Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 50 of 320
Found at i:14508017 original size:16 final size:16
Alignment explanation
Indices: 14507998--14508047 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
14507988 TATTTTTATA
14507998 TATTTTTTAATAATTT
1 TATTTTTTAATAATTT
*
14508014 TATTTTTTTATAAATTT
1 TATTTTTTAAT-AATTT
*
14508031 TATCATTTTTACTAATT
1 TAT--TTTTTAATAATT
14508048 ATAATCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.36
17 8 0.29
18 4 0.14
19 6 0.21
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTTTAATAATTT
Found at i:14508020 original size:17 final size:18
Alignment explanation
Indices: 14508000--14508047 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
14507990 TTTTTATATA
14508000 TTTTTTAATAATTTTAT-
1 TTTTTTAATAATTTTATC
14508017 TTTTTT-ATAAATTTTATC
1 TTTTTTAAT-AATTTTATC
* *
14508035 ATTTTTACTAATT
1 TTTTTTAATAATT
14508048 ATAATCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 9 0.35
19 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTAATAATTTTATC
Found at i:14508032 original size:26 final size:28
Alignment explanation
Indices: 14507971--14508032 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 28
14507961 TTTTATAGAA
14507971 AAATTTTAATAATATTTTATTTTTATAT
1 AAATTTTAATAATATTTTATTTTTATAT
** *
14507999 ATTTTTTAAT-A-ATTTTATTTTTTTAT
1 AAATTTTAATAATATTTTATTTTTATAT
14508025 AAATTTTA
1 AAATTTTA
14508033 TCATTTTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 20 0.69
27 1 0.03
28 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
AAATTTTAATAATATTTTATTTTTATAT
Found at i:14508040 original size:26 final size:26
Alignment explanation
Indices: 14507971--14508041 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
14507961 TTTTATAGAA
14507971 AAATTTTAATAATATTTTATTTTTATAT
1 AAATTTTAAT-AT-TTTTATTTTTATAT
** * *
14507999 ATTTTTTAATAATTTTATTTTTTTAT
1 AAATTTTAATATTTTTATTTTTATAT
14508025 AAATTTT-ATCATTTTTA
1 AAATTTTAAT-ATTTTTA
14508042 CTAATTATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.06
26 24 0.69
27 1 0.03
28 8 0.23
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (26 bp):
AAATTTTAATATTTTTATTTTTATAT
Found at i:14508203 original size:24 final size:24
Alignment explanation
Indices: 14508170--14508218 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
14508160 ATGAATTATC
*
14508170 TATATTTTTAATATTATAATAATT
1 TATATATTTAATATTATAATAATT
* *
14508194 TATATATTTATTATTTTAATAATT
1 TATATATTTAATATTATAATAATT
14508218 T
1 T
14508219 TTTTAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATTTAATATTATAATAATT
Found at i:14510062 original size:25 final size:25
Alignment explanation
Indices: 14510034--14510086 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
14510024 TCCAAATGAC
14510034 AAAATTAATGAGCCAAATTTTAATT
1 AAAATTAATGAGCCAAATTTTAATT
14510059 AAAATTAATGAGCCAAATTTTAATT
1 AAAATTAATGAGCCAAATTTTAATT
14510084 AAA
1 AAA
14510087 CTTTACTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (25 bp):
AAAATTAATGAGCCAAATTTTAATT
Found at i:14515427 original size:11 final size:11
Alignment explanation
Indices: 14515408--14515436 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14515398 CAATTTGTGA
14515408 AAAAT-AAAAT
1 AAAATAAAAAT
14515418 AAAATAAAAAT
1 AAAATAAAAAT
14515429 AAAATAAA
1 AAAATAAA
14515437 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:14516630 original size:17 final size:17
Alignment explanation
Indices: 14516608--14516642 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14516598 CAAATTGACA
*
14516608 TAGTTTTGTCTTTTAAC
1 TAGTTTTGACTTTTAAC
14516625 TAGTTTTGACTTTTAAC
1 TAGTTTTGACTTTTAAC
14516642 T
1 T
14516643 TTAGAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (17 bp):
TAGTTTTGACTTTTAAC
Found at i:14519249 original size:16 final size:17
Alignment explanation
Indices: 14519225--14519258 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14519215 TATTAGTTAA
*
14519225 AAATTATTTATTT-TTT
1 AAATAATTTATTTATTT
14519241 AAATAATTTATTTATTT
1 AAATAATTTATTTATTT
14519258 A
1 A
14519259 TCTTTTCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATAATTTATTTATTT
Found at i:14520459 original size:3 final size:3
Alignment explanation
Indices: 14520453--14520493 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14520443 TTTTTTGTAA
14520453 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14520494 ACTAATGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14520850 original size:33 final size:33
Alignment explanation
Indices: 14520808--14520870 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
14520798 ATAAAGTAAG
14520808 TTAAATCAAGTAAGATTCGTCGTTTTAATTAAA
1 TTAAATCAAGTAAGATTCGTCGTTTTAATTAAA
14520841 TTAAATCAAGTAAGATTCGTCGTTTTAATT
1 TTAAATCAAGTAAGATTCGTCGTTTTAATT
14520871 TGGTTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (33 bp):
TTAAATCAAGTAAGATTCGTCGTTTTAATTAAA
Found at i:14527405 original size:11 final size:11
Alignment explanation
Indices: 14527391--14527422 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14527381 TTGTGGTAGT
14527391 ATATTTTGATG
1 ATATTTTGATG
*
14527402 ATATTTTAATG
1 ATATTTTGATG
14527413 ATATTTTGAT
1 ATATTTTGAT
14527423 TTACTCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (11 bp):
ATATTTTGATG
Found at i:14529873 original size:14 final size:14
Alignment explanation
Indices: 14529854--14529880 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14529844 TTATCAACTC
14529854 TTATTATTTTATTA
1 TTATTATTTTATTA
14529868 TTATTATTTTATT
1 TTATTATTTTATT
14529881 CCAAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:14530888 original size:24 final size:23
Alignment explanation
Indices: 14530861--14530912 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
14530851 AAAACTTAGT
* *
14530861 TTTATTTCCAGAATACTAAAGTTA
1 TTTATTTACAAAATACTAAAG-TA
*
14530885 TTTAATTTACAAAATACTCAAGTA
1 TTT-ATTTACAAAATACTAAAGTA
14530909 TTTA
1 TTTA
14530913 GAAGATTGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 8 0.33
25 15 0.62
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (23 bp):
TTTATTTACAAAATACTAAAGTA
Found at i:14535327 original size:31 final size:31
Alignment explanation
Indices: 14535291--14535350 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
14535281 TTTAGAGAGT
14535291 CACACGCCCGTGTGGGTAAGCCGTGTGGCCA
1 CACACGCCCGTGTGGGTAAGCCGTGTGGCCA
** *
14535322 CACACGCCCGTGTGTTTAGGCCGTGTGGC
1 CACACGCCCGTGTGGGTAAGCCGTGTGGC
14535351 GAATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.13, C:0.32, G:0.35, T:0.20
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAAGCCGTGTGGCCA
Found at i:14540898 original size:3 final size:3
Alignment explanation
Indices: 14540892--14540925 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
14540882 TTTGAATCAC
14540892 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
14540926 TTTTATTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:14542127 original size:12 final size:12
Alignment explanation
Indices: 14542110--14542134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14542100 TCACTCAAAA
14542110 ACCTAAGCTCTT
1 ACCTAAGCTCTT
14542122 ACCTAAGCTCTT
1 ACCTAAGCTCTT
14542134 A
1 A
14542135 ATTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ACCTAAGCTCTT
Found at i:14545609 original size:14 final size:14
Alignment explanation
Indices: 14545592--14545630 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14545582 ATCATTATAG
14545592 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
14545606 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
14545620 TTCAGGGTTTA
1 TTTAGGGTTTA
14545631 AAGTGTAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:14548607 original size:8 final size:8
Alignment explanation
Indices: 14548593--14548648 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 8
14548583 GTGATTATGA
14548593 TAATAGTG
1 TAATAGTG
*
14548601 GAATAGTG
1 TAATAGTG
*
14548609 GAATAGTG
1 TAATAGTG
* *
14548617 TAATTGCG
1 TAATAGTG
14548625 TAATAGTG
1 TAATAGTG
*
14548633 TAATAGAG
1 TAATAGTG
14548641 TAATAGTG
1 TAATAGTG
14548649 GAATTTTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.32
Consensus pattern (8 bp):
TAATAGTG
Found at i:14548629 original size:32 final size:32
Alignment explanation
Indices: 14548593--14548653 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
14548583 GTGATTATGA
* *
14548593 TAATAGTGGAATAGTGGAATAGTGTAATTGCG
1 TAATAGTGGAATAGAGGAATAGTGGAATTGCG
* *
14548625 TAATAGTGTAATAGAGTAATAGTGGAATT
1 TAATAGTGGAATAGAGGAATAGTGGAATT
14548654 TTTTGATTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.33
Consensus pattern (32 bp):
TAATAGTGGAATAGAGGAATAGTGGAATTGCG
Found at i:14549504 original size:5 final size:5
Alignment explanation
Indices: 14549496--14549525 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
14549486 GTATTTAAAG
14549496 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
14549526 ATCACGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:14549622 original size:86 final size:86
Alignment explanation
Indices: 14549511--14549793 Score: 442
Period size: 86 Copynumber: 3.2 Consensus size: 86
14549501 TTTTATTTTA
* *
14549511 TTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14549576 TAAATTAAATTGTATTTAAAG
66 TAAATTAAATTGTATTTAAAG
14549597 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14549662 TAAATTAAATTGTATTTAAAG
66 TAAATTAAATTGTATTTAAAG
14549683 TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAA
1 TTTTATTTTATTTTA----ATC---A-CA--AAAAAACTTTTGTCTACTTTTATTTTATTTTTAA
14549748 ATTACCTAATTAAATTAAATT-TCATTTAAAG
56 ATTACCTAATTAAATTAAATTGT-ATTTAAAG
14549779 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
14549794 TTTTATTTTA
Statistics
Matches: 184, Mismatches: 2, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
86 99 0.54
90 3 0.02
93 1 0.01
94 2 0.01
95 1 0.01
96 78 0.42
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (86 bp):
TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
TAAATTAAATTGTATTTAAAG
Found at i:14549637 original size:96 final size:95
Alignment explanation
Indices: 14549529--14549794 Score: 365
Period size: 96 Copynumber: 2.9 Consensus size: 95
14549519 TATTTTAATC
14549529 ACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
1 ACGAAAAAACTTTTGTCTA-CTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
14549594 AAGTTTTATTTTATTTTA-ATCA-C------
65 AAGTTTTATTTTATTTTATATCATCAAAAAA
14549617 A--AAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
1 ACGAAAAAACTTTTGTCTAC-TTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
* * ** **
14549680 AAGTTTTATTTTATTTTATTTTATCTTAATC
65 AAGTTTTATTTTATTTTATATCATCAAAAAA
14549711 ACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATT-TCATTT
1 ACGAAAAAACTTTTGTCTAC-TTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGT-ATTT
14549775 AAAGTTTTATTTTATTTTAT
64 AAAGTTTTATTTTATTTTAT
14549795 TTTATTTTAT
Statistics
Matches: 164, Mismatches: 2, Indels: 16
0.90 0.01 0.09
Matches are distributed among these distances:
85 1 0.01
86 78 0.48
87 2 0.01
88 2 0.01
94 1 0.01
95 1 0.01
96 79 0.48
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (95 bp):
ACGAAAAAACTTTTGTCTACTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAA
AGTTTTATTTTATTTTATATCATCAAAAAA
Found at i:14549787 original size:5 final size:5
Alignment explanation
Indices: 14549779--14549807 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14549769 TCATTTAAAG
14549779 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
14549808 TAAATTACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:14549795 original size:96 final size:96
Alignment explanation
Indices: 14549597--14549799 Score: 372
Period size: 96 Copynumber: 2.1 Consensus size: 96
14549587 GTATTTAAAG
*
14549597 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATCTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14549662 TAAATTAAATTGTATTTAAAGTTTTATTTTA
66 TAAATTAAATTGTATTTAAAGTTTTATTTTA
*
14549693 TTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATCTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14549758 TAAATTAAATT-TCATTTAAAGTTTTATTTTA
66 TAAATTAAATTGT-ATTTAAAGTTTTATTTTA
14549789 TTTTATTTTAT
1 TTTTATTTTAT
14549800 TTTATTTTTA
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 1 0.01
96 103 0.99
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (96 bp):
TTTTATTTTATCTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
TAAATTAAATTGTATTTAAAGTTTTATTTTA
Found at i:14549798 original size:187 final size:183
Alignment explanation
Indices: 14549438--14549793 Score: 635
Period size: 182 Copynumber: 1.9 Consensus size: 183
14549428 GTTTAAAATA
14549438 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG---T-TT
*
14549503 TTATTTTATTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAAT
62 TTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAAT
14549568 TACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTAATCACAAAAAAAC
127 TACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTAATCACAAAAAAAC
14549625 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG-TTTTAT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTTAT
*
14549689 TTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACC
66 TTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTACC
14549754 TAATTAAATTAAATT-TCATTTAAAGTTTTATTTTATTTTA
131 TAATTAAATTAAATTGT-ATTTAAAGTTTTATTTTATTTTA
14549794 TTTTATTTTA
Statistics
Matches: 166, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
181 1 0.01
182 107 0.64
187 58 0.35
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (183 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTTAT
TTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTACC
TAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTAATCACAAAAAAAC
Found at i:14549807 original size:63 final size:63
Alignment explanation
Indices: 14549731--14549861 Score: 246
Period size: 63 Copynumber: 2.1 Consensus size: 63
14549721 TTTTGTCTAC
14549731 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATT-TCATTTAAAGTTTTATTTTATTTTA
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGT-ATTTAAAGTTTTATTTTATTTTA
14549794 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA
14549857 TTTTA
1 TTTTA
14549862 ATCACGAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 66 0.99
64 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (63 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA
Found at i:14549850 original size:48 final size:48
Alignment explanation
Indices: 14549787--14549942 Score: 148
Period size: 48 Copynumber: 3.4 Consensus size: 48
14549777 AGTTTTATTT
14549787 TATTT-TA-TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTG
1 TATTTATAGTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTG
* ** * * **
14549833 TATTTAAAGTTTTATTTTA-TTTTATTTTA-ATCACGAAA--AAACTT-
1 TATTTATAGTTTTATTTTATTTTTAAATTACCTAATTAAATTAAA-TTG
* * * *
14549877 T-TGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAATTG
1 TATTTATAGTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTG
14549924 TATTTATAGTTTTATTTTA
1 TATTTATAGTTTTATTTTA
14549943 AGTATTTTAT
Statistics
Matches: 80, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
43 13 0.16
44 11 0.14
45 7 0.09
46 12 0.15
47 13 0.16
48 24 0.30
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (48 bp):
TATTTATAGTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTG
Found at i:14549910 original size:154 final size:156
Alignment explanation
Indices: 14549635--14549960 Score: 552
Period size: 154 Copynumber: 2.1 Consensus size: 156
14549625 TTTTGTCTAC
14549635 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA--
*
14549700 TTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTA
64 TTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTA
**
14549765 AATT-TCATTTAAAGTTTTATTTTATTTTA
129 AATTGT-ATTTAAAGTTTTATTTTA-AGTA
14549794 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA-T
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATT
14549858 -T-TTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAA
66 ATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAA
*
14549921 TTGTATTTATAGTTTTATTTTAAGTA
131 TTGTATTTAAAGTTTTATTTTAAGTA
14549947 TTTTATTTTATTTT
1 TTTTATTTTATTTT
14549961 ATTTTAATCA
Statistics
Matches: 162, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
153 16 0.10
154 80 0.49
155 2 0.01
156 1 0.01
159 63 0.39
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (156 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATT
ATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAA
TTGTATTTAAAGTTTTATTTTAAGTA
Found at i:14550005 original size:154 final size:150
Alignment explanation
Indices: 14549683--14550003 Score: 420
Period size: 154 Copynumber: 2.1 Consensus size: 150
14549673 GTATTTAAAG
*
14549683 TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAA
1 TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAA
14549748 ATTACCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTATTTTATTTTATTTTTAAAT
66 ATTACCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTATTTTATTTTATTTTTAAAT
* * *
14549813 TACCTAATTAAATTAAATTGTA
131 CACCGAATGAAATT--ATTGTA
* *
14549835 TTTAAAGTTTTATTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTAT
1 TTT-TA-TTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTAT
*
14549900 AAATTACCTAATTAAATTAAATTGT-ATTTATAGTTTTATTTTAAGTATTTTATTTTATTTTA-T
64 AAATTACCTAATTAAATTAAATT-TCATTTAAAGTTTTA-TTT---TATTTTATTTTATTTTATT
14549963 TTT-AATCA-CGAA-GAATATT-TTGTCTA
124 TTTAAATCACCGAATGAA-ATTATTG--TA
14549989 CTTTTATTTTATTTT
1 -TTTTATTTTATTTT
14550004 TAAATTACCT
Statistics
Matches: 150, Mismatches: 8, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
152 6 0.04
153 10 0.07
154 96 0.64
155 13 0.09
156 4 0.03
157 4 0.03
158 17 0.11
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (150 bp):
TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAA
ATTACCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTATTTTATTTTATTTTTAAAT
CACCGAATGAAATTATTGTA
Found at i:14550235 original size:10 final size:9
Alignment explanation
Indices: 14550219--14550325 Score: 76
Period size: 9 Copynumber: 11.7 Consensus size: 9
14550209 AAATATATAT
*
14550219 CATATTTTA
1 CATAATTTA
14550228 CATAATTTA
1 CATAATTTA
*
14550237 CATAACTTA
1 CATAATTTA
*
14550246 TATAA--TA
1 CATAATTTA
14550253 CATAAATATATA
1 CAT-AAT-T-TA
14550265 TCAT-ATCTTA
1 -CATAAT-TTA
14550275 CATAATTTA
1 CATAATTTA
**
14550284 CATAATTCG
1 CATAATTTA
* *
14550293 GATAACTTA
1 CATAATTTA
14550302 CATAATTTA
1 CATAATTTA
*
14550311 CATAACTTA
1 CATAATTTA
14550320 CATAAT
1 CATAAT
14550326 ACATAAATAT
Statistics
Matches: 76, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 58 0.76
10 4 0.05
11 3 0.04
12 2 0.03
13 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (9 bp):
CATAATTTA
Found at i:14550250 original size:18 final size:18
Alignment explanation
Indices: 14550225--14550325 Score: 89
Period size: 18 Copynumber: 5.5 Consensus size: 18
14550215 ATATCATATT
14550225 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
* *
14550243 TTATATAA--TACATAAA
1 TTACATAATTTACATAAC
* *
14550259 TATATATCATATCTTACATAAT
1 T-TACAT-A-AT-TTACATAAC
***
14550281 TTACATAATTCGGATAAC
1 TTACATAATTTACATAAC
14550299 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
14550317 TTACATAAT
1 TTACATAAT
14550326 ACATAAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
16 8 0.12
17 5 0.08
18 37 0.56
19 3 0.05
20 1 0.02
21 4 0.06
22 8 0.12
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (18 bp):
TTACATAATTTACATAAC
Found at i:14555418 original size:13 final size:14
Alignment explanation
Indices: 14555402--14555430 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14555392 TTATAAATAT
14555402 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
14555415 TTATAATGGTTTAA
1 TTATAATGGTTTAA
14555429 TT
1 TT
14555431 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:14556195 original size:31 final size:31
Alignment explanation
Indices: 14556148--14556213 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
14556138 GTATTTTTTT
*
14556148 ATGCTACATTTGCTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
* *
14556179 ATGCTATATTTTCTGTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
14556210 ATGC
1 ATGC
14556214 AGGAAGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.15, C:0.11, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTGGTTGGATTTA
Found at i:14556309 original size:43 final size:43
Alignment explanation
Indices: 14556287--14556379 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
14556277 AAAAAAGCGT
*
14556287 CGCTAAAAACAATGATTTTTAGCGGCGCTTTTACAAGAAACGC
1 CGCTAAAAACAATGACTTTTAGCGGCGCTTTTACAAGAAACGC
* * * * *
14556330 CGCTAAAAGCCATGACTTTTAGCGGCACTTTT-CTGACAAACGC
1 CGCTAAAAACAATGACTTTTAGCGGCGCTTTTAC-AAGAAACGC
14556373 CGCTAAA
1 CGCTAAA
14556380 TTTTGTAGCG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
CGCTAAAAACAATGACTTTTAGCGGCGCTTTTACAAGAAACGC
Found at i:14558489 original size:26 final size:26
Alignment explanation
Indices: 14558453--14558510 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
14558443 TGATACAAAT
14558453 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
14558479 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
14558505 TGATAA
1 TGATAA
14558511 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:14565488 original size:26 final size:26
Alignment explanation
Indices: 14565451--14565534 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14565441 TGATACAAAT
* *
14565451 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14565477 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14565503 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14565529 TGATAA
1 TGATAA
14565535 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14571570 original size:26 final size:26
Alignment explanation
Indices: 14571541--14571644 Score: 145
Period size: 26 Copynumber: 4.0 Consensus size: 26
14571531 TGATACAAAT
14571541 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * **
14571567 TGATAATGGATTAGGTAAATATAACA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14571593 TGATAATGCGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14571619 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14571645 CGATGGGAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14587082 original size:33 final size:33
Alignment explanation
Indices: 14587027--14587182 Score: 81
Period size: 33 Copynumber: 4.7 Consensus size: 33
14587017 AACTGATGGA
* *
14587027 TAAGACCATGGCT-GGGTCATGGCAATATATGTG
1 TAAGACCATAGCTAGGCT-ATGGCAATATATGTG
*
14587060 TAAGACCATAGCTAGGCTATGGC-ATCT-TGATG
1 TAAGACCATAGCTAGGCTATGGCAATATATG-TG
* * ** *
14587092 ATAAGACCATATC-AGGGATATGGCACCACGA-GTG
1 -TAAGACCATAGCTA-GGCTATGGCAATA-TATGTG
* * ** * *
14587126 TAAGACCATGGCTAGGCCATGATAATACACGTG
1 TAAGACCATAGCTAGGCTATGGCAATATATGTG
*
14587159 TAAGACCATAG-TTGGACTATGGCA
1 TAAGACCATAGCTAGG-CTATGGCA
14587183 TCATACTAGA
Statistics
Matches: 90, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
31 2 0.02
32 10 0.11
33 71 0.79
34 6 0.07
35 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGGCAATATATGTG
Found at i:14587243 original size:45 final size:45
Alignment explanation
Indices: 14587192--14587307 Score: 178
Period size: 45 Copynumber: 2.6 Consensus size: 45
14587182 ATCATACTAG
14587192 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
* * *
14587237 AGATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
* * *
14587282 AAATGTGTAAGACCATGGTTGAAAGA
1 AAATGAGTAAGACCATAGCTGAAAGA
14587308 TACCATGGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
Found at i:14587342 original size:46 final size:46
Alignment explanation
Indices: 14587191--14587460 Score: 240
Period size: 46 Copynumber: 5.9 Consensus size: 46
14587181 CATCATACTA
* * ** * * *
14587191 GAAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGAT-T
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * * * * * * **
14587236 CAGATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGAT-T
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * **
14587281 CAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTTTAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* ** *
14587327 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* *
14587373 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATA-
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * * *
14587418 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 G-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
14587461 TCAAATATAA
Statistics
Matches: 191, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
45 75 0.39
46 116 0.61
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (46 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
Found at i:14597448 original size:40 final size:40
Alignment explanation
Indices: 14597266--14597488 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
14597256 TCCTCGTTCA
* * * * *
14597266 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
14597305 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
14597345 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
14597385 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
14597425 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
14597465 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
14597489 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:14597497 original size:41 final size:41
Alignment explanation
Indices: 14597420--14597497 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
14597410 TTAGTATCTC
* * *
14597420 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
14597461 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
14597498 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:14605325 original size:40 final size:40
Alignment explanation
Indices: 14605142--14605311 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
14605132 TCCTCGTTCA
* * * * *
14605142 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
14605181 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
14605221 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
14605261 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
14605301 AAGGCCTTCGG
1 AATGCCTTCGG
14605312 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:14617470 original size:26 final size:27
Alignment explanation
Indices: 14617419--14617470 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
14617409 TTGGACACAA
14617419 TTGAATAAAGTTGAAGGTTTTTTTTACT
1 TTGAATAAAG-TGAAGGTTTTTTTTACT
14617447 TTGAATAAAG-GAA-GTTTTTCTTTA
1 TTGAATAAAGTGAAGGTTTTT-TTTA
14617471 AAAGAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.26
26 7 0.30
28 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (27 bp):
TTGAATAAAGTGAAGGTTTTTTTTACT
Found at i:14618717 original size:16 final size:16
Alignment explanation
Indices: 14618696--14618740 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14618686 AATGAGTTTT
14618696 ATTTTTATAATTTTCA
1 ATTTTTATAATTTTCA
*
14618712 ATTTTTTATAATTTTTTA
1 A-TTTTTATAA-TTTTCA
14618730 A-TTTTATAATT
1 ATTTTTATAATT
14618741 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 9 0.35
18 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTATAATTTTCA
Found at i:14622640 original size:60 final size:59
Alignment explanation
Indices: 14622576--14622701 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 59
14622566 TTATTTTAAC
* * * **
14622576 TTTTAGAA-TTAAACTAAATTGAAAAATTTTGTAAATGTTGAGGGCTAAATTTATTAAATT
1 TTTTAGAACTAAAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTA-T-AATT
* *
14622636 TTTTAGAACTAAAACTAAAATGACAACTTTTATAAACATTGAGGGCTAAATTTATAATT
1 TTTTAGAACTAAAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATAATT
14622695 TTTTAGA
1 TTTTAGA
14622702 TTTAGGTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
59 11 0.19
60 9 0.16
61 38 0.66
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (59 bp):
TTTTAGAACTAAAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATAATT
Found at i:14626444 original size:14 final size:14
Alignment explanation
Indices: 14626425--14626451 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14626415 TTCCTGACCA
14626425 TTCATTTTCCAAAT
1 TTCATTTTCCAAAT
14626439 TTCATTTTCCAAA
1 TTCATTTTCCAAA
14626452 ATAAGATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (14 bp):
TTCATTTTCCAAAT
Found at i:14630442 original size:71 final size:66
Alignment explanation
Indices: 14630287--14630504 Score: 192
Period size: 71 Copynumber: 3.2 Consensus size: 66
14630277 ACTTTAACAA
** ** * * ** **
14630287 TTCATGCAAATATAACATAGAAAATGAT-AA-ATAATGACATAAATTTCATAATAT-GCATTATC
1 TTCATGCAAATATAACATAGAAAACAATGAATATAACAATATAAATTACATAATATATAACAAT-
14630349 AT
65 AT
* * *
14630351 TTCATGCAGATATAACCATAGAAAACAATG-ATCATAATAATATAGATTACATAATACATACATA
1 TTCATGCAAATATAA-CATAGAAAACAATGAAT-ATAACAATATAAATTACATAAT--AT--ATA
*
14630415 ATAATAT
60 ACAATAT
*
14630422 TTCATGCAAAATATAACATAGAAAACAATGAATATAACAATATAAATTGCATAATATATAACAAT
1 TTCATGC-AAATATAACATAGAAAACAATGAATATAACAATATAAATTACATAATATATAACAAT
14630487 AT
65 AT
*
14630489 TTTATGCAAATATAAC
1 TTCATGCAAATATAAC
14630505 TTAAAATAAC
Statistics
Matches: 127, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
64 14 0.11
65 12 0.09
66 9 0.07
67 33 0.26
69 4 0.03
71 42 0.33
72 13 0.10
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (66 bp):
TTCATGCAAATATAACATAGAAAACAATGAATATAACAATATAAATTACATAATATATAACAATA
T
Found at i:14631028 original size:19 final size:19
Alignment explanation
Indices: 14630992--14631035 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14630982 GTAAGGAATA
* *
14630992 ATATAATATATAGGAAAAT
1 ATATAACATATAAGAAAAT
*
14631011 ATATAACATATAATAAAAT
1 ATATAACATATAAGAAAAT
*
14631030 TTATAA
1 ATATAA
14631036 ATAAAATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (19 bp):
ATATAACATATAAGAAAAT
Found at i:14631055 original size:21 final size:21
Alignment explanation
Indices: 14631031--14631076 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14631021 TAATAAAATT
14631031 TATAAATAAAATG-TATAATAA
1 TATAAATAAAATGATA-AATAA
*
14631052 TATAAATAATATGATAAATAA
1 TATAAATAAAATGATAAATAA
14631073 TATA
1 TATA
14631077 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TATAAATAAAATGATAAATAA
Found at i:14631060 original size:12 final size:11
Alignment explanation
Indices: 14631045--14631091 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
14631035 AATAAAATGT
14631045 ATAATAATATAA
1 ATAAT-ATATAA
14631057 ATAATATGATAA
1 ATAATAT-ATAA
14631069 ATAATATATAAAA
1 ATAATATAT--AA
14631082 ATAATATATA
1 ATAATATATA
14631092 TACAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 11 0.34
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
ATAATATATAA
Found at i:14632933 original size:44 final size:44
Alignment explanation
Indices: 14632651--14632920 Score: 407
Period size: 44 Copynumber: 6.1 Consensus size: 44
14632641 GGAGAAACCG
* * *
14632651 AATCTGTCATCTTGGACCTGCCCTCTGTCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
14632695 AATCTG-CTATCTTCGATTTGCTTTCTGTCAATACAGAGAAGCCA
1 AATCTGTC-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
14632739 AATATGTTATCTTCGATCTGCTCTCTATCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
14632783 AATCTATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
14632827 AATCTGTCATCTTCGATCTGCTCTCTATCAATATAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
14632871 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
14632915 AATCTG
1 AATCTG
14632921 CTATCGGTGA
Statistics
Matches: 202, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 201 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
Found at i:14653590 original size:40 final size:40
Alignment explanation
Indices: 14653492--14653661 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
14653482 TCCTCATTCA
* * * *
14653492 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA-T
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
14653531 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
14653571 AATGCCTTCGGGACTTAACCC-GACTTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGA-TTTAATAACTCGCACG
* * * *
14653611 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
14653651 AAGGCCTTCGG
1 AATGCCTTCGG
14653662 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 36 0.31
40 79 0.68
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:14661560 original size:40 final size:40
Alignment explanation
Indices: 14661378--14661600 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
14661368 TCCTCGTTCA
* * * * *
14661378 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
14661417 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
14661457 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
14661497 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
14661537 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
14661577 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
14661601 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:14661609 original size:41 final size:41
Alignment explanation
Indices: 14661532--14661609 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
14661522 TTAGTATCTC
* * *
14661532 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
14661573 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
14661610 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:14675123 original size:16 final size:16
Alignment explanation
Indices: 14675102--14675146 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14675092 AATGAGTTTT
14675102 ATTTTTATAATTTTCA
1 ATTTTTATAATTTTCA
*
14675118 ATTTTTTATAATTTTTTA
1 A-TTTTTATAA-TTTTCA
14675136 A-TTTTATAATT
1 ATTTTTATAATT
14675147 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 9 0.35
18 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTATAATTTTCA
Found at i:14676140 original size:15 final size:15
Alignment explanation
Indices: 14676120--14676156 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
14676110 ACAATTGTAA
*
14676120 AAAATATTTATTATT
1 AAAATATTTAATATT
14676135 AAAATA-TTAATATT
1 AAAATATTTAATATT
14676149 -AAATATTT
1 AAAATATTT
14676157 TCATTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATATTTAATATT
Found at i:14676423 original size:27 final size:27
Alignment explanation
Indices: 14676371--14676423 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
14676361 TAAAATTTAT
* **
14676371 TATCAATATAATAATTTTTTTATTGAA
1 TATCAATATAATAATATTAATATTGAA
*
14676398 TATCAATATAATAATATTAATCTTGA
1 TATCAATATAATAATATTAATATTGA
14676424 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
TATCAATATAATAATATTAATATTGAA
Found at i:14679306 original size:20 final size:18
Alignment explanation
Indices: 14679277--14679327 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
14679267 TTATTTATAA
*
14679277 TTTTAGATTTTT-AAATTAT
1 TTTTATATTTTTCAAA-T-T
14679296 TTTTATAATTTTATCAAATT
1 TTTTAT-ATTTT-TCAAATT
14679316 TTTTATATTTTT
1 TTTTATATTTTT
14679328 TTTCTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 10 0.36
20 12 0.43
21 2 0.07
22 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTCAAATT
Found at i:14679410 original size:61 final size:61
Alignment explanation
Indices: 14679345--14679478 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 61
14679335 TATTTTTAAC
* * **
14679345 TTTTAGAATTAGAACTAAATTGAAAAATTTTGTAAATGTTGAGGGCTAAATTTATTAAATT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTAAATT
* * * * *
14679406 TTTTAGAACTAAAACTAAAATGACAACTTTTATAAACATTGAGGGCTAAATTTATTAATTT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTAAATT
*
14679467 TTTTAGATTTAG
1 TTTTAGAATTAG
14679479 GTCAAATTGA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTAAATT
Found at i:14687238 original size:71 final size:66
Alignment explanation
Indices: 14687083--14687300 Score: 192
Period size: 71 Copynumber: 3.2 Consensus size: 66
14687073 ACTTTAACAA
** ** * * ** **
14687083 TTCATGCAAATATAACATAGAAAATGAT-AA-ATAATGACATAAATTTCATAATAT-GCATTATC
1 TTCATGCAAATATAACATAGAAAACAATGAATATAACAATATAAATTACATAATATATAACAAT-
14687145 AT
65 AT
* * *
14687147 TTCATGCAGATATAACCATAGAAAACAATG-ATCATAATAATATAGATTACATAATACATACATA
1 TTCATGCAAATATAA-CATAGAAAACAATGAAT-ATAACAATATAAATTACATAAT--AT--ATA
*
14687211 ATAATAT
60 ACAATAT
*
14687218 TTCATGCAAAATATAACATAGAAAACAATGAATATAACAATATAAATTGCATAATATATAACAAT
1 TTCATGC-AAATATAACATAGAAAACAATGAATATAACAATATAAATTACATAATATATAACAAT
14687283 AT
65 AT
*
14687285 TTTATGCAAATATAAC
1 TTCATGCAAATATAAC
14687301 TTAAAATAAC
Statistics
Matches: 127, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
64 14 0.11
65 12 0.09
66 9 0.07
67 33 0.26
69 4 0.03
71 42 0.33
72 13 0.10
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (66 bp):
TTCATGCAAATATAACATAGAAAACAATGAATATAACAATATAAATTACATAATATATAACAATA
T
Found at i:14687824 original size:19 final size:19
Alignment explanation
Indices: 14687787--14687825 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14687777 TAAAAATGTA
*
14687787 AGGAATAATATATATATAT
1 AGGAATAATATATACATAT
14687806 AGGAA-AATATATAACATAT
1 AGGAATAATATAT-ACATAT
14687825 A
1 A
14687826 ATAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (19 bp):
AGGAATAATATATACATAT
Found at i:14687850 original size:21 final size:23
Alignment explanation
Indices: 14687826--14687903 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 23
14687816 ATAACATATA
14687826 ATAA-AATTTATAAATAA-ATGT
1 ATAATAATTTATAAATAATATGT
14687847 ATAATAA--TATAAATAATATG-
1 ATAATAATTTATAAATAATATGT
* *
14687867 ATAAATAATATATAAAATAATATAT
1 AT-AATAATTTAT-AAATAATATGT
*
14687892 AT-ACAATTTATA
1 ATAATAATTTATA
14687904 CATATAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
20 11 0.23
21 12 0.26
22 3 0.06
23 10 0.21
24 9 0.19
25 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (23 bp):
ATAATAATTTATAAATAATATGT
Found at i:14687862 original size:12 final size:11
Alignment explanation
Indices: 14687847--14687892 Score: 65
Period size: 12 Copynumber: 3.9 Consensus size: 11
14687837 AAATAAATGT
14687847 ATAATAATATAA
1 ATAAT-ATATAA
14687859 ATAATATGATAA
1 ATAATAT-ATAA
14687871 ATAATATATAAA
1 ATAATATAT-AA
14687883 ATAATATATA
1 ATAATATATA
14687893 TACAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.16
12 27 0.84
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATAATATATAA
Found at i:14689735 original size:44 final size:44
Alignment explanation
Indices: 14689453--14689722 Score: 407
Period size: 44 Copynumber: 6.1 Consensus size: 44
14689443 GGAGAAACCG
* * *
14689453 AATCTGTCATCTTGGACCTGCCCTCTGTCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
14689497 AATCTG-CTATCTTCGATTTGCTTTCTGTCAATACAGAGAAGCCA
1 AATCTGTC-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
14689541 AATATGTTATCTTCGATCTGCTCTCTATCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
14689585 AATCTATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
14689629 AATCTGTCATCTTCGATCTGCTCTCTATCAATATAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
14689673 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
14689717 AATCTG
1 AATCTG
14689723 CTATCGGTGA
Statistics
Matches: 202, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 201 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
Found at i:14701718 original size:21 final size:20
Alignment explanation
Indices: 14701692--14701740 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
14701682 ACATAGTCTG
*
14701692 GCCACACGGGCATGTGGGGAA
1 GCCACACGGCCATGT-GGGAA
* *
14701713 GCCACATGGCCATGTGTGAA
1 GCCACACGGCCATGTGGGAA
14701733 GCCACACG
1 GCCACACG
14701741 ATCGTGTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (20 bp):
GCCACACGGCCATGTGGGAA
Found at i:14707708 original size:20 final size:19
Alignment explanation
Indices: 14707685--14707724 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14707675 TATTATACAT
14707685 TATAAGATTATTTTATTATA
1 TATAAGATTA-TTTATTATA
**
14707705 TATATTATTATTTATTATA
1 TATAAGATTATTTATTATA
14707724 T
1 T
14707725 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TATAAGATTATTTATTATA
Found at i:14707761 original size:13 final size:13
Alignment explanation
Indices: 14707743--14707777 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14707733 TTCACAAATT
14707743 ATTATTATTTTAC
1 ATTATTATTTTAC
*
14707756 ATTATTATTTTAT
1 ATTATTATTTTAC
14707769 ATTATTATT
1 ATTATTATT
14707778 ATTATATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:14707761 original size:16 final size:16
Alignment explanation
Indices: 14707740--14707780 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 16
14707730 TTTTTCACAA
14707740 ATTATTATTATTTTAC
1 ATTATTATTATTTTAC
*
14707756 ---ATTATTATTTTAT
1 ATTATTATTATTTTAC
14707769 ATTATTATTATT
1 ATTATTATTATT
14707781 ATATCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.57
16 9 0.43
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTATTATTTTAC
Found at i:14707802 original size:32 final size:30
Alignment explanation
Indices: 14707703--14707819 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 30
14707693 TATTTTATTA
*
14707703 TATATATTATTATTTATTATATCTTATTTTT
1 TATATATTATTA-TTATTATATCTTATTTAT
* * *
14707734 TCACAAATTATTATTATTTTA-CATTA-TTAT
1 T-ATATATTATTATTATTATATC-TTATTTAT
*
14707764 TTTATATTATTATTATTATATCTTACTTGTAT
1 TATATATTATTATTATTATATCTTA-TT-TAT
14707796 TATATATTTATTAATTATTTATAT
1 TATATA-TTATT-ATTA-TTATAT
14707820 ATATTGTTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
29 18 0.26
30 6 0.09
31 12 0.18
32 17 0.25
33 5 0.07
34 4 0.06
35 6 0.09
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (30 bp):
TATATATTATTATTATTATATCTTATTTAT
Found at i:14707861 original size:38 final size:38
Alignment explanation
Indices: 14707796--14707869 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 38
14707786 TTACTTGTAT
14707796 TATATATTTATTAATTATTTATATATAT-TGTTCTTACA
1 TATATATTTATTAATTATTTATATATATAT-TTCTTACA
*
14707834 TATATATTT-TT-GTTATTTTATATTATATATTTCTTA
1 TATATATTTATTAATTA-TTTATA-TATATATTTCTTA
14707870 TTTCCTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 3 0.09
37 8 0.25
38 20 0.62
39 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (38 bp):
TATATATTTATTAATTATTTATATATATATTTCTTACA
Found at i:14708355 original size:12 final size:13
Alignment explanation
Indices: 14708340--14708368 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14708330 ATATCATGTG
14708340 TTATATA-TTATT
1 TTATATATTTATT
14708352 TTATATATTTATT
1 TTATATATTTATT
14708365 TTAT
1 TTAT
14708369 GAACATGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATATATTTATT
Found at i:14714457 original size:15 final size:15
Alignment explanation
Indices: 14714421--14714470 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
14714411 CGATATCCTT
14714421 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
14714435 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
14714451 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
14714464 TTTGCAT
1 TTTGCAT
14714471 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:14724770 original size:205 final size:205
Alignment explanation
Indices: 14724415--14724996 Score: 850
Period size: 206 Copynumber: 2.8 Consensus size: 205
14724405 ACAAGCCACA
* *
14724415 ACATAGCAGATCTGGCATTCAGATGTTTATACTGAAGCAGATCCAAAATGATTTGGGCATCCTTG
1 ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTG
* * * * *
14724480 TGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGACTTTCATGTGTTTACAATGAAGCAAAT
65 TGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAAT
* * *
14724545 CTAAGATGA-TTGGTCATCTCTGTATTGTCAGAGAGCAAATCGAAGTTTGGCATCTCCACTTCAA
130 CTAAGATGATTTGG-CATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAA
14724609 CGGGGAGCAGAT
194 CGGGGAGCAGAT
*
14724621 ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
14724686 GCTTACAAGGAGCAAATCAAAGACGTAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAATC
66 GCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAATC
*
14724751 TAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAACG
14724816 GGGAGCAGAT
196 GGGAGCAGAT
* * * * *
14724826 ACATAGCAGATAT--CATCTTCAGATAATCT-CACTGAAGCAAGATCCAAGATGATTTGGCATTC
1 ACATAGCAGATCTGGC-T-TTCAGAT-GTTTATACTGAAGC-AGATCCAAGATGATTTGGCATCC
* * * * *
14724888 TTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGG-AGC
62 TTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACG-AGGAAGC
*
14724952 AAATCTAAGATGATTTGGCGTCTCTGTATTGTCAGAGAACAAATC
126 AAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
14724997 CAAGAAGCAG
Statistics
Matches: 343, Mismatches: 27, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
203 1 0.00
204 1 0.00
205 163 0.48
206 176 0.51
207 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAACG
GGGAGCAGAT
Found at i:14726647 original size:18 final size:20
Alignment explanation
Indices: 14726626--14726666 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
14726616 TATTATACAT
14726626 TATAAGATTA-T-TTTATTA
1 TATAAGATTATTATTTATTA
**
14726644 TATATTATTATTATTTATTA
1 TATAAGATTATTATTTATTA
14726664 TAT
1 TAT
14726667 CTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TATAAGATTATTATTTATTA
Found at i:14726652 original size:3 final size:3
Alignment explanation
Indices: 14726632--14726722 Score: 50
Period size: 3 Copynumber: 30.7 Consensus size: 3
14726622 ACATTATAAG
*
14726632 ATT ATT -TT ATT ATAT ATT ATT ATT ATTT ATT ATAT CTT ATT -TT -TT
1 ATT ATT ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT ATT ATT ATT
** * *
14726677 CACAA ATT ATT ATT ATT -TT A-C ATT ATT ATT TTT A-T ATT ATT ATT
1 -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14726721 AT
1 AT
14726723 ATCTTACTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
2 11 0.16
3 48 0.71
4 9 0.13
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14726654 original size:13 final size:13
Alignment explanation
Indices: 14726634--14726753 Score: 52
Period size: 13 Copynumber: 8.9 Consensus size: 13
14726624 ATTATAAGAT
14726634 TATT-TTATTATA
1 TATTATTATTATA
*
14726646 TATTATTATTATT
1 TATTATTATTATA
14726659 TATTA-TATCT-TA
1 TATTATTAT-TATA
* * *
14726671 T-TTTTTCA-CAAA
1 TATTATT-ATTATA
*
14726683 TTATTATTATTTTA
1 -TATTATTATTATA
* *
14726697 CATTATTATTTTTA
1 TATTATTA-TTATA
14726711 TATTATTATTATA
1 TATTATTATTATA
*
14726724 TCTTACTTGTATTATA
1 TATTA--T-TATTATA
14726740 TATTTATTAATTAT
1 TA-TTATT-ATTAT
14726754 TTATATATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
11 2 0.03
12 11 0.14
13 31 0.39
14 18 0.22
15 7 0.09
16 8 0.10
17 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (13 bp):
TATTATTATTATA
Found at i:14726715 original size:14 final size:14
Alignment explanation
Indices: 14726684--14726720 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
14726674 TTTCACAAAT
14726684 TATTATTA-TTTTA
1 TATTATTATTTTTA
*
14726697 CATTATTATTTTTA
1 TATTATTATTTTTA
14726711 TATTATTATT
1 TATTATTATT
14726721 ATATCTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:14727298 original size:13 final size:12
Alignment explanation
Indices: 14727245--14727301 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
14727235 AGTCATTTCA
14727245 TTTATATATATAT
1 TTTATATAT-TAT
** *
14727258 TGCATATATCAT
1 TTTATATATTAT
14727270 GTGTTATATATTAT
1 -T-TTATATATTAT
14727284 TTTATATATTTAT
1 TTTATATA-TTAT
14727297 TTTAT
1 TTTAT
14727302 GAACATGTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 9 0.26
13 18 0.51
14 8 0.23
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (12 bp):
TTTATATATTAT
Found at i:14738094 original size:30 final size:30
Alignment explanation
Indices: 14737975--14738080 Score: 142
Period size: 30 Copynumber: 3.6 Consensus size: 30
14737965 TTAGCCCGGA
* *
14737975 TGAG-AAATCTATTATACTGTCAGCTTGTG
1 TGAGCAAATCTATTATAATGACAGCTTGTG
* *
14738004 TGAGCAAATCTATTATAAGGACAACTTGTG
1 TGAGCAAATCTATTATAATGACAGCTTGTG
*
14738034 TGAGCAAATCTATTATAATGAAAGCTTGTG
1 TGAGCAAATCTATTATAATGACAGCTTGTG
* *
14738064 TGAGCAATTTTATTATA
1 TGAGCAAATCTATTATA
14738081 CTGTTATCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 4 0.06
30 63 0.94
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (30 bp):
TGAGCAAATCTATTATAATGACAGCTTGTG
Found at i:14742720 original size:29 final size:29
Alignment explanation
Indices: 14742657--14742724 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
14742647 TAATCAACCG
14742657 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
14742686 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
14742715 CGCACACTTA
1 CGCACACTTA
14742725 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:14742836 original size:174 final size:174
Alignment explanation
Indices: 14742546--14742873 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
14742536 AACTCAAGGT
* *
14742546 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
14742611 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
14742676 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
14742720 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
14742785 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
14742850 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
14742874 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:14742865 original size:29 final size:30
Alignment explanation
Indices: 14742826--14742904 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
14742816 CTTAATAATC
14742826 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
14742856 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
14742885 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
14742905 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:14750864 original size:29 final size:29
Alignment explanation
Indices: 14750801--14750868 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
14750791 TAATCAACCG
14750801 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
14750830 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
14750859 CGCACACTTA
1 CGCACACTTA
14750869 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:14750980 original size:174 final size:174
Alignment explanation
Indices: 14750690--14751017 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
14750680 AACTCAAGGT
* *
14750690 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
14750755 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
14750820 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
14750864 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
14750929 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
14750994 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
14751018 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:14751009 original size:29 final size:30
Alignment explanation
Indices: 14750970--14751048 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
14750960 CTTAATAATC
14750970 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
14751000 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
14751029 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
14751049 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:14773288 original size:2 final size:2
Alignment explanation
Indices: 14773281--14773310 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14773271 AATATTACTA
14773281 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14773311 AACATCGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14775622 original size:30 final size:30
Alignment explanation
Indices: 14775579--14775686 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 30
14775569 TTTTCCTCTG
14775579 AAATTTTTAGAAAATTTTAATTAAACCCTTC
1 AAATTTTT-GAAAATTTTAATTAAACCCTTC
* * * * *
14775610 AAATATTTGAAAATCCTT-ATTATACCTTTT
1 AAATTTTTGAAAAT-TTTAATTAAACCCTTC
* *
14775640 ATATTTTTGAAAATTTTAATTAAGCTCTCTT-
1 AAATTTTTGAAAATTTTAATTAAAC-C-CTTC
14775671 AAATTTTTTGAAAATT
1 AAA-TTTTTGAAAATT
14775687 CTCATTAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
29 2 0.03
30 32 0.53
31 12 0.20
32 14 0.23
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (30 bp):
AAATTTTTGAAAATTTTAATTAAACCCTTC
Found at i:14779139 original size:42 final size:42
Alignment explanation
Indices: 14779075--14779182 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
14779065 TCATATGAGT
* * * * * *
14779075 TTTCATTTAACCCTAATGGGTTTCCGTTCAGCTCTTTTGAGC
1 TTTCGTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
14779117 -TTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
1 TTTC-GTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
*
14779159 TTTCGTTCAACCCTTATGGGTTTC
1 TTTCGTTTAACCCTTATGGGTTTC
14779183 TGTTAGCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 51 0.89
43 3 0.05
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTCGTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
Found at i:14782758 original size:5 final size:5
Alignment explanation
Indices: 14782748--14782825 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
14782738 GTAACCCAAT
* * *
14782748 TTTTA TTTTA TTTT- TATTTA TTTTA TTTATTA TTTTC TTTTG TTTTC
1 TTTTA TTTTA TTTTA T-TTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
* *
14782795 TTTT- TTATT- TATTA CTTTA TTTTA TTTTA TT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TT
14782826 ATTTATTACT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
4 5 0.08
5 47 0.78
6 5 0.08
7 3 0.05
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:14782812 original size:25 final size:26
Alignment explanation
Indices: 14782764--14782841 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 26
14782754 TTTATTTTTA
14782764 TTTATTTTA-TTTATTA-TT-TT-CT
1 TTTATTTTATTTTATTATTTATTACT
* *
14782786 TTTGTTTTCTTTT-TTATTTATTAC-
1 TTTATTTTATTTTATTATTTATTACT
14782810 TTTATTTTATTTTATTATTTATTAC-
1 TTTATTTTATTTTATTATTTATTACT
14782835 TTTATTT
1 TTTATTT
14782842 GGATATTAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 10 0.21
23 5 0.11
24 13 0.28
25 19 0.40
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (26 bp):
TTTATTTTATTTTATTATTTATTACT
Found at i:14782817 original size:29 final size:29
Alignment explanation
Indices: 14782749--14782832 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
14782739 TAACCCAATT
*
14782749 TTTATTTTATTTTTATTTATTTTATTTATTAT
1 TTTATTTTA-TTTTA-TT-TTTTATTTATTAC
* * *
14782781 TTTCTTTTGTTTTCTTTTTTATTTATTAC
1 TTTATTTTATTTTATTTTTTATTTATTAC
*
14782810 TTTATTTTATTTTATTATTTATT
1 TTTATTTTATTTTATTTTTTATT
14782833 ACTTTATTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.70
30 2 0.05
31 4 0.09
32 7 0.16
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTATTTTATTTTATTTTTTATTTATTAC
Found at i:14784748 original size:10 final size:10
Alignment explanation
Indices: 14784721--14784770 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
14784711 TAAATTTAGG
*
14784721 ATTTATTTTT
1 ATTTATCTTT
*
14784731 ATTGATCTTT
1 ATTTATCTTT
*
14784741 AATTATCTTT
1 ATTTATCTTT
14784751 ATTTAT-TTGT
1 ATTTATCTT-T
14784761 ATTTATCTTT
1 ATTTATCTTT
14784771 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:14794088 original size:21 final size:21
Alignment explanation
Indices: 14794062--14794113 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
14794052 TTTATTTTTC
* *
14794062 TTTATTATTTTATTTTAATTA
1 TTTATTATTTTATCTTAATGA
14794083 TTTATTATTTTATCTTAATGA
1 TTTATTATTTTATCTTAATGA
14794104 TTTATTATTT
1 TTTATTATTT
14794114 AATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATTATTTTATCTTAATGA
Found at i:14794091 original size:7 final size:7
Alignment explanation
Indices: 14794049--14794124 Score: 54
Period size: 7 Copynumber: 11.0 Consensus size: 7
14794039 AGGCAACCCA
14794049 ATTT-TT
1 ATTTATT
14794055 ATTT-TT
1 ATTTATT
*
14794061 CTTTATT
1 ATTTATT
14794068 ATTTTATT
1 A-TTTATT
*
14794076 -TTAATT
1 ATTTATT
14794082 ATTTATT
1 ATTTATT
14794089 A-TT-TT
1 ATTTATT
*
14794094 ATCTTAATG
1 AT-TT-ATT
14794103 ATTTATT
1 ATTTATT
14794110 ATTTAATT
1 ATTT-ATT
14794118 ATTTATT
1 ATTTATT
14794125 TTATTTTGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
5 3 0.05
6 16 0.29
7 19 0.34
8 15 0.27
9 3 0.05
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (7 bp):
ATTTATT
Found at i:14795778 original size:10 final size:10
Alignment explanation
Indices: 14795763--14795822 Score: 88
Period size: 10 Copynumber: 6.0 Consensus size: 10
14795753 TAATTTTAGG
14795763 ATTTAT-TTT
1 ATTTATCTTT
14795772 CATTTATCTTT
1 -ATTTATCTTT
14795783 ATTTATCTTT
1 ATTTATCTTT
14795793 ATTTATCTTT
1 ATTTATCTTT
14795803 ATTTAT-TTGT
1 ATTTATCTT-T
14795813 ATTTATCTTT
1 ATTTATCTTT
14795823 GAGAATTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.04
10 40 0.85
11 5 0.11
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:14795807 original size:14 final size:15
Alignment explanation
Indices: 14795764--14795822 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
14795754 AATTTTAGGA
14795764 TTTATTT-TCATTTAT
1 TTTATTTATC-TTTAT
14795779 CTTTATTTATCTTTA-
1 -TTTATTTATCTTTAT
*
14795794 TTTATCTT-TATTTAT
1 TTTAT-TTATCTTTAT
14795809 TTGTATTTATCTTT
1 TT-TATTTATCTTT
14795823 GAGAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 10 0.28
15 6 0.17
16 18 0.50
17 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTATCTTTAT
Found at i:14797358 original size:12 final size:12
Alignment explanation
Indices: 14797341--14797379 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
14797331 AAAAATTTTG
14797341 AAATTTTGGGAA
1 AAATTTTGGGAA
14797353 AAATTTT--G--
1 AAATTTTGGGAA
14797361 AAATTTTGGGAA
1 AAATTTTGGGAA
14797373 AAATTTT
1 AAATTTT
14797380 TTGAGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 7 0.30
10 2 0.09
12 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (12 bp):
AAATTTTGGGAA
Found at i:14797380 original size:21 final size:20
Alignment explanation
Indices: 14797330--14797379 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
14797320 CTGCACCTAA
14797330 GAAAAATTTTGAAATTTTGG
1 GAAAAATTTTGAAATTTTGG
14797350 GAAAAATTTTGAAATTTTGG
1 GAAAAATTTTGAAATTTTGG
14797370 GAAAAATTTT
1 GAAAAATTTT
14797380 TTGAGTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTTGG
Found at i:14799689 original size:47 final size:47
Alignment explanation
Indices: 14799537--14799713 Score: 204
Period size: 47 Copynumber: 3.8 Consensus size: 47
14799527 TGTAACCCGC
* * *
14799537 CCATAAGTGAACTGGGACTCAACTCAACGAGCTCAGG-C-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACAGTTCACAT
14799583 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * * *
14799633 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
14799677 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14799714 TGTTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 2 0.02
46 34 0.31
47 58 0.52
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:14799705 original size:94 final size:93
Alignment explanation
Indices: 14799545--14799715 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 93
14799535 GCCCATAAGT
* *
14799545 GAACTGGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
14799610 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
14799638 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTCACATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCAGG-C-GTTCACATCCATAAGTGAACTCGGACTCAACTC
14799702 AACGAGTTCGGATG
64 AACGAGTTCGGATG
14799716 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 2 0.03
93 25 0.35
94 45 0.62
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:14800169 original size:30 final size:30
Alignment explanation
Indices: 14800135--14800194 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
14800125 CCTTAATACG
14800135 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
14800165 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
14800195 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:14804230 original size:42 final size:43
Alignment explanation
Indices: 14804176--14804297 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
14804166 CATCGACTTA
14804176 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCG-TATT
1 TGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
* * * * *
14804219 TGATTTCGTGTAAAACC-CTATTTAGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATT
* * * * *
14804262 TGATTACATGTAAGACTACGCCTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
14804298 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 15, Indels: 6
0.74 0.18 0.07
Matches are distributed among these distances:
41 1 0.02
42 25 0.41
43 34 0.56
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
Found at i:14820801 original size:15 final size:17
Alignment explanation
Indices: 14820775--14820807 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14820765 ATTTATTATT
14820775 AATTATTTTTTC-TATA
1 AATTATTTTTTCATATA
14820791 AATTA-TTTTTCATATA
1 AATTATTTTTTCATATA
14820807 A
1 A
14820808 TAATCTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTATTTTTTCATATA
Found at i:14828674 original size:22 final size:23
Alignment explanation
Indices: 14828644--14828686 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14828634 AGATTCTTTG
14828644 TTTTGTTTTA-TTACTTTTTTCT
1 TTTTGTTTTATTTACTTTTTTCT
*
14828666 TTTTTTTTTATTTACTTTTTT
1 TTTTGTTTTATTTACTTTTTT
14828687 TAAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTGTTTTATTTACTTTTTTCT
Found at i:14828837 original size:23 final size:21
Alignment explanation
Indices: 14828797--14828857 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
14828787 AAATATATAT
*
14828797 ATTTGAAAT-TATTTTTTAAA
1 ATTTTAAATATATTTTTTAAA
14828817 ATTTTAAATATTAATTTTTT--A
1 ATTTTAAATA-T-ATTTTTTAAA
14828838 ATTTTAAATATATTTTTTAA
1 ATTTTAAATATATTTTTTAA
14828858 TAATATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 7 0.20
20 9 0.26
21 11 0.31
22 1 0.03
23 7 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTAAATATATTTTTTAAA
Found at i:14828866 original size:21 final size:21
Alignment explanation
Indices: 14828797--14828866 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
14828787 AAATATATAT
14828797 ATTTGAAAT-TATTTTTTAA-A
1 ATTT-AAATATATTTTTTAATA
14828817 ATTTTAAATATTAATTTTTTAAT-
1 A-TTTAAATA-T-ATTTTTTAATA
14828840 -TTTAAATATATTTTTTAATA
1 ATTTAAATATATTTTTTAATA
*
14828860 ATATAAA
1 ATTTAAA
14828867 ACATTTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
19 10 0.24
20 6 0.14
21 16 0.38
22 1 0.02
23 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
ATTTAAATATATTTTTTAATA
Found at i:14828908 original size:100 final size:96
Alignment explanation
Indices: 14828804--14829042 Score: 261
Period size: 100 Copynumber: 2.4 Consensus size: 96
14828794 TATATTTGAA
* *
14828804 ATTA-TTTTTTAAAATTTTAAATAT-TAATTTTTTAATTTTAAATATATTT-TTTAATAATATAA
1 ATTATTTTTTTAAAATTTTAAATGTAT-A-TTTTAAATTTTAAATATATTTATTT-AT--TATAA
14828866 AACAT-TTAAATATTTTAAAGATATGACCTTTCAAATTT
61 AACATATT--AT-TTTTAAAGATATGACCTTTCAAATTT
* * *
14828904 ATTATTAGTTTTGTAATATTTTAAATGTATATTTTAAATTTTAAATATGTTTAATTTATTTTAAA
1 ATTATT--TTTT-TAAAATTTTAAATGTATATTTTAAATTTTAAATATATTT-ATTTATTATAAA
*
14828969 ATATATTATTTTTAAAGATATGACCTTTCAAATTT
62 ACATATTATTTTTAAAGATATGACCTTTCAAATTT
14829004 ATTATTTGTTTTATAATATTTTAAATGTATATTTTAAAT
1 ATTATTT-TTTTA-AA-ATTTTAAATGTATATTTTAAAT
14829043 ATTTTTAAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 22
0.81 0.05 0.15
Matches are distributed among these distances:
98 3 0.02
99 4 0.03
100 58 0.48
101 3 0.02
102 8 0.07
103 25 0.21
104 16 0.13
105 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (96 bp):
ATTATTTTTTTAAAATTTTAAATGTATATTTTAAATTTTAAATATATTTATTTATTATAAAACAT
ATTATTTTTAAAGATATGACCTTTCAAATTT
Found at i:14829071 original size:15 final size:15
Alignment explanation
Indices: 14829053--14829084 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14829043 ATTTTTAAAA
14829053 TTTTAATTATTAATT
1 TTTTAATTATTAATT
14829068 TTTTAATTATTAATT
1 TTTTAATTATTAATT
14829083 TT
1 TT
14829085 GAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAATTATTAATT
Found at i:14829077 original size:100 final size:96
Alignment explanation
Indices: 14828870--14829078 Score: 271
Period size: 100 Copynumber: 2.1 Consensus size: 96
14828860 ATATAAAACA
* *
14828870 TTTAAATA-TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTGTAATATTTTAAATGTAT
1 TTTAATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAT
14828934 ATTTTAAATTTTAAATATGTTTAATTTATTT
66 ATTTTAAATTTTAAATATGTTTAATTTATTT
* *
14828965 TAAAATATATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAAT
1 T---TTA-ATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAAT
14829030 GTATATTTTAAATATTTTTAAA-AT-TTTAATTATTAATTT
62 GTATATTTT-AA-A-TTTTAAATATGTTTAA-T-TT-ATTT
14829069 TTTAATTATT
1 TTTAATTATT
14829079 AATTTTGAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
95 1 0.01
98 2 0.02
99 3 0.03
100 65 0.66
101 9 0.09
102 4 0.04
103 9 0.09
104 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (96 bp):
TTTAATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAT
ATTTTAAATTTTAAATATGTTTAATTTATTT
Found at i:14829090 original size:15 final size:15
Alignment explanation
Indices: 14829057--14829091 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14829047 TTAAAATTTT
**
14829057 AATTATTAATTTTTT
1 AATTATTAATTTTGA
14829072 AATTATTAATTTTGA
1 AATTATTAATTTTGA
14829087 AATTA
1 AATTA
14829092 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATTATTAATTTTGA
Found at i:14829140 original size:8 final size:8
Alignment explanation
Indices: 14829127--14829161 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
14829117 TAAAATTAAA
14829127 TTTAAAAT
1 TTTAAAAT
14829135 TTTAAAAT
1 TTTAAAAT
14829143 TTTAAAA-
1 TTTAAAAT
*
14829150 TTTAATAT
1 TTTAAAAT
14829158 TTTA
1 TTTA
14829162 TTTGGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTAAAAT
Found at i:14829144 original size:15 final size:15
Alignment explanation
Indices: 14829114--14829161 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
14829104 TTCAAACTTT
14829114 TTTTAAAA-TT-AAA
1 TTTTAAAATTTAAAA
14829127 -TTTAAAATTTTAAAA
1 TTTTAAAA-TTTAAAA
*
14829142 TTTTAAAATTTAATA
1 TTTTAAAATTTAAAA
14829157 TTTTA
1 TTTTA
14829162 TTTGGTGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
14 2 0.07
15 14 0.47
16 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATTTAAAA
Found at i:14832499 original size:30 final size:30
Alignment explanation
Indices: 14832459--14832561 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
14832449 GGTTGCTCTA
* * * *
14832459 GGTGAAATGAACTCGAACCGCCTATGTTCG
1 GGTGATATGAACTTGAACCGCCAATGTCCG
* *
14832489 GGTGATATGAACTTGAACTGCCCATGTCCG
1 GGTGATATGAACTTGAACCGCCAATGTCCG
*
14832519 GGTGATATGAACTTGAACCGCCAATGTCCA
1 GGTGATATGAACTTGAACCGCCAATGTCCG
*
14832549 GGTGACATGAACT
1 GGTGATATGAACT
14832562 GCTCTGCGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (30 bp):
GGTGATATGAACTTGAACCGCCAATGTCCG
Found at i:14835399 original size:18 final size:18
Alignment explanation
Indices: 14835359--14835400 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14835349 TAAAGTCATA
14835359 TTTTTTTAACAAATAAAT
1 TTTTTTTAACAAATAAAT
*
14835377 ATTTTTTAACAAAT--AT
1 TTTTTTTAACAAATAAAT
14835393 TTTTTTTA
1 TTTTTTTA
14835401 TTTTTTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
18 13 0.59
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTTAACAAATAAAT
Found at i:14835538 original size:19 final size:18
Alignment explanation
Indices: 14835514--14835560 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
14835504 AAGTCATAAT
14835514 TTAAAAATTATATGTAAAA
1 TTAAAAA-TATATGTAAAA
*
14835533 TTAAAAA-ATATTTAAAA
1 TTAAAAATATATGTAAAA
*
14835550 TTTAAAATATA
1 TTAAAAATATA
14835561 CATCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 3 0.12
19 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TTAAAAATATATGTAAAA
Found at i:14835648 original size:22 final size:21
Alignment explanation
Indices: 14835621--14835687 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
14835611 AAATATTTAA
14835621 ATATTTTATATTATTAAAAAAT
1 ATATTTTA-ATTATTAAAAAAT
*
14835643 ATA-TTTAA-AATT-AAAAAT
1 ATATTTTAATTATTAAAAAAT
*
14835661 AATATTTAAAATT-TTAAAAAAT
1 -ATATTT-TAATTATTAAAAAAT
14835683 A-ATTT
1 ATATTT
14835688 CAAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
18 6 0.16
19 6 0.16
20 7 0.19
21 9 0.24
22 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTTTAATTATTAAAAAAT
Found at i:14835657 original size:19 final size:19
Alignment explanation
Indices: 14835633--14835692 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
14835623 ATTTTATATT
14835633 ATTAAAAAATATATTTAAA
1 ATTAAAAAATATATTTAAA
14835652 ATT-AAAAATAATATTTAAA
1 ATTAAAAAAT-ATATTTAAA
*
14835671 ATTTTAAAAAATA-ATTTCAA
1 A--TTAAAAAATATATTTAAA
14835691 AT
1 AT
14835693 ATATATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.19
19 13 0.36
20 7 0.19
21 3 0.08
22 6 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAAAATATATTTAAA
Found at i:14835677 original size:21 final size:20
Alignment explanation
Indices: 14835633--14835685 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 20
14835623 ATTTTATATT
14835633 ATTAAAAAAT-ATATTTAAA
1 ATTAAAAAATAATATTTAAA
14835652 ATT-AAAAATAATATTTAAA
1 ATTAAAAAATAATATTTAAA
14835671 ATTTTAAAAAATAAT
1 A--TTAAAAAATAAT
14835686 TTCAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.20
19 13 0.43
21 2 0.07
22 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAAAAATAATATTTAAA
Done.