCATATTACCATTACTGATGGTTGTGTGCC
1 GATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGTTGTGTGCC
* * *
18187046 GATTATATTACTACTA-TGATGGCTTTGTGCCGATCATACTACTATTACTGATGGTTGTGTGCC
1 GATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGTTGTGTGCC
* *
18187109 GATCATATTACTACTACTGATGACTTTGTGCCAATCATATTAC
1 GATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTAC
18187152 TGTACTTATG
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 58 0.62
64 36 0.38
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (64 bp):
GATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGTTGTGTGCC
Found at i:18187165 original size:95 final size:95
Alignment explanation
Indices: 18186967--18187152 Score: 239
Period size: 95 Copynumber: 2.0 Consensus size: 95
18186957 GCGATGCTAT
* * * * * *
18186967 TGATGGCTTTCTACAGATCATATTACCATTACTGGTGGCTATGTGCCGATCATATTACCATTACT
1 TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTATGTGCCGATCATATTACCACTACT
* * *
18187032 GATGGTTGTGTGCCGATTATATTACTACTA
66 GATGCTTGTGTGCCAATCATATTACTACTA
* * * *
18187062 TGATGGCTTTGTGCCGATCATACTACTATTACTGATGGTTGTGTGCCGATCATATTACTACTACT
1 TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTATGTGCCGATCATATTACCACTACT
18187127 GATGACTT-TGTGCCAATCATATTACT
66 GATG-CTTGTGTGCCAATCATATTACT
18187153 GTACTTATGG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 75 0.97
96 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (95 bp):
TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTATGTGCCGATCATATTACCACTACT
GATGCTTGTGTGCCAATCATATTACTACTA
Found at i:18188286 original size:20 final size:20
Alignment explanation
Indices: 18188261--18188299 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18188251 TACTTTCTTC
18188261 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18188281 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18188300 AAATAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18188687 original size:50 final size:50
Alignment explanation
Indices: 18188508--18188742 Score: 190
Period size: 50 Copynumber: 4.6 Consensus size: 50
18188498 ACACTCTAAA
* * *
18188508 GCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCCTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGGTGCCAAT
* * * * *
18188557 GCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATAC-CGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-CTCGGTGCCAAT
* * * ** *
18188607 GCCATGTCCTAGACATAGTGTTACGGGGGACTTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAAT
* * * **
18188657 GCCATGTCCCCGATATGGTCTTACATGGGACATCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT---CTC---GGTGCCAAT
18188713 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
18188743 TCTCATTCCC
Statistics
Matches: 144, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.01
49 32 0.22
50 74 0.51
53 3 0.02
56 34 0.24
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAAT
Found at i:18195911 original size:10 final size:10
Alignment explanation
Indices: 18195893--18195927 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18195883 ATGCATTAAC
18195893 CACATATAAT
1 CACATATAAT
* *
18195903 CACAAATAAC
1 CACATATAAT
18195913 CACATATAAT
1 CACATATAAT
18195923 CACAT
1 CACAT
18195928 CTAGTCACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (10 bp):
CACATATAAT
Found at i:18195936 original size:20 final size:20
Alignment explanation
Indices: 18195889--18195926 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18195879 TGACATGCAT
18195889 TAACCACATATAATCACAAA
1 TAACCACATATAATCACAAA
18195909 TAACCACATATAATCACA
1 TAACCACATATAATCACA
18195927 TCTAGTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (20 bp):
TAACCACATATAATCACAAA
Found at i:18205148 original size:50 final size:50
Alignment explanation
Indices: 18205075--18205174 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
18205065 ATTGAAATGG
18205075 ATAATACATGTATAAGAGATATAATTATATGTTGTGTTCATTCTTAATTA
1 ATAATACATGTATAAGAGATATAATTATATGTTGTGTTCATTCTTAATTA
*
18205125 ATAATACATGTATATGAGATATAATTATATGTTGTGTTCATTCTTAATTA
1 ATAATACATGTATAAGAGATATAATTATATGTTGTGTTCATTCTTAATTA
18205175 CATAGCCTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (50 bp):
ATAATACATGTATAAGAGATATAATTATATGTTGTGTTCATTCTTAATTA
Found at i:18206233 original size:11 final size:11
Alignment explanation
Indices: 18206212--18206280 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
18206202 AGCCCAGCCC
18206212 ATTTAAATATAT
1 ATTT-AATATAT
18206224 ATTTAATATAT
1 ATTTAATATAT
*
18206235 ATAATATATATAT
1 AT-TTA-ATATAT
* *
18206248 ATTTGAT-TAA
1 ATTTAATATAT
**
18206258 AAATAATATAT
1 ATTTAATATAT
18206269 ATTTAATATAT
1 ATTTAATATAT
18206280 A
1 A
18206281 ATTCGGGCCG
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
10 6 0.14
11 23 0.52
12 7 0.16
13 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (11 bp):
ATTTAATATAT
Found at i:18222980 original size:41 final size:41
Alignment explanation
Indices: 18222923--18223126 Score: 241
Period size: 41 Copynumber: 5.0 Consensus size: 41
18222913 AAGTATATCC
*
18222923 AAGGGTACCGAAGTACAAACAGGGGCATGTATGTGCAATTT
1 AAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTT
* * ** * *
18222964 AAGGGTACTGAAGTAC-AACTAGGGGCAAGGGTGTGGAA-CT
1 AAGGGTACCGAAGTACAAAC-AGGGGCACGTATGTGCAATTT
* *
18223004 CAGGCGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
1 AAGG-GTACCGAAGTACAAACAGGGGCACGTATGTGCAATTT
* * *
18223046 AAGGGTACCGAATTACAAACAAGGGCACGTATATGCAATTT
1 AAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTT
* * *
18223087 AAGGGTACTGAAGTACAAACAGGGTCACGTATGTCCAATT
1 AAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
18223127 CATCATTATA
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 7 0.05
41 121 0.90
42 6 0.04
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (41 bp):
AAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTT
Found at i:18226204 original size:25 final size:25
Alignment explanation
Indices: 18226176--18226228 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18226166 GCTCATACAT
* *
18226176 GCTGAATATCGATAAGCTCTCTCGA
1 GCTGAATATCGATAAACTCTCTCAA
* *
18226201 GCTGAATATTGGTAAACTCTCTCAA
1 GCTGAATATCGATAAACTCTCTCAA
18226226 GCT
1 GCT
18226229 AAGAATCGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
GCTGAATATCGATAAACTCTCTCAA
Found at i:18229523 original size:138 final size:136
Alignment explanation
Indices: 18229258--18229526 Score: 333
Period size: 137 Copynumber: 2.0 Consensus size: 136
18229248 CGAGCCATAA
* * * **
18229258 ATGGGTCTGCTAACACAAGCTGATGGTCAAAATATAGCTACATGATGTCACTTACACAAGCTGGC
1 ATGGGTCTGCTAACACAAGCTGATAGTCAAAATATAGCTACACGATGTCACTCACACAAGCTAAC
* * * * **
18229323 GATTATCCGCAAAAAATGTCGATCTCAGCCATCGGTAGGACATTCAAGTCAAGCACCTGAAACAT
66 GAGTATCCGCAAAAAATGTAGAACTCAGCCATCAGTAGGACATTCAAAACAAGCACCTGAAACAT
18229388 GGTAAC
131 GGTAAC
* * **
18229394 ATGGGTCTGCTCACACAAGCTGATAGTCAAAATTTAAGCTACACGATGTTGCTCACACAAGCTAA
1 ATGGGTCTGCTAACACAAGCTGATAGTCAAAATAT-AGCTACACGATGTCACTCACACAAGCTAA
* * * *
18229459 TGAGTATTCGCAATAAATGCTAGAACTCAGCCATCAGTAGGACATTCAAAACCAGCA-CTCGAAA
65 CGAGTATCCGCAAAAAATG-TAGAACTCAGCCATCAGTAGGACATTCAAAACAAGCACCT-GAAA
18229523 CATG
128 CATG
18229527 AAAACCCTAA
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
136 32 0.29
137 40 0.36
138 39 0.35
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (136 bp):
ATGGGTCTGCTAACACAAGCTGATAGTCAAAATATAGCTACACGATGTCACTCACACAAGCTAAC
GAGTATCCGCAAAAAATGTAGAACTCAGCCATCAGTAGGACATTCAAAACAAGCACCTGAAACAT
GGTAAC
Found at i:18231240 original size:26 final size:26
Alignment explanation
Indices: 18231204--18231270 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
18231194 TACATCATTA
* *
18231204 CTCACACGAGCTGTGAAATGGGCTTG
1 CTCACACGAGCTGTGAAATAGGCCTG
* *
18231230 CTCACATGAGCTATGAAATAGGCCTG
1 CTCACACGAGCTGTGAAATAGGCCTG
*
18231256 CTCACACGAGTTGTG
1 CTCACACGAGCTGTG
18231271 GGGAGTCCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATAGGCCTG
Found at i:18232161 original size:257 final size:259
Alignment explanation
Indices: 18231702--18232223 Score: 933
Period size: 257 Copynumber: 2.0 Consensus size: 259
18231692 AGGACAATAG
*
18231702 TTTTAGGACCACAAATCTGACGAGCAAATTATTATTATTTATTATTTTAATGTTTATGAGATGTT
1 TTTTAGGACCACAAATCTGACGAGCAAA-TATTATTATTTATTAGTTTAATGTTTATGAGATGTT
*
18231767 AGTGAGGTCGTATTAATGTTTGCATGATTAATTAAGTAAAAAGAACTAAATCGTAAAAGGTTCAA
65 AGTAAGGTCGTATTAATGTTTGCATGATTAATTAAGTAAAAAGAACTAAATCGTAAAAGGTTCAA
*
18231832 AAGTAGAGTTTTATTAGTTAAAGGTGTCAAATGGCTATGAAACTTTAAAGTGAGAAGACTTATAT
130 AAGTAGAGTTCTATTAGTTAAAGGTGTCAAATGGCTATGAAACTTTAAAGTGAGAAGACTTATAT
18231897 GGTAATTAGACCATTTGTGTGGTTAGGGGATATTCATGGAAAGGTTTGTTTGAAATTTTGAATGC
195 GGTAATTAGACCATTTGTGTGGTTAGGGGATATTCATGGAAAGGTTTGTTTGAAATTTTGAATGC
* *
18231962 TTTTAGGACCACAAATCTGACGAG-TAA-ATTATTATTTATTAGTTTAATGTTTATGGGATGTTA
1 TTTTAGGACCACAAATCTGACGAGCAAATATTATTATTTATTAGTTTAATGTTTATGAGATGTTA
* *
18232025 GTAAGGTCGTATTGATGTTTGCATGATTAATTAAGTAAAAAGGAA-TAAATTGTAAAAGGTTCAA
66 GTAAGGTCGTATTAATGTTTGCATGATTAATTAAGTAAAAA-GAACTAAATCGTAAAAGGTTCAA
*
18232089 AAGTAGAGTTCTATTAGTTAAAGGTGTCAAATGGCTATGAAACTTTAAAGTGAGAGGACTTATAT
130 AAGTAGAGTTCTATTAGTTAAAGGTGTCAAATGGCTATGAAACTTTAAAGTGAGAAGACTTATAT
18232154 GGTAATTAGACCATTTGTGTGGTTAGGGGATATTCATGGAAAGGTTTGTTTGAAATTTTGAATGC
195 GGTAATTAGACCATTTGTGTGGTTAGGGGATATTCATGGAAAGGTTTGTTTGAAATTTTGAATGC
18232219 TTTTA
1 TTTTA
18232224 AAGGTTAAAA
Statistics
Matches: 253, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
257 224 0.89
258 3 0.01
259 2 0.01
260 24 0.09
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (259 bp):
TTTTAGGACCACAAATCTGACGAGCAAATATTATTATTTATTAGTTTAATGTTTATGAGATGTTA
GTAAGGTCGTATTAATGTTTGCATGATTAATTAAGTAAAAAGAACTAAATCGTAAAAGGTTCAAA
AGTAGAGTTCTATTAGTTAAAGGTGTCAAATGGCTATGAAACTTTAAAGTGAGAAGACTTATATG
GTAATTAGACCATTTGTGTGGTTAGGGGATATTCATGGAAAGGTTTGTTTGAAATTTTGAATGC
Found at i:18234277 original size:196 final size:196
Alignment explanation
Indices: 18233943--18234335 Score: 741
Period size: 196 Copynumber: 2.0 Consensus size: 196
18233933 GTATTGAGCT
*
18233943 TGATGTTAATGATTGAAATGTGGTAACATATGAATGTTTAGGTAAGTTTTGGATGAATGCATTAG
1 TGATGTTAATGATTGAAATGTGGTAACATATGAATGTTTAGGTAAGTTGTGGATGAATGCATTAG
*
18234008 AGATGCCTTGTATGGAATATTGGTTGATTGATTTTAGACTATTGAATTTGTCATTAAATGTAAGT
66 AGATGCCTTGTATGGAATATTGGTTGATTGATTTTAGACTATTAAATTTGTCATTAAATGTAAGT
18234073 TTTGGTCATGTTTTGATGTCTTGATTATGTGTACAAAAAGCCTTTAGGTGTGTGCATGGTTTGGT
131 TTTGGTCATGTTTTGATGTCTTGATTATGTGTACAAAAAGCCTTTAGGTGTGTGCATGGTTTGGT
18234138 G
196 G
*
18234139 TGATGTTAATGATTGAAATGTGGTAACATATGCATGTTTAGGTAAGTTGTGGATGAATGCATTAG
1 TGATGTTAATGATTGAAATGTGGTAACATATGAATGTTTAGGTAAGTTGTGGATGAATGCATTAG
*
18234204 AGATGCCTTGTATGGAATATTGGTTGATTGATTTTAGACTATTAAATTTGTCATTACATGTAAGT
66 AGATGCCTTGTATGGAATATTGGTTGATTGATTTTAGACTATTAAATTTGTCATTAAATGTAAGT
*
18234269 TTTGGTCATGTTTTGATGTCTTGATTATGTGTACAAAAGGCCTTTAGGTGTGTGCATGGTTTGGT
131 TTTGGTCATGTTTTGATGTCTTGATTATGTGTACAAAAAGCCTTTAGGTGTGTGCATGGTTTGGT
18234334 G
196 G
18234335 T
1 T
18234336 TTGAAATGGC
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 192 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.42
Consensus pattern (196 bp):
TGATGTTAATGATTGAAATGTGGTAACATATGAATGTTTAGGTAAGTTGTGGATGAATGCATTAG
AGATGCCTTGTATGGAATATTGGTTGATTGATTTTAGACTATTAAATTTGTCATTAAATGTAAGT
TTTGGTCATGTTTTGATGTCTTGATTATGTGTACAAAAAGCCTTTAGGTGTGTGCATGGTTTGGT
G
Found at i:18235264 original size:15 final size:15
Alignment explanation
Indices: 18235244--18235272 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18235234 GTGTTGTTGC
18235244 TTGATAACACGGTGA
1 TTGATAACACGGTGA
18235259 TTGATAACACGGTG
1 TTGATAACACGGTG
18235273 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:18238023 original size:21 final size:21
Alignment explanation
Indices: 18237983--18238023 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
18237973 TCACACTTCA
*
18237983 ATCACATACTCATATTTGTTT
1 ATCACATACTCATATCTGTTT
18238004 ATCA-ATACTCATATCCTGTT
1 ATCACATACTCATAT-CTGTT
18238024 GAACACATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (21 bp):
ATCACATACTCATATCTGTTT
Found at i:18238166 original size:50 final size:51
Alignment explanation
Indices: 18238101--18238225 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 51
18238091 TTCGATACAT
* * * * * *
18238101 GTAGTAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTCCGGTTCAC
1 GTAGTAACCTACACATAGTACTACACACGTGACCAAAGCCTTCCAGTGCAC
* *
18238151 GTAGTATCCTACACATAGTACTACACACGTGACCAAAGCCTTCTAGTGCAC
1 GTAGTAACCTACACATAGTACTACACACGTGACCAAAGCCTTCCAGTGCAC
* *
18238202 ATAGTAACCTGCACATAGTACTAC
1 GTAGTAACCTACACATAGTACTAC
18238226 GCATGCGACC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 34 0.53
51 30 0.47
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (51 bp):
GTAGTAACCTACACATAGTACTACACACGTGACCAAAGCCTTCCAGTGCAC
Found at i:18245917 original size:51 final size:51
Alignment explanation
Indices: 18245792--18245975 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 51
18245782 TATCATTCGA
* * * *
18245792 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTTCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACTTTCCGG
* *
18245842 TTCACATAGCAGCCTGCACATAGTACTACACACGTGACCAAAGAC-TTCCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAA-ACTTTCCGG
* * * * * *
18245893 TACACATAGTAGCCTGGACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-AAACTTTCCGG
* * *
18245944 TACACGTAGTAGCCTACACTTAGTACTACACA
1 TACACATAGTAGCCTGCACATAGTACTACACA
18245976 AGTGTTTATA
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 34 0.30
51 74 0.66
52 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACTTTCCGG
Found at i:18258538 original size:16 final size:16
Alignment explanation
Indices: 18258517--18258553 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18258507 TTTGGAGAGA
18258517 TTCTTTCCACCATTAT
1 TTCTTTCCACCATTAT
* *
18258533 TTCTTTCCACCTTTCT
1 TTCTTTCCACCATTAT
18258549 TTCTT
1 TTCTT
18258554 CTTCCCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCTTTCCACCATTAT
Found at i:18267846 original size:27 final size:26
Alignment explanation
Indices: 18267767--18267848 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 26
18267757 CACGATATAT
*
18267767 AAAGAAAGCTTTTGTGACATAAT-AT-A
1 AAAGAAAGC-TTTGTGGCA-AATCATGA
*
18267793 AAAGAAAGCCTTTGTGGTAAA-CAATGA
1 AAAGAAAG-CTTTGTGGCAAATC-ATGA
18267820 AAAGAAAGCTTATGTGGCAAATCATGA
1 AAAGAAAGCTT-TGTGGCAAATCATGA
18267847 AA
1 AA
18267849 TAAAAGCAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.04
26 20 0.43
27 24 0.51
28 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (26 bp):
AAAGAAAGCTTTGTGGCAAATCATGA
Found at i:18280799 original size:17 final size:17
Alignment explanation
Indices: 18280777--18280809 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18280767 GTTAGTGCAC
*
18280777 ATTGTCATTGCATTTTT
1 ATTGTCATCGCATTTTT
18280794 ATTGTCATCGCATTTT
1 ATTGTCATCGCATTTT
18280810 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (17 bp):
ATTGTCATCGCATTTTT
Found at i:18286430 original size:13 final size:13
Alignment explanation
Indices: 18286409--18286441 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18286399 CGTGTTGTAG
18286409 TTGTATTTACTTA
1 TTGTATTTACTTA
*
18286422 TTGTGTTTACTTA
1 TTGTATTTACTTA
18286435 TT-TATTT
1 TTGTATTT
18286442 TAGTTTGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (13 bp):
TTGTATTTACTTA
Found at i:18286873 original size:25 final size:25
Alignment explanation
Indices: 18286839--18286887 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
18286829 GGATTGATGG
18286839 ATGTATGAAGGCCTTGTAAAAGGCT
1 ATGTATGAAGGCCTTGTAAAAGGCT
*
18286864 ATGTATGAAGGCCTTGTAATAGGC
1 ATGTATGAAGGCCTTGTAAAAGGC
18286888 CTATTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (25 bp):
ATGTATGAAGGCCTTGTAAAAGGCT
Found at i:18286881 original size:13 final size:13
Alignment explanation
Indices: 18286840--18286881 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
18286830 GATTGATGGA
18286840 TGTATGAAGGCCT
1 TGTATGAAGGCCT
*
18286853 TGTA-AAAGG-CT
1 TGTATGAAGGCCT
18286864 ATGTATGAAGGCCT
1 -TGTATGAAGGCCT
18286878 TGTA
1 TGTA
18286882 ATAGGCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
13 12 0.50
14 2 0.08
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (13 bp):
TGTATGAAGGCCT
Found at i:18292806 original size:51 final size:51
Alignment explanation
Indices: 18292736--18292832 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
18292726 GCAAATTGTT
* * * *
18292736 GTGGCAAAATCTTGTTGTCATGCCATTGTTTGGTCTTTTTTTTGTACTACC
1 GTGGAAAAATCTTGCTGTCATGCCATCGTTTGGTCTTTTCTTTGTACTACC
18292787 GTGGAAAAATCTTGCTGTCATGCCATCGTTTGGTCTTTTCTTTGTA
1 GTGGAAAAATCTTGCTGTCATGCCATCGTTTGGTCTTTTCTTTGTA
18292833 TAGCTCGGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (51 bp):
GTGGAAAAATCTTGCTGTCATGCCATCGTTTGGTCTTTTCTTTGTACTACC
Found at i:18314052 original size:16 final size:14
Alignment explanation
Indices: 18314014--18314052 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
18314004 CTTAAAGATA
18314014 TCTTCCTTTTTTGT
1 TCTTCCTTTTTTGT
*
18314028 TCATCCTTTTTGTGTT
1 TCTTCCTTTTT-TG-T
18314044 TCTTCCTTT
1 TCTTCCTTT
18314053 CTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 10 0.48
15 2 0.10
16 9 0.43
ACGTcount: A:0.03, C:0.23, G:0.08, T:0.67
Consensus pattern (14 bp):
TCTTCCTTTTTTGT
Found at i:18324012 original size:15 final size:15
Alignment explanation
Indices: 18323994--18324023 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18323984 TAGGTAGAAA
18323994 TTAAATTAAACAAAT
1 TTAAATTAAACAAAT
*
18324009 TTAAATTAAGCAAAT
1 TTAAATTAAACAAAT
18324024 GGAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (15 bp):
TTAAATTAAACAAAT
Found at i:18333599 original size:19 final size:19
Alignment explanation
Indices: 18333575--18333620 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18333565 TGTCAACTAT
*
18333575 ACTTGCATCGACAGTGTAC
1 ACTTGCACCGACAGTGTAC
*
18333594 ACTTGCACCGATAGTGTAC
1 ACTTGCACCGACAGTGTAC
18333613 ACTTGCAC
1 ACTTGCAC
18333621 ATTATTGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (19 bp):
ACTTGCACCGACAGTGTAC
Found at i:18343603 original size:41 final size:41
Alignment explanation
Indices: 18343541--18343688 Score: 215
Period size: 41 Copynumber: 3.6 Consensus size: 41
18343531 GTTAATTATT
18343541 CCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
1 CCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
* * * *
18343582 CCCTGAATTGTACATACGTGCCCCTATTTATACTTCGATAC
1 CCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
* **
18343623 CCTTAAATTGCACATACGTGCCCCTATTTGTACTTTAGTAC
1 CCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
* *
18343664 CCATGAATTGCACATACGTGCCCCT
1 CCCTAAATTGCACATACGTGCCCCT
18343689 GTTTACACTC
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (41 bp):
CCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
Found at i:18343605 original size:21 final size:20
Alignment explanation
Indices: 18343541--18343688 Score: 77
Period size: 21 Copynumber: 7.2 Consensus size: 20
18343531 GTTAATTATT
*
18343541 CCCTAAATTGCACATACGTGC
1 CCCT-AATTGTACATACGTGC
* * *
18343562 CCCTATTTGTAC-TTCGGTAC
1 CCCTAATTGTACATAC-GTGC
18343582 CCCTGAATTGTACATACGTGC
1 CCCT-AATTGTACATACGTGC
* * * *
18343603 CCCTATTTATAC-TTCGATAC
1 CCCTAATTGTACATACG-TGC
* *
18343623 CCTTAAATTGCACATACGTGC
1 CCCT-AATTGTACATACGTGC
* * *
18343644 CCCTATTTGTACTTTA-GTAC
1 CCCTAATTGTAC-ATACGTGC
* *
18343664 CCATGAATTGCACATACGTGC
1 CCCT-AATTGTACATACGTGC
18343685 CCCT
1 CCCT
18343689 GTTTACACTC
Statistics
Matches: 90, Mismatches: 28, Indels: 18
0.66 0.21 0.13
Matches are distributed among these distances:
19 5 0.06
20 38 0.42
21 42 0.47
22 5 0.06
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (20 bp):
CCCTAATTGTACATACGTGC
Found at i:18343681 original size:82 final size:82
Alignment explanation
Indices: 18343544--18343703 Score: 257
Period size: 82 Copynumber: 2.0 Consensus size: 82
18343534 AATTATTCCC
* * *
18343544 TAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATTGTACATACGTGCCCCTAT
1 TAAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCATGAATTGCACATACGTGCCCCTAT
* *
18343609 TTATACTTCGATACCCT
66 TTACACTCCGATACCCT
* *
18343626 TAAATTGCACATACGTGCCCCTATTTGTACTTTAGTACCCATGAATTGCACATACGTGCCCCTGT
1 TAAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCATGAATTGCACATACGTGCCCCTAT
18343691 TTACACTCCGATA
66 TTACACTCCGATA
18343704 ACTTTGACTC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (82 bp):
TAAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCATGAATTGCACATACGTGCCCCTAT
TTACACTCCGATACCCT
Found at i:18347451 original size:4 final size:4
Alignment explanation
Indices: 18347442--18347656 Score: 430
Period size: 4 Copynumber: 53.8 Consensus size: 4
18347432 AGATAGCCAT
18347442 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
18347490 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
18347538 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
18347586 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
18347634 ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATA
18347657 CAAATGTGTC
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 211 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:18348247 original size:16 final size:15
Alignment explanation
Indices: 18348207--18348257 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
18348197 CATGCAACCT
*
18348207 ATGCACAGACTCATC
1 ATGCAAAGACTCATC
*
18348222 ATGCAGAGACTCATTC
1 ATGCAAAGACTCA-TC
*
18348238 ATGTAAAGACTCCATC
1 ATGCAAAGACT-CATC
18348254 ATGC
1 ATGC
18348258 TTTCAAGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 12 0.40
16 16 0.53
17 2 0.07
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (15 bp):
ATGCAAAGACTCATC
Found at i:18352934 original size:21 final size:21
Alignment explanation
Indices: 18352910--18352950 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18352900 TCATAAGCCA
18352910 ATTTCATCATCAAAT-GCATAT
1 ATTTCAT-ATCAAATGGCATAT
*
18352931 ATTTCATATCATATGGCATA
1 ATTTCATATCAAATGGCATA
18352951 CCGCATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (21 bp):
ATTTCATATCAAATGGCATAT
Found at i:18354023 original size:369 final size:369
Alignment explanation
Indices: 18353344--18354319 Score: 1767
Period size: 369 Copynumber: 2.6 Consensus size: 369
18353334 GTCTTTCGTG
18353344 GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTAGTTCAAGTGGTAAA
1 GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTAGTTCAAGTGGTAAA
18353409 GTGTAGCTTGCCCTAAGGTCTCGTGTTCAATTCCCTATGTGAGCGTAGATGATATTTTTACTTTG
66 GTGTAGCTTGCCCTAAGGTCTCGTGTTCAATTCCCTATGTGAGCGTAGATGATATTTTTACTTTG
18353474 CATGTGAGATAGAGGTTGGATGGAAGTAAAATTCTAAGGTAGTGGAGAGTTAGTGGGTTATTTAG
131 CATGTGAGATAGAGGTTGGATGGAAGTAAAATTCTAAGGTAGTGGAGAGTTAGTGGGTTATTTAG
18353539 TGAGATAATAGGAAGTTGAGATATTATAGGGTTCAAATTTTATGAGGCTCTGTATGGATTAAGTG
196 TGAGATAATAGGAAGTTGAGATATTATAGGGTTCAAATTTTATGAGGCTCTGTATGGATTAAGTG
18353604 TCACACTCCACTGTGTTGGACTAAGTTGGGTGAGCAATGGGTTTTGGGTCCTGAGTTAGTTTCTG
261 TCACACTCCACTGTGTTGGACTAAGTTGGGTGAGCAATGGGTTTTGGGTCCTGAGTTAGTTTCTG
18353669 AGACTGAAGACAAAGTTAGACTGATACAGGATCATTTTAAGGTA
326 AGACTGAAGACAAAGTTAGACTGATACAGGATCATTTTAAGGTA
18353713 GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTAGTTCAAGTGGTAAA
1 GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTAGTTCAAGTGGTAAA
18353778 GTGTAGCTTGCCCTAAGGTCTCGTGTTCAATTCCCTATGTGAGCGTAGATGATATTTTTACTTTG
66 GTGTAGCTTGCCCTAAGGTCTCGTGTTCAATTCCCTATGTGAGCGTAGATGATATTTTTACTTTG
18353843 CATGTGAGATAGAGGTTGGATGGAAGTAAAATTCTAAGGTAGTGGAGAGTTAGTGGGTTATTTAG
131 CATGTGAGATAGAGGTTGGATGGAAGTAAAATTCTAAGGTAGTGGAGAGTTAGTGGGTTATTTAG
18353908 TGAGATAATAGGAAGTTGAGATATTATAGGGTTCAAATTTTATGAGGCTCTGTATGGATTAAGTG
196 TGAGATAATAGGAAGTTGAGATATTATAGGGTTCAAATTTTATGAGGCTCTGTATGGATTAAGTG
18353973 TCACACTCCACTGTGTTGGACTAAGTTGGGTGAGCAATGGGTTTTGGGTCCTGAGTTAGTTTCTG
261 TCACACTCCACTGTGTTGGACTAAGTTGGGTGAGCAATGGGTTTTGGGTCCTGAGTTAGTTTCTG
18354038 AGACTGAAGACAAAGTTAGACTGATACAGGATCATTTTAAGGTA
326 AGACTGAAGACAAAGTTAGACTGATACAGGATCATTTTAAGGTA
* *
18354082 GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTGGTTCAAGTGGTAAG
1 GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTAGTTCAAGTGGTAAA
* * * ** * *
18354147 GTGTAGCTTACTCTAAGGTCTCATGTTTGATTCCCTATGTGAGCGTGGATGATATTTTTGCTTTT
66 GTGTAGCTTGCCCTAAGGTCTCGTGTTCAATTCCCTATGTGAGCGTAGATGATATTTTTAC-TTT
* * * * * *
18354212 G-TTGTGAGATAGAGGTTGGGTGGAAGTAAAATTCTGAA-ATACTAGAGAGTTAGTGGGTTAGTT
130 GCATGTGAGATAGAGGTTGGATGGAAGTAAAATTCT-AAGGTAGTGGAGAGTTAGTGGGTTATTT
* *
18354275 AGTGAGATAATGGGAAGTTGAGATATTATGGGGTTCAAATTTTAT
194 AGTGAGATAATAGGAAGTTGAGATATTATAGGGTTCAAATTTTAT
18354320 TTTTTTTATT
Statistics
Matches: 588, Mismatches: 17, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
369 582 0.99
370 6 0.01
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (369 bp):
GGTTGGGTTATATTTTATCTTTAGTAAACTCTTATCAGAATGAGCTTGCTAGTTCAAGTGGTAAA
GTGTAGCTTGCCCTAAGGTCTCGTGTTCAATTCCCTATGTGAGCGTAGATGATATTTTTACTTTG
CATGTGAGATAGAGGTTGGATGGAAGTAAAATTCTAAGGTAGTGGAGAGTTAGTGGGTTATTTAG
TGAGATAATAGGAAGTTGAGATATTATAGGGTTCAAATTTTATGAGGCTCTGTATGGATTAAGTG
TCACACTCCACTGTGTTGGACTAAGTTGGGTGAGCAATGGGTTTTGGGTCCTGAGTTAGTTTCTG
AGACTGAAGACAAAGTTAGACTGATACAGGATCATTTTAAGGTA
Found at i:18358850 original size:39 final size:41
Alignment explanation
Indices: 18358755--18358938 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
18358745 TTGAATGATG
*
18358755 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
18358794 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
18358834 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
18358873 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
18358913 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18358939 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:18358960 original size:79 final size:79
Alignment explanation
Indices: 18358807--18358971 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
18358797 GGACTAAGAT
* **
18358807 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
18358872 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18358886 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-G
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATA
* *
18358948 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
18358965 CCGAAGG
1 CCGAAGG
18358972 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.61
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:18366653 original size:40 final size:40
Alignment explanation
Indices: 18366470--18366653 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
18366460 TTGAATGATG
* * *
18366470 TCCGGGCTAAGTCCAGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAA-A
* * *
18366509 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGA-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTAAA
*
18366549 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAA
* * *
18366588 TTCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AA
*
18366629 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18366654 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
39 49 0.41
40 59 0.50
41 10 0.08
42 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:18368894 original size:15 final size:15
Alignment explanation
Indices: 18368853--18368894 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
18368843 ATTTCAACTC
18368853 TTTGAGTTATTTCTCT
1 TTTGA-TTATTTCTCT
*
18368869 TTATGA-GATTTCTCT
1 TT-TGATTATTTCTCT
18368884 TTTGATTATTT
1 TTTGATTATTT
18368895 TAGAGGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 2 0.09
17 3 0.14
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTGATTATTTCTCT
Found at i:18383584 original size:13 final size:13
Alignment explanation
Indices: 18383566--18383590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18383556 CATGAGTATT
18383566 AAGAAAAAATTAA
1 AAGAAAAAATTAA
18383579 AAGAAAAAATTA
1 AAGAAAAAATTA
18383591 TTTTGTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAGAAAAAATTAA
Found at i:18387306 original size:34 final size:34
Alignment explanation
Indices: 18387268--18387335 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
18387258 CTCTGAATGC
18387268 CGAGTCTAGACCTAATTTAGAGATTTACTTGAAA
1 CGAGTCTAGACCTAATTTAGAGATTTACTTGAAA
* *
18387302 CGAGTCTAGTCCTAATTTTGAGATTTACTTGAAA
1 CGAGTCTAGACCTAATTTAGAGATTTACTTGAAA
18387336 AGTTAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (34 bp):
CGAGTCTAGACCTAATTTAGAGATTTACTTGAAA
Found at i:18387518 original size:30 final size:30
Alignment explanation
Indices: 18387484--18387543 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
18387474 CATTACATAG
*
18387484 CTATTATCAAATTGATGTCAAACGGTGTAT
1 CTATTATCAAATTGATGTCAAACAGTGTAT
18387514 CTATTATCAAATTGATGTCAAACAGTGTAT
1 CTATTATCAAATTGATGTCAAACAGTGTAT
18387544 GAGCATGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (30 bp):
CTATTATCAAATTGATGTCAAACAGTGTAT
Found at i:18389931 original size:17 final size:20
Alignment explanation
Indices: 18389914--18389962 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
18389904 TGGAGTAGGA
*
18389914 ATATTGATACCTTAGGAAAT
1 ATATCGATACCTTAGGAAAT
*
18389934 ATATCGATACCTTAAGAAA-
1 ATATCGATACCTTAGGAAAT
18389953 AGTATCGATA
1 A-TATCGATA
18389963 GTAGATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAGGAAAT
Found at i:18396883 original size:3 final size:3
Alignment explanation
Indices: 18396875--18396903 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18396865 GATCCCAAAA
18396875 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
18396904 AGTGAGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18397034 original size:3 final size:3
Alignment explanation
Indices: 18397026--18397843 Score: 1636
Period size: 3 Copynumber: 272.7 Consensus size: 3
18397016 TTGTTTGCTT
18397026 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397074 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397122 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397170 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397218 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397266 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397314 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397362 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397410 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397458 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397506 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397554 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397602 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397650 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397698 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397746 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397794 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18397842 AA
1 AA
18397844 AGTGAGGATC
Statistics
Matches: 815, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 815 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18406771 original size:37 final size:37
Alignment explanation
Indices: 18406721--18406799 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18406711 TTATTACGAA
* * *
18406721 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18406758 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18406795 GTCTT
1 GTCTT
18406800 TAGAGCTCGA
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18406995 original size:47 final size:47
Alignment explanation
Indices: 18406917--18407409 Score: 797
Period size: 47 Copynumber: 10.4 Consensus size: 47
18406907 CCCTTCGGGA
* * * * * * *
18406917 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18406964 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18407011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18407058 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18407105 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18407152 CTTATCACATATATATACACTTTCACATTGATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18407201 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18407248 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18407295 CTTATCACATATATATACACTTTCACATTGATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18407344 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18407391 CTTATCACATATATACACT
1 CTTATCACATATATACACT
18407410 GTCTTGGCTG
Statistics
Matches: 417, Mismatches: 25, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 328 0.79
49 89 0.21
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18407228 original size:143 final size:143
Alignment explanation
Indices: 18406917--18407409 Score: 837
Period size: 143 Copynumber: 3.5 Consensus size: 143
18406907 CCCTTCGGGA
* * * * * * * * *
18406917 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
18406982 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTGATCACA
*
18407045 TCGGCCATTAGGC
131 TCGGCTATTAGGC
* *
18407058 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
18407123 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTGATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTGATCACA
18407188 TCGGCTATTAGGC
131 TCGGCTATTAGGC
* *
18407201 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
18407266 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTGATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTGATCACA
18407331 TCGGCTATTAGGC
131 TCGGCTATTAGGC
18407344 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
18407409 T
66 T
18407410 GTCTTGGCTG
Statistics
Matches: 333, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
141 91 0.27
143 242 0.73
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTGATCACA
TCGGCTATTAGGC
Found at i:18411936 original size:18 final size:18
Alignment explanation
Indices: 18411910--18411945 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18411900 GGTCTCAGTT
*
18411910 TTTCTAAAGGTATCGATA
1 TTTCCAAAGGTATCGATA
*
18411928 TTTCCAAAGTTATCGATA
1 TTTCCAAAGGTATCGATA
18411946 CCTGGCCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TTTCCAAAGGTATCGATA
Found at i:18412033 original size:20 final size:20
Alignment explanation
Indices: 18412008--18412059 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
18411998 GACAATCATT
*
18412008 TTAAAATGATTTTGACTTGG
1 TTAAAATGATTTTGACATGG
18412028 TTAAAATGATTTTGACATGG
1 TTAAAATGATTTTGACATGG
*
18412048 TTAAAATCATTT
1 TTAAAATGATTT
18412060 GCACTTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (20 bp):
TTAAAATGATTTTGACATGG
Found at i:18412307 original size:30 final size:29
Alignment explanation
Indices: 18412271--18412341 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
18412261 TCCACTTGAC
* *
18412271 TTAGATAGCCACAGAGGTG-TCTACACATCA
1 TTAGATAGCCACA-AGG-GATCCAAACATCA
*
18412301 TTAGATAGCCATAAGGGCATCCAAACATCA
1 TTAGATAGCCACAAGGG-ATCCAAACATCA
18412331 TTAGATAGCCA
1 TTAGATAGCCA
18412342 TAAAGGCATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 3 0.08
30 32 0.89
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (29 bp):
TTAGATAGCCACAAGGGATCCAAACATCA
Found at i:18412342 original size:30 final size:30
Alignment explanation
Indices: 18412295--18412353 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
18412285 AGGTGTCTAC
*
18412295 ACATCATTAGATAGCCATAAGGGCATCCAA
1 ACATCATTAGATAGCCATAAAGGCATCCAA
18412325 ACATCATTAGATAGCCATAAAGGCATCCA
1 ACATCATTAGATAGCCATAAAGGCATCCA
18412354 TACACATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (30 bp):
ACATCATTAGATAGCCATAAAGGCATCCAA
Found at i:18413803 original size:20 final size:20
Alignment explanation
Indices: 18413778--18413816 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18413768 TACTTTCTTC
18413778 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18413798 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18413817 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18415450 original size:50 final size:50
Alignment explanation
Indices: 18415385--18415564 Score: 263
Period size: 50 Copynumber: 3.6 Consensus size: 50
18415375 GAGCCAATGT
* * * * *
18415385 CATGTCCCAGACATGGTCTTACACTGACTCTTCTCTGT-TCGTGCCGATGG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCT-GTGCCGATGC
* *
18415435 CATATCCCAAACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
* *
18415485 CATGTCCTAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
18415535 CATGTCCCAGACATGGTCTTACACTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
18415565 ACTTACTGCC
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 116 0.99
51 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.22, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
Found at i:18415649 original size:44 final size:44
Alignment explanation
Indices: 18415592--18415679 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
18415582 AACCATGGTA
* * *
18415592 TTTTTCGTTAATTCTTTCTTAATTGCCATGTTATAAACATGGAC
1 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
18415636 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
1 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
18415680 CTTGAGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (44 bp):
TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
Found at i:18417260 original size:50 final size:50
Alignment explanation
Indices: 18417189--18417372 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
18417179 CTGTACTGCA
* * * ** * *
18417189 AATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATATCAGTACC
* * * * *
18417239 CATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCAGTACC
1 AATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATATCAGTACC
* * *
18417289 AACGCCATGTCCCAGACATGGTCTTAC-GTGGGACCTCTCATAACCTCAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACAG-GAGACCTCTCAT-A--TCAGT-A--CC
18417345 AATGCCATGTCCCAGACATGGTCTTACA
1 AATGCCATGTCCCAGACATGGTCTTACA
18417373 TGATGTCTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 74 0.69
53 4 0.04
54 1 0.01
56 28 0.26
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATATCAGTACC
Found at i:18417361 original size:56 final size:52
Alignment explanation
Indices: 18417235--18417371 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 52
18417225 CTCATATCGG
* * *
18417235 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCAGTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAATA
* *
18417287 --CCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT---CTCAAT-A
18417341 TGCCAATGCCATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
18417372 ATGATGTCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
50 39 0.53
53 5 0.07
54 1 0.01
56 28 0.38
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAATA
Found at i:18418466 original size:50 final size:50
Alignment explanation
Indices: 18418412--18418578 Score: 120
Period size: 50 Copynumber: 3.2 Consensus size: 50
18418402 TATCCCAAAT
* ** * * * *
18418412 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACAGGAGACCTCTCATATCAGTACCAATGACATGTCCCAGAC
** * *
18418462 ATGGTCTTATGGGGGACCTCTCATCTCAGTACCAATGACATGTCCCAGAC
1 ATGGTCTTACAGGAGACCTCTCATATCAGTACCAATGACATGTCCCAGAC
* * * * *
18418512 ATGGTCTTA-TGTGGGACCTCTCATAACCTCAATAATGTCAATGTCATGTCCCAGAC
1 ATGGTCTTACAG-GAGACCTCTCAT-A--TCAGT-A--CCAATGACATGTCCCAGAC
18418568 ATGGTCTTACA
1 ATGGTCTTACA
18418579 TAGGGTCTCA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 60 0.65
53 4 0.04
54 1 0.01
56 26 0.28
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACAGGAGACCTCTCATATCAGTACCAATGACATGTCCCAGAC
Found at i:18418567 original size:56 final size:50
Alignment explanation
Indices: 18418450--18418576 Score: 164
Period size: 50 Copynumber: 2.4 Consensus size: 50
18418440 GTGCCCATGC
*
18418450 CATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAGTACCAATGA
1 CATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAATACCAATGA
* * *
18418500 CATGTCCCAGACATGGTCTTATGTGGGACCTCTCATAACCTCAATAATGTCAATGT
1 CATGTCCCAGACATGGTCTTATGGGGGACCTCTCAT---CTCAAT-A--CCAATGA
18418556 CATGTCCCAGACATGGTCTTA
1 CATGTCCCAGACATGGTCTTA
18418577 CATAGGGTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
50 35 0.52
53 5 0.07
54 1 0.01
56 26 0.39
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAATACCAATGA
Found at i:18421764 original size:48 final size:49
Alignment explanation
Indices: 18421704--18421800 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 49
18421694 CTAATCCAAG
*
18421704 AAAACTTCTAACCTCTGACACATTTCTGGGT-GTTTCCACTCAACAATT
1 AAAACTTCTAACCTCTCACACATTTCTGGGTGGTTTCCACTCAACAATT
* *
18421752 AAAACTTTTAACCTCTCACACATTTTTGGGTGGTTTCCACTCAACAATT
1 AAAACTTCTAACCTCTCACACATTTCTGGGTGGTTTCCACTCAACAATT
18421801 GCTGAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 28 0.62
49 17 0.38
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (49 bp):
AAAACTTCTAACCTCTCACACATTTCTGGGTGGTTTCCACTCAACAATT
Found at i:18430124 original size:20 final size:18
Alignment explanation
Indices: 18430099--18430135 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
18430089 CTACCTAATA
18430099 AAAGAAGGAGAGAGAAGAAG
1 AAAGAA-GA-AGAGAAGAAG
18430119 AAAGAAGAAGAGAAGAA
1 AAAGAAGAAGAGAAGAA
18430136 TTTGTGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAGAGAAGAAG
Found at i:18438162 original size:26 final size:27
Alignment explanation
Indices: 18438133--18438188 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
18438123 GAGGGTGGTT
*
18438133 CTTA-AGAGTGTGCCACGAAGGCATTC
1 CTTACAGAGTGTGCCACAAAGGCATTC
* *
18438159 CTTACAGAGTTTGCGACAAAGGCATTC
1 CTTACAGAGTGTGCCACAAAGGCATTC
18438186 CTT
1 CTT
18438189 CCATATTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (27 bp):
CTTACAGAGTGTGCCACAAAGGCATTC
Found at i:18438267 original size:25 final size:26
Alignment explanation
Indices: 18438174--18438267 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
18438164 AGAGTTTGCG
* * *
18438174 ACAAAGGCATTCCTTCCATATTCCACC
1 ACAAAGGC-TTTCTTTCATATTACACC
** *
18438201 GTAAAGGCTTTCTTTCATATTACGCC
1 ACAAAGGCTTTCTTTCATATTACACC
18438227 ACAAAGGCTTTCTTTCATATTACACC
1 ACAAAGGCTTTCTTTCATATTACACC
* *
18438253 A-AAAGGATTTATTTC
1 ACAAAGGCTTTCTTTC
18438268 TGGATGTGTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 12 0.21
26 38 0.68
27 6 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTACACC
Found at i:18443255 original size:7 final size:7
Alignment explanation
Indices: 18443243--18443274 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18443233 TTCCATGTCA
18443243 TTTTCAT
1 TTTTCAT
18443250 TTTTCAT
1 TTTTCAT
18443257 TTTTCAT
1 TTTTCAT
18443264 TTTTCAT
1 TTTTCAT
18443271 TTTT
1 TTTT
18443275 GAGAAAACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCAT
Found at i:18443321 original size:41 final size:43
Alignment explanation
Indices: 18443244--18443336 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 43
18443234 TCCATGTCAT
* *
18443244 TTTCATTT-TTCATTTTTCATTTTTCATTTTTGAGAAAACGACA
1 TTTCATTTCTCCA-TTTTCATTTTTCATTTTTGAGAAAACCACA
18443287 -TTCATTTCTCCATTTTCA-TTTTCA-TTTTGCAGAAAACCACA
1 TTTCATTTCTCCATTTTCATTTTTCATTTTTG-AGAAAACCACA
18443328 TTTCATTTC
1 TTTCATTTC
18443337 CAAATGTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
40 5 0.11
41 16 0.36
42 21 0.47
43 3 0.07
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (43 bp):
TTTCATTTCTCCATTTTCATTTTTCATTTTTGAGAAAACCACA
Found at i:18447686 original size:42 final size:42
Alignment explanation
Indices: 18447605--18447731 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
18447595 TTCCAATATT
* * * ** *
18447605 GATTTGAGATCCCGTATAATACCATATATGGGATA-TGGCATC
1 GATTTGAGAT-TCGTGTAAGACCATAGCTGGGCTATTGGCATC
*
18447647 GATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATT
1 GATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATC
* * *
18447689 GATTTAAGATTTTGTGTAAGACTATAGCTGGGCTATTGGCATC
1 GATTTGAGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATC
18447732 AATACGAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 18 0.25
42 24 0.33
43 30 0.42
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
GATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATC
Found at i:18447742 original size:43 final size:43
Alignment explanation
Indices: 18447659--18447757 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
18447649 TTTGAGATTC
** **
18447659 GTGTAAGACCATAGCTGGGCTATTGGCATTGATTTAAGATTTT
1 GTGTAAGACCATAGCTGGGCTATTGGCATCAATACAAGATTTT
* * *
18447702 GTGTAAGACTATAGCTGGGCTATTGGCATCAATACGAGATTTCC
1 GTGTAAGACCATAGCTGGGCTATTGGCATCAATACAAGATTT-T
*
18447746 ATGTAAGACCAT
1 GTGTAAGACCAT
18447758 GTTTGGGACA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 36 0.78
44 10 0.22
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATTGGCATCAATACAAGATTTT
Found at i:18452957 original size:10 final size:10
Alignment explanation
Indices: 18452942--18452983 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
18452932 AACTTCAATT
18452942 ATTTCTATTC
1 ATTTCTATTC
18452952 ATTTCTA-TC
1 ATTTCTATTC
18452961 ATTTGC-ATTC
1 ATTT-CTATTC
18452971 ATTTCTATTC
1 ATTTCTATTC
18452981 ATT
1 ATT
18452984 GGTTCTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTCTATTC
Found at i:18463603 original size:42 final size:41
Alignment explanation
Indices: 18463507--18463603 Score: 151
Period size: 42 Copynumber: 2.4 Consensus size: 41
18463497 TACTTAGTGA
*
18463507 GTTACACAGC-TGGGACACACCGTGTGTCCCTTGTTTGAAT
1 GTTACACAGCTTGGGACACACCGTGTGTCCCTTGTTCGAAT
* *
18463547 GTTACACGGGTTGGGACACAACCGTGTGTCCCTTGTTCGAAT
1 GTTACACAGCTTGGGACAC-ACCGTGTGTCCCTTGTTCGAAT
18463589 GTTACACAGCTTGGG
1 GTTACACAGCTTGGG
18463604 GAGATATTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 8 0.16
41 8 0.16
42 34 0.68
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (41 bp):
GTTACACAGCTTGGGACACACCGTGTGTCCCTTGTTCGAAT
Found at i:18463700 original size:21 final size:21
Alignment explanation
Indices: 18463674--18463713 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18463664 TTTTCTTAAA
*
18463674 AGTTCTCATTTGCTTCAAATT
1 AGTTCTCAATTGCTTCAAATT
*
18463695 AGTTCTGAATTGCTTCAAA
1 AGTTCTCAATTGCTTCAAA
18463714 GTTATTTTCA
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:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
AGTTCTCAATTGCTTCAAATT
Found at i:18482202 original size:33 final size:32
Alignment explanation
Indices: 18482160--18482225 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
18482150 CTTACCTCGA
18482160 TAAACAAAGCATAAAAACATAATCGATCAATC
1 TAAACAAAGCATAAAAACATAATCGATCAATC
18482192 TAAACGAAAGCATAAAAACATAATCGATCAATC
1 TAAAC-AAAGCATAAAAACATAATCGATCAATC
18482225 T
1 T
18482226 GAAGCTTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.20
Consensus pattern (32 bp):
TAAACAAAGCATAAAAACATAATCGATCAATC
Found at i:18485269 original size:558 final size:558
Alignment explanation
Indices: 18483839--18485515 Score: 3162
Period size: 558 Copynumber: 3.0 Consensus size: 558
18483829 CCCAAAAAAT
18483839 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
1 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
**
18483904 GAATCCATTTATGTATAAATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
66 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
*
18483969 TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
131 TGACAGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
18484034 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
196 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
*
18484099 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATAAAAAG
261 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
18484164 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
326 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
18484229 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
391 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
18484294 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
456 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
18484359 GCATTGGT-GAGTTGATTTCGTAATGGCATGCCATTGG
521 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
18484396 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
1 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
*
18484461 GAATCCATTTATGTATTTA-TCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGCA
66 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
18484525 TGACAGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
131 TGACAGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
*
18484590 AGAAACCGAAAGCTGGTGTGCTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
196 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
18484655 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
261 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
18484720 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
326 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
18484785 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
391 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
*
18484850 ATTAGCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
456 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
18484915 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
521 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
* *
18484953 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCCT
1 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
*
18485018 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGCATACCTAAATCCTGAGTGGA
66 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
*
18485083 TGACAGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTGAGTTTGAATAGATA
131 TGACAGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
*
18485148 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTGGCTTAATTTACAATAATG
196 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
18485213 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
261 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
* *
18485278 TAAATGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
326 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
18485343 CTT-TTCATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAA
391 CTTCTT-ATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAA
* *
18485407 TATTATCCCAAAGAGATTAAGGATATCCTATTAGGGTAACACACATAAGACAAGGTCATTGGACG
455 TATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACG
* *
18485472 AGCATTGGTAGAGTTGATTTCATAATGGTATGCCATTGG
520 AGCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
18485511 AGAGA
1 AGAGA
18485516 GCTCAGTCTG
Statistics
Matches: 1096, Mismatches: 21, Indels: 5
0.98 0.02 0.00
Matches are distributed among these distances:
556 438 0.40
557 195 0.18
558 463 0.42
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (558 bp):
AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
TGACAGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
Found at i:18488637 original size:27 final size:27
Alignment explanation
Indices: 18488606--18488783 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18488596 TAAATTGTAC
18488606 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18488633 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18488659 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18488687 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18488715 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18488742 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18488769 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18488784 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18488720 original size:82 final size:81
Alignment explanation
Indices: 18488607--18488762 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18488597 AAATTGTACA
* *
18488607 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18488671 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18488688 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18488753 TGCGAGTTGA
65 TGCGAATTGA
18488763 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18488774 original size:82 final size:81
Alignment explanation
Indices: 18488603--18488783 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18488593 GATTAAATTG
* *
18488603 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18488668 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18488684 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18488748 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18488766 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18488784 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18496754 original size:27 final size:26
Alignment explanation
Indices: 18496723--18496900 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
18496713 TAAATTGTAC
18496723 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
18496750 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
18496776 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
18496804 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
18496832 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
18496859 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
18496886 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18496901 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:18496839 original size:82 final size:81
Alignment explanation
Indices: 18496724--18496879 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18496714 AAATTGTACA
* *
18496724 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18496788 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18496805 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18496870 TGCGAGTTGA
65 TGCGAATTGA
18496880 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18496891 original size:82 final size:81
Alignment explanation
Indices: 18496720--18496900 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18496710 GATTAAATTG
* *
18496720 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18496785 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
18496801 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18496865 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18496883 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18496901 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18510390 original size:21 final size:23
Alignment explanation
Indices: 18510356--18510397 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18510346 TTATACAAAC
18510356 AAAATACATAATACA-ATAAAGA
1 AAAATACATAATACATATAAAGA
*
18510378 AAAATATAT-ATACATATAAA
1 AAAATACATAATACATATAAA
18510398 TTATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATACATAATACATATAAAGA
Found at i:18510610 original size:30 final size:31
Alignment explanation
Indices: 18510537--18510619 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
18510527 ACATATATAA
* ** *
18510537 AAATAATAATTATCTACATATATATAGATTAT
1 AAATAATAATAAT-TACATATATATAGAAAAC
18510569 AAA-AA-AGATAATTACATATATATA-AAAAC
1 AAATAATA-ATAATTACATATATATAGAAAAC
*
18510598 AAATAATAATAATTAAATATAT
1 AAATAATAATAATTACATATAT
18510620 TGAAATTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 5 0.12
30 28 0.65
31 7 0.16
32 3 0.07
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATAATAATAATTACATATATATAGAAAAC
Found at i:18510778 original size:17 final size:17
Alignment explanation
Indices: 18510756--18510799 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
18510746 TAGGAAATAA
18510756 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
18510773 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
18510790 -ATATGTATAT
1 AAAATGTATAT
18510800 AAAAGTCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:18511160 original size:88 final size:88
Alignment explanation
Indices: 18510988--18511577 Score: 664
Period size: 88 Copynumber: 6.7 Consensus size: 88
18510978 AATAAATAAA
* * * *
18510988 AAGACTGATGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTACTATTTTCAACCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* ** *
18511053 ACTCCACTGC-TGCTCAGGGAGAC
66 GCTCCACTGCAACCT-AGGGAGGC
* * * * * **
18511076 AAGGCCGGAT-TTTTCGATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATCTTCAGTC
1 AAGACTGG-TGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACC
*
18511140 TGCTCCACTACAACCTAGGGAGGC
65 TGCTCCACTGCAACCTAGGGAGGC
* * * * * * * * *
18511164 AAGACTGGCGTCTTCAATTTGCTTCGCTGTCAGTATAGGAAGCCAAGATCTACAATTTTCAACCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* * *
18511229 GCTCCGCTACAATCC-AAGGAGGC
66 GCTCCACTGCAA-CCTAGGGAGGC
* * * * **
18511252 AAGGCTGGTGTCTTCGATCTGCTTCGTTGCCGGTACAGGAAGGCAAGATCTGCTGTCTTCAGTCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* * * * *
18511317 GCTCCATTGTAACCTAAGGACGT
66 GCTCCACTGCAACCTAGGGAGGC
* **
18511340 AAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
18511405 GCTCCACTGCAACCTAGGGAGGC
66 GCTCCACTGCAACCTAGGGAGGC
* * * * *
18511428 AAGACTGGTGTCTTCGATCTACTTCACTGTCAGTACAGGAAGGCAATATCTGCTATTTTCAACCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* *
18511493 GCTCCGCTGCAACCCAGGGAGGC
66 GCTCCACTGCAACCTAGGGAGGC
* * *
18511516 AAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCAA
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAA
18511578 TGATCTGTTC
Statistics
Matches: 416, Mismatches: 81, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
87 2 0.00
88 409 0.98
89 5 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
GCTCCACTGCAACCTAGGGAGGC
Found at i:18511488 original size:264 final size:264
Alignment explanation
Indices: 18511088--18511576 Score: 798
Period size: 264 Copynumber: 1.9 Consensus size: 264
18511078 GGCCGGATTT
*
18511088 TTCGATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTACAA
1 TTCGATCTGCTTCGCTACCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTACAA
* * * *
18511153 CCTAGGGAGGCAAGACTGGCGTCTTCAATTTGCTTCGCTGTCAGTATAGGAAGCCAAGATCTACA
66 CCTAGGGAGGCAAGACTGGCGTCTTCAATCTACTTCACTGTCAGTACAGGAAGCCAAGATCTACA
* *
18511218 ATTTTCAACCTGCTCCGCTACAATCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGCC
131 ATTTTCAACCTGCTCCGCTACAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCC
*
18511283 GGTACAGGAAGGCAAGATCTGCTGTCTTCAGTCTGCTCCATTGTAACCTAAGGACGTAAGACTGG
196 GGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCATTGTAACCTAAGGACGTAAGACTGG
18511348 TGTC
261 TGTC
** *
18511352 TTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAA
1 TTCGATCTGCTTCGCTACCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTACAA
* * * * * *
18511417 CCTAGGGAGGCAAGACTGGTGTCTTCGATCTACTTCACTGTCAGTACAGGAAGGCAATATCTGCT
66 CCTAGGGAGGCAAGACTGGCGTCTTCAATCTACTTCACTGTCAGTACAGGAAGCCAAGATCTACA
* * *
18511482 ATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCC
131 ATTTTCAACCTGCTCCGCTACAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCC
18511547 GGTACAGGAAGGCAAGATCTGCTATCTTCA
196 GGTACAGGAAGGCAAGATCTGCTATCTTCA
18511577 ATGATCTGTT
Statistics
Matches: 205, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
264 205 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (264 bp):
TTCGATCTGCTTCGCTACCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTACAA
CCTAGGGAGGCAAGACTGGCGTCTTCAATCTACTTCACTGTCAGTACAGGAAGCCAAGATCTACA
ATTTTCAACCTGCTCCGCTACAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCC
GGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCATTGTAACCTAAGGACGTAAGACTGG
TGTC
Found at i:18513819 original size:25 final size:26
Alignment explanation
Indices: 18513768--18513828 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
18513758 AAGAAAATCC
* **
18513768 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
18513794 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
18513819 AAAATGAATG
1 AAAA-GAATG
18513829 TAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:18517508 original size:21 final size:23
Alignment explanation
Indices: 18517474--18517515 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18517464 TTATACAAAC
18517474 AAAATACATAATACA-ATAAAGA
1 AAAATACATAATACATATAAAGA
*
18517496 AAAATATAT-ATACATATAAA
1 AAAATACATAATACATATAAA
18517516 TTATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATACATAATACATATAAAGA
Found at i:18519876 original size:19 final size:19
Alignment explanation
Indices: 18519845--18519891 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
18519835 ATTTAATTAT
18519845 TATATTTAAATATT-TAAA
1 TATATTTAAATATTCTAAA
*
18519863 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
*
18519883 TAAATTTAA
1 TATATTTAA
18519892 TAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TATATTTAAATATTCTAAA
Found at i:18519931 original size:30 final size:28
Alignment explanation
Indices: 18519892--18519957 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 28
18519882 ATAAATTTAA
18519892 TAAATAATTAATATTA-ATTACTTAGAAATAT
1 TAAA-AATTAATATTATA-TA-TTA-AAATAT
*
18519923 TTAAAATTAATATTATATATTAAAATAT
1 TAAAAATTAATATTATATATTAAAATAT
18519951 TAAAAAT
1 TAAAAAT
18519958 AAGTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.38
29 3 0.09
30 13 0.41
31 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAAATTAATATTATATATTAAAATAT
Found at i:18519956 original size:28 final size:30
Alignment explanation
Indices: 18519892--18519957 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 30
18519882 ATAAATTTAA
18519892 TAAATAATTAATATTAATTACTTAGAAATAT
1 TAAA-AATTAATATTAATTACTTAGAAATAT
*
18519923 TTAAAATTAATATT-ATATA-TTA-AAATAT
1 TAAAAATTAATATTAAT-TACTTAGAAATAT
18519951 TAAAAAT
1 TAAAAAT
18519958 AAGTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.38
29 5 0.16
30 12 0.38
31 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
TAAAAATTAATATTAATTACTTAGAAATAT
Found at i:18527856 original size:13 final size:14
Alignment explanation
Indices: 18527826--18527859 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18527816 TCAAACCAAG
*
18527826 AATTAAGCACACAT
1 AATTAAGAACACAT
18527840 AATTAAGAACA-AT
1 AATTAAGAACACAT
18527853 AATTAAG
1 AATTAAG
18527860 TATTTATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:18554087 original size:27 final size:27
Alignment explanation
Indices: 18554056--18554321 Score: 260
Period size: 27 Copynumber: 9.9 Consensus size: 27
18554046 AAGCCCAACT
18554056 TACCCCTAAAGGGTAAAATGACTGAAA
1 TACCCCTAAAGGGTAAAATGACTGAAA
** * *
18554083 TACCCCCGAAGGGTAAAATAACCGAAA
1 TACCCCTAAAGGGTAAAATGACTGAAA
* *
18554110 TACTCCTAAAGGGTAAAAT-AATCGAAA
1 TACCCCTAAAGGGTAAAATGACT-GAAA
* * *
18554137 TACCCCTAAATGGTAAAATGACCGAAG
1 TACCCCTAAAGGGTAAAATGACTGAAA
*
18554164 TACCTCC-AAAGGGTAAAATGACTGTAA
1 TACC-CCTAAAGGGTAAAATGACTGAAA
*
18554191 CA-CCCTCAAAGGGTAAAATGACTGAAA
1 TACCCCT-AAAGGGTAAAATGACTGAAA
* *
18554218 TA-CCCTCAAAGGATAGAATGA-TCGAAA
1 TACCCCT-AAAGGGTAAAATGACT-GAAA
* *
18554245 TA-CCCTCGAAGGGTAAAATGATTGAAA
1 TACCCCT-AAAGGGTAAAATGACTGAAA
*
18554272 TACCTCC-AAAGGGTAAAATGACTAAAA
1 TACC-CCTAAAGGGTAAAATGACTGAAA
*
18554299 TACCCC-ATAGGGTAAAATGACTG
1 TACCCCTAAAGGGTAAAATGACTG
18554322 TTATACCCAT
Statistics
Matches: 199, Mismatches: 31, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.01
26 20 0.10
27 170 0.85
28 5 0.03
29 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
TACCCCTAAAGGGTAAAATGACTGAAA
Found at i:18554155 original size:81 final size:81
Alignment explanation
Indices: 18554056--18554321 Score: 301
Period size: 81 Copynumber: 3.3 Consensus size: 81
18554046 AAGCCCAACT
* *
18554056 TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACTCCTAAAG
1 TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACTCCTAAAG
*
18554121 GGTAAAAT-AATCGAAA
66 GGTAAAATGACT-GAAA
* * * * * * *
18554137 TACCCCTAAATGGTAAAATGACCGAAGTACCTCCAAAGGGTAAAATGACTGTAACAC-CCTCAAA
1 TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACTCCT-AAA
18554201 GGGTAAAATGACTGAAA
65 GGGTAAAATGACTGAAA
* * * *
18554218 TA-CCCTCAAAGGATAGAATGA-TCGAAATACCCTCGAAGGGTAAAATGATTGAAATACCTCC-A
1 TACCCCT-AAAGGGTAAAATGACT-GAAATACCCCCGAAGGGTAAAATGACTGAAATA-CTCCTA
*
18554280 AAGGGTAAAATGACTAAAA
63 AAGGGTAAAATGACTGAAA
*
18554299 TACCCC-ATAGGGTAAAATGACTG
1 TACCCCTAAAGGGTAAAATGACTG
18554322 TTATACCCAT
Statistics
Matches: 152, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
80 19 0.12
81 125 0.82
82 6 0.04
83 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (81 bp):
TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACTCCTAAAG
GGTAAAATGACTGAAA
Found at i:18554716 original size:28 final size:28
Alignment explanation
Indices: 18554656--18554719 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
18554646 GTTGCATTAT
* * *
18554656 CACACTATTATTATATTGGGCTAAGGCC
1 CACACTGTTATTATATCGAGCTAAGGCC
* *
18554684 CACACTGTTATTGTATCGAGCTAAGGCT
1 CACACTGTTATTATATCGAGCTAAGGCC
*
18554712 GACACTGT
1 CACACTGT
18554720 ACTGTTACTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (28 bp):
CACACTGTTATTATATCGAGCTAAGGCC
Found at i:18561303 original size:19 final size:19
Alignment explanation
Indices: 18561265--18561316 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
18561255 TTCTGTTGCT
* *
18561265 GTAAGTGTTTTTGGCTATCG
1 GTAAGTGTTTAT-ACTATCG
18561285 GTAAGTGTTTATACTATCG
1 GTAAGTGTTTATACTATCG
18561304 GTAAGTGTTTATA
1 GTAAGTGTTTATA
18561317 ATTCGCACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (19 bp):
GTAAGTGTTTATACTATCG
Found at i:18561774 original size:27 final size:27
Alignment explanation
Indices: 18561743--18561873 Score: 165
Period size: 27 Copynumber: 4.8 Consensus size: 27
18561733 AAGCCCAACT
*
18561743 TACCCTCGAAGGGTAAAATGACCGAAA
1 TACCCCCGAAGGGTAAAATGACCGAAA
*
18561770 TACCCCCGAAGGGTAAAATGACCAAAA
1 TACCCCCGAAGGGTAAAATGACCGAAA
*
18561797 TACCCCCGAAGGGTAAAATGACTGAAA
1 TACCCCCGAAGGGTAAAATGACCGAAA
* * *
18561824 TACCCCCCAAAGGGTAAAAAGATC-AGAA
1 TA-CCCCCGAAGGGTAAAATGACCGA-AA
**
18561852 TACCCCTAAAGGGTAAAATGAC
1 TACCCCCGAAGGGTAAAATGAC
18561874 TAAAATGCCC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 70 0.77
28 21 0.23
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.14
Consensus pattern (27 bp):
TACCCCCGAAGGGTAAAATGACCGAAA
Found at i:18561856 original size:55 final size:55
Alignment explanation
Indices: 18561743--18561884 Score: 187
Period size: 55 Copynumber: 2.6 Consensus size: 55
18561733 AAGCCCAACT
* * * *
18561743 TACCCTCGAAGGGTAAAATGACCGAAATA-CCCCCGAAGGGTAAAATGACCAAAA
1 TACCCCCGAAGGGTAAAATGACTGAAATACCCCCCAAAGGGTAAAAAGACCAAAA
* *
18561797 TACCCCCGAAGGGTAAAATGACTGAAATACCCCCCAAAGGGTAAAAAGATCAGAA
1 TACCCCCGAAGGGTAAAATGACTGAAATACCCCCCAAAGGGTAAAAAGACCAAAA
** * *
18561852 TACCCCTAAAGGGTAAAATGACTAAAATGCCCC
1 TACCCCCGAAGGGTAAAATGACTGAAATACCCC
18561885 ATAGGTAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 27 0.35
55 50 0.65
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.14
Consensus pattern (55 bp):
TACCCCCGAAGGGTAAAATGACTGAAATACCCCCCAAAGGGTAAAAAGACCAAAA
Found at i:18562014 original size:36 final size:36
Alignment explanation
Indices: 18561967--18562037 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
18561957 GTGACACCCC
18561967 TAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACCG
1 TAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACCG
*
18562003 TAAAGTGACCCTAGTCGGAAAGCGGTTTCAGGACC
1 TAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACC
18562038 ACTAAACCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (36 bp):
TAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACCG
Found at i:18562947 original size:50 final size:50
Alignment explanation
Indices: 18562872--18562971 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
18562862 CAAGCTAAAG
18562872 AATCTGCCGGATGGCTTAATAATCCATCATCGGTTCGTCCATCATGGTGC
1 AATCTGCCGGATGGCTTAATAATCCATCATCGGTTCGTCCATCATGGTGC
18562922 AATCTGCCGGATGGCTTAATAATCCATCATCGGTTCGTCCATCATGGTGC
1 AATCTGCCGGATGGCTTAATAATCCATCATCGGTTCGTCCATCATGGTGC
18562972 CACGTCATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
AATCTGCCGGATGGCTTAATAATCCATCATCGGTTCGTCCATCATGGTGC
Found at i:18564335 original size:15 final size:15
Alignment explanation
Indices: 18564307--18564342 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18564297 TTAATAAAAG
*
18564307 GAAAA-AGTAGAAAT
1 GAAAACAGTACAAAT
18564321 GAAAACAGTACAAAT
1 GAAAACAGTACAAAT
18564336 GAAAACA
1 GAAAACA
18564343 AATTGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (15 bp):
GAAAACAGTACAAAT
Done.