Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 102 of 120
Found at i:14393320 original size:16 final size:14
Alignment explanation
Indices: 14393297--14393337 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
14393287 TATTATTATC
14393297 ATTT-ATATTAATAA
1 ATTTAATATTAAT-A
14393311 ATTATAATATTAATA
1 ATT-TAATATTAATA
14393326 ATTTAA-ATTAAT
1 ATTTAATATTAAT
14393338 CTATCAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 5 0.20
16 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAATATTAATA
Found at i:14395330 original size:2 final size:2
Alignment explanation
Indices: 14395323--14395355 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14395313 TCTAGTTTCA
14395323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14395356 AAGTTGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14400578 original size:20 final size:21
Alignment explanation
Indices: 14400542--14400580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14400532 TGTCGACAAA
*
14400542 TTTTATATTGATTTTAATTTT
1 TTTTATATTGATATTAATTTT
14400563 TTTTATATT-ATATTAATT
1 TTTTATATTGATATTAATT
14400581 AATTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTTATATTGATATTAATTTT
Found at i:14404519 original size:3 final size:3
Alignment explanation
Indices: 14404511--14404540 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14404501 TTAACCTGTA
14404511 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14404541 CTCACTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14404909 original size:22 final size:21
Alignment explanation
Indices: 14404883--14404930 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14404873 ATCAGCAGTG
14404883 AAAAAAAAATTTTC-GAAAACA
1 AAAAAAAAATTTTCAG-AAACA
* *
14404904 ACAAAAGAATTTTCAGAAACA
1 AAAAAAAAATTTTCAGAAACA
14404925 AAAAAA
1 AAAAAA
14404931 TATTCTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAAAAAATTTTCAGAAACA
Found at i:14405437 original size:23 final size:22
Alignment explanation
Indices: 14405403--14405445 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
14405393 TTTTTTTTTG
14405403 ATTTTTTTTATTTTATGTTGAT
1 ATTTTTTTTATTTTATGTTGAT
*
14405425 ATTTATTTTTATTTTGTGTTG
1 ATTT-TTTTTATTTTATGTTG
14405446 TTGTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (22 bp):
ATTTTTTTTATTTTATGTTGAT
Found at i:14405455 original size:3 final size:3
Alignment explanation
Indices: 14405449--14405489 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14405439 TGTGTTGTTG
14405449 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14405490 TAGAAATGAG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14405697 original size:15 final size:15
Alignment explanation
Indices: 14405679--14405722 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14405669 TAATTTTTGT
14405679 TAAAAAATAATAAAA
1 TAAAAAATAATAAAA
*
14405694 TAAAAGATCAA-AAAA
1 TAAAAAAT-AATAAAA
*
14405709 TAAAAAACAATAAA
1 TAAAAAATAATAAA
14405723 TTATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (15 bp):
TAAAAAATAATAAAA
Found at i:14405899 original size:14 final size:15
Alignment explanation
Indices: 14405880--14405915 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
14405870 AAACAATATG
*
14405880 AAAAATAATAAAA-T
1 AAAAATAACAAAATT
14405894 AAAAATAACAAAATT
1 AAAAATAACAAAATT
14405909 AAAAATA
1 AAAAATA
14405916 TTTCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAACAAAATT
Found at i:14409856 original size:16 final size:16
Alignment explanation
Indices: 14409835--14409867 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14409825 ACGAAGAGAC
14409835 TTGAACATGAAAGGTA
1 TTGAACATGAAAGGTA
*
14409851 TTGAACCTGAAAGGTA
1 TTGAACATGAAAGGTA
14409867 T
1 T
14409868 AAATTGCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (16 bp):
TTGAACATGAAAGGTA
Found at i:14414615 original size:101 final size:101
Alignment explanation
Indices: 14414435--14414842 Score: 567
Period size: 101 Copynumber: 4.0 Consensus size: 101
14414425 TCACAGTTTT
14414435 GTCCTACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCC
1 GTCC-ACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCC
* *
14414500 TATTATGTTCGATGTAAGATTTAGGACTTCTCCTTAG
65 TATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
* *
14414537 GTCCACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCTTTTTATACCCCAGTGACCCTCTT
1 GTCCACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCT
14414602 ATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
66 ATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
** * * * * * * * * ***
14414638 GTCCGTAACA-TTCTCCT-ATTATGTTC-GATGTAGGAT-TCAGGAC--TTATACCCCAGTGACC
1 GTCCACAAAAGGT-GCCTCA-CAAG-GCAGAAGT-GG-TGTAAACCCTTTTATACCCCAGTGACC
14414697 CTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
61 CTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
14414738 GTCCACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCT
1 GTCCACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCT
14414803 ATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
66 ATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
14414839 GTCC
1 GTCC
14414843 GTAACATTCT
Statistics
Matches: 263, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
98 1 0.00
99 6 0.02
100 74 0.28
101 172 0.65
102 9 0.03
103 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCCACAAAAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCT
ATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAG
Found at i:14414681 original size:53 final size:49
Alignment explanation
Indices: 14414593--14414741 Score: 187
Period size: 47 Copynumber: 3.0 Consensus size: 49
14414583 ATACCCCAGT
*
14414593 GACCCTCTTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAGGTCC
1 GACCCTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAGGTCC
* * **
14414642 GTAACATTCTCCTATTATGTTCGATGTAGGATTCAGGACTTATACCCCA-GT--
1 G--AC--CCTCCTATTATGTTCGATGTAGGATTCAGGACTTCT-CCTTAGGTCC
14414693 GACCCTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAGGTCC
1 GACCCTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAGGTCC
14414742 ACAAAAGGTG
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
46 3 0.04
47 36 0.43
49 3 0.04
51 3 0.04
53 35 0.42
54 3 0.04
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (49 bp):
GACCCTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAGGTCC
Found at i:14414825 original size:201 final size:201
Alignment explanation
Indices: 14414480--14414854 Score: 714
Period size: 201 Copynumber: 1.9 Consensus size: 201
14414470 GTAAACCCTT
*
14414480 TTATACCCCAGTGACCCTCCTATTATGTTCGATGTAAGATTTAGGACTTCTCCTTAGGTCCACAA
1 TTATACCCCAGTGACCCTCCTATTATGTTCGATGTAAGATTCAGGACTTCTCCTTAGGTCCACAA
* *
14414545 AAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCTTTTTATACCCCAGTGACCCTCTTATTATGTT
66 AAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCTATTATGTT
14414610 CGATGTAGGATTCAGGACTTCTCCTTAGGTCCGTAACATTCTCCTATTATGTTCGATGTAGGATT
131 CGATGTAGGATTCAGGACTTCTCCTTAGGTCCGTAACATTCTCCTATTATGTTCGATGTAGGATT
14414675 CAGGAC
196 CAGGAC
*
14414681 TTATACCCCAGTGACCCTCCTATTATGTTCGATGTAGGATTCAGGACTTCTCCTTAGGTCCACAA
1 TTATACCCCAGTGACCCTCCTATTATGTTCGATGTAAGATTCAGGACTTCTCCTTAGGTCCACAA
14414746 AAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCTATTATGTT
66 AAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCTATTATGTT
14414811 CGATGTAGGATTCAGGACTTCTCCTTAGGTCCGTAACATTCTCC
131 CGATGTAGGATTCAGGACTTCTCCTTAGGTCCGTAACATTCTCC
14414855 CCCACCGACA
Statistics
Matches: 170, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 170 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (201 bp):
TTATACCCCAGTGACCCTCCTATTATGTTCGATGTAAGATTCAGGACTTCTCCTTAGGTCCACAA
AAGGTGCCTCACAAGGCAGAAGTGGTGTAAACCCTTTTATACCCCAGTGACCCTCCTATTATGTT
CGATGTAGGATTCAGGACTTCTCCTTAGGTCCGTAACATTCTCCTATTATGTTCGATGTAGGATT
CAGGAC
Found at i:14418892 original size:2 final size:2
Alignment explanation
Indices: 14418885--14418934 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
14418875 CAACAAACCA
14418885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14418927 GT AT AT AT
1 AT AT AT AT
14418935 GTATGTATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14418935 original size:8 final size:8
Alignment explanation
Indices: 14418888--14418959 Score: 81
Period size: 8 Copynumber: 9.0 Consensus size: 8
14418878 CAAACCAATA
*
14418888 TATATATA
1 TATATATG
*
14418896 TATATATA
1 TATATATG
*
14418904 TATATATA
1 TATATATG
*
14418912 TATATATA
1 TATATATG
14418920 TATATATG
1 TATATATG
14418928 TATATATG
1 TATATATG
*
14418936 TATGTATG
1 TATATATG
*
14418944 TATGTATG
1 TATATATG
*
14418952 TATGTATG
1 TATATATG
14418960 AATGTATGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 62 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:14418939 original size:4 final size:4
Alignment explanation
Indices: 14418924--14418973 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
14418914 TATATATATA
* * *
14418924 TATG TATA TATG TATG TATG TATG TATG TATG TATG AATG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14418972 TA
1 TA
14418974 GAGTGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:14418939 original size:12 final size:12
Alignment explanation
Indices: 14418885--14418954 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
14418875 CAACAAACCA
*
14418885 ATATATATATAT
1 ATATATGTATAT
*
14418897 ATATATATATAT
1 ATATATGTATAT
*
14418909 ATATATATATAT
1 ATATATGTATAT
14418921 ATATATGTATAT
1 ATATATGTATAT
* *
14418933 ATGTATGTATGT
1 ATATATGTATAT
*
14418945 ATGTATGTAT
1 ATATATGTAT
14418955 GTATGAATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:14418983 original size:2 final size:2
Alignment explanation
Indices: 14418973--14419004 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14418963 GTATGTGTGT
*
14418973 AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14419005 TATAGATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
AG
Found at i:14422575 original size:25 final size:25
Alignment explanation
Indices: 14422502--14422575 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
14422492 ATATATAATA
* *
14422502 AATTAAAATTTTAAAATAA-AACTT
1 AATTAAAATTTTAAATTAATAAATT
*
14422526 AATTTAAATATATTT--ATT-ATTAATT
1 AA-TTAAA-AT-TTTAAATTAATAAATT
14422551 AATTAAAATTTTAAATTAATAAATT
1 AATTAAAATTTTAAATTAATAAATT
14422576 TGATTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
22 3 0.08
23 2 0.05
24 11 0.28
25 18 0.46
26 2 0.05
27 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTAAAATTTTAAATTAATAAATT
Found at i:14423022 original size:30 final size:31
Alignment explanation
Indices: 14422982--14423055 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
14422972 GTAAAATTTA
14422982 TAATTAATTAATATTAAAAAATATAT-AATT
1 TAATTAATTAATATTAAAAAATATATAAATT
* * * *
14423012 TAATAAATTAAAATTTATAAATATATAAATT
1 TAATTAATTAATATTAAAAAATATATAAATT
14423043 T-ATTAATTAATAT
1 TAATTAATTAATAT
14423056 AGAAATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
TAATTAATTAATATTAAAAAATATATAAATT
Found at i:14423024 original size:22 final size:23
Alignment explanation
Indices: 14422973--14423031 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
14422963 AAAAGAAGAG
14422973 TAAAATTTATAATTAATTAATAT
1 TAAAATTTATAATTAATTAATAT
*
14422996 TAAAAAATATATAATTTAA-TAA-AT
1 T--AAAATTTATAA-TTAATTAATAT
14423020 TAAAATTTATAA
1 TAAAATTTATAA
14423032 ATATATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 10 0.32
23 1 0.03
24 3 0.10
25 13 0.42
26 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATTTATAATTAATTAATAT
Found at i:14423039 original size:22 final size:22
Alignment explanation
Indices: 14422973--14423042 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
14422963 AAAAGAAGAG
*
14422973 TAAAATTTATAATTA-ATTAATAT
1 TAAAATTTATAAATATA-TAA-AT
** *
14422996 TAAAAAATATATAATTTAATAAAT
1 TAAAATTTATA-AATAT-ATAAAT
14423020 TAAAATTTATAAATATATAAAT
1 TAAAATTTATAAATATATAAAT
14423042 T
1 T
14423043 TATTAATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
22 7 0.19
23 13 0.35
24 13 0.35
25 3 0.08
26 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATTTATAAATATATAAAT
Found at i:14433019 original size:16 final size:16
Alignment explanation
Indices: 14433000--14433035 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
14432990 TTTTTTTTTC
14433000 AAATAAAA-AAAAAATA
1 AAATAAAACAAAAAA-A
14433016 AAATAAAACAAAAAAA
1 AAATAAAACAAAAAAA
14433032 AAAT
1 AAAT
14433036 GAGAAGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (16 bp):
AAATAAAACAAAAAAA
Found at i:14436714 original size:15 final size:17
Alignment explanation
Indices: 14436689--14436720 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14436679 TTATATTTAT
14436689 ATTTAAAGGG-TTATTA
1 ATTTAAAGGGTTTATTA
14436705 ATTT-AAGGGTTTATTA
1 ATTTAAAGGGTTTATTA
14436721 TTATTTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (17 bp):
ATTTAAAGGGTTTATTA
Found at i:14439476 original size:21 final size:22
Alignment explanation
Indices: 14439433--14439477 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
14439423 ATTTAATTTA
*
14439433 ATCTTATTTATAACATTATCTT
1 ATCTTATTTATAACATAATCTT
*
14439455 ATCTTATTT-TATCATAATCTT
1 ATCTTATTTATAACATAATCTT
14439476 AT
1 AT
14439478 ATATCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (22 bp):
ATCTTATTTATAACATAATCTT
Found at i:14441015 original size:6 final size:6
Alignment explanation
Indices: 14441004--14441035 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
14440994 AGAAGAAAAT
14441004 ACATCC ACATCC ACATCC ACATCC ACATCC AC
1 ACATCC ACATCC ACATCC ACATCC ACATCC AC
14441036 TTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (6 bp):
ACATCC
Found at i:14441087 original size:14 final size:16
Alignment explanation
Indices: 14441054--14441086 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14441044 TTTTATTATT
14441054 TATTTAATTATATATA
1 TATTTAATTATATATA
14441070 TATTTAATTATATATA
1 TATTTAATTATATATA
14441086 T
1 T
14441087 TAAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAATTATATATA
Found at i:14441147 original size:27 final size:27
Alignment explanation
Indices: 14441103--14441161 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
14441093 AATATTTTAT
* * *
14441103 TAATTTTAGATTAAATCAGATCATATA
1 TAATTTTACATTAAATCAAATCAAATA
14441130 TAATTTTACA-TAATATCAAATCAAATA
1 TAATTTTACATTAA-ATCAAATCAAATA
*
14441157 AAATT
1 TAATT
14441162 AATTTCGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.39
Consensus pattern (27 bp):
TAATTTTACATTAAATCAAATCAAATA
Found at i:14442239 original size:15 final size:15
Alignment explanation
Indices: 14442221--14442251 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14442211 AAAGATCAAT
14442221 CAGGCTAAGACCAAC
1 CAGGCTAAGACCAAC
*
14442236 CAGGCTAAGGCCAAC
1 CAGGCTAAGACCAAC
14442251 C
1 C
14442252 CAATCTACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.35, G:0.23, T:0.06
Consensus pattern (15 bp):
CAGGCTAAGACCAAC
Found at i:14448445 original size:13 final size:15
Alignment explanation
Indices: 14448407--14448446 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
14448397 AAACATAAAG
14448407 ATTTGAAGTAA-TAAT
1 ATTT-AAGTAATTAAT
14448422 ATTTAAGTAATTAA-
1 ATTTAAGTAATTAAT
14448436 ATTT-AGTAATT
1 ATTTAAGTAATT
14448447 GGATAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
15 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
ATTTAAGTAATTAAT
Found at i:14450690 original size:21 final size:21
Alignment explanation
Indices: 14450666--14450714 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
14450656 TCAAATCATT
14450666 TTAAATTA-TAAAAT-TTTATGA
1 TTAAATTATTAAAATATTTA--A
14450687 TTAAATTATTAAAATATTTAA
1 TTAAATTATTAAAATATTTAA
14450708 TTAAATT
1 TTAAATT
14450715 GAGTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 16 0.62
22 6 0.23
23 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAAATTATTAAAATATTTAA
Found at i:14460184 original size:9 final size:9
Alignment explanation
Indices: 14460170--14460195 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14460160 AAGATATCAT
14460170 AACAAATTA
1 AACAAATTA
14460179 AACAAATTA
1 AACAAATTA
14460188 AACAAATT
1 AACAAATT
14460196 TTCTAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (9 bp):
AACAAATTA
Found at i:14466883 original size:12 final size:13
Alignment explanation
Indices: 14466856--14466881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14466846 TAAACGAATC
14466856 TAAAATTTTTATT
1 TAAAATTTTTATT
14466869 TAAAATTTTTATT
1 TAAAATTTTTATT
14466882 AAGCTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAAAATTTTTATT
Found at i:14467111 original size:16 final size:15
Alignment explanation
Indices: 14467086--14467129 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
14467076 TTTGTTGTTT
14467086 ATATAATTAACATTCA
1 ATAT-ATTAACATTCA
*
14467102 ATATATTTAAAATTCA
1 ATATA-TTAACATTCA
14467118 A-ATATTAACATT
1 ATATATTAACATT
14467130 ACAACTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.28
15 4 0.16
16 14 0.56
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATTAACATTCA
Found at i:14473668 original size:41 final size:41
Alignment explanation
Indices: 14473582--14473668 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
14473572 CGAATGGATG
* * *
14473582 AATTATATGAAATATTTCCAATTTAATTCGAAGATTTGATG
1 AATTATATGAAATATTTCCAATTAAATTCGAAGATTTAATC
* *
14473623 AATTATATGAAATAATTT-TAATTAAATTTGAAG-TTTAATTC
1 AATTATATGAAAT-ATTTCCAATTAAATTCGAAGATTTAA-TC
14473664 AATTA
1 AATTA
14473669 ATTTATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 4 0.10
41 31 0.79
42 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.44
Consensus pattern (41 bp):
AATTATATGAAATATTTCCAATTAAATTCGAAGATTTAATC
Found at i:14481600 original size:14 final size:14
Alignment explanation
Indices: 14481581--14481610 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14481571 CCATTAACTT
*
14481581 ACCCTTATATATAC
1 ACCCTTATATACAC
14481595 ACCCTTATATACAC
1 ACCCTTATATACAC
14481609 AC
1 AC
14481611 ACACACACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
ACCCTTATATACAC
Found at i:14482550 original size:41 final size:41
Alignment explanation
Indices: 14482493--14482578 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
14482483 TGCAATTGAA
14482493 TAAAGGCTATGAATTTATTAGCAGCACACGGTTTATACAGT
1 TAAAGGCTATGAATTTATTAGCAGCACACGGTTTATACAGT
*
14482534 TAAAGGCTATGAATTTATTAGCAGCACACGGTTTATATAGT
1 TAAAGGCTATGAATTTATTAGCAGCACACGGTTTATACAGT
14482575 TAAA
1 TAAA
14482579 ACTAGTTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (41 bp):
TAAAGGCTATGAATTTATTAGCAGCACACGGTTTATACAGT
Found at i:14490118 original size:3 final size:3
Alignment explanation
Indices: 14490110--14490141 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14490100 TTCCTTTTTA
14490110 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14490142 ATCTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14490960 original size:6 final size:6
Alignment explanation
Indices: 14490951--14490997 Score: 85
Period size: 6 Copynumber: 7.7 Consensus size: 6
14490941 TTTTATTTTT
14490951 TTTTAA TTTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA -TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
14490998 TTATGTTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:14490960 original size:19 final size:20
Alignment explanation
Indices: 14490938--14491000 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 20
14490928 TTTTACAGGT
* *
14490938 TTTTTTTATTTT-TTTTTAA
1 TTTTTTAATTTTAATTTTAA
14490957 -TTTTTAATTTTAATTTTAA
1 TTTTTTAATTTTAATTTTAA
14490976 --TTTTAATTTTAATTTTAA
1 TTTTTTAATTTTAATTTTAA
14490994 TTTTTTA
1 TTTTTTA
14491001 TGTTGATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 28 0.72
19 6 0.15
20 5 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTAATTTTAATTTTAA
Found at i:14490961 original size:12 final size:12
Alignment explanation
Indices: 14490937--14491025 Score: 85
Period size: 12 Copynumber: 7.5 Consensus size: 12
14490927 GTTTTACAGG
14490937 TTTT-TTTT-AT
1 TTTTATTTTAAT
14490947 TTTT-TTTTAAT
1 TTTTATTTTAAT
14490958 TTTTAATTTTAAT
1 TTTT-ATTTTAAT
*
14490971 TTTAATTTTAAT
1 TTTTATTTTAAT
*
14490983 TTTAATTTTAATT
1 TTTTATTTTAA-T
* *
14490996 TTTTATGTTGAT
1 TTTTATTTTAAT
* *
14491008 TTTTATGTTATT
1 TTTTATTTTAAT
14491020 TTTTAT
1 TTTTAT
14491026 GATATTGTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
10 8 0.12
11 6 0.09
12 36 0.52
13 19 0.28
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:14491026 original size:12 final size:12
Alignment explanation
Indices: 14490993--14491031 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
14490983 TTTAATTTTA
14490993 ATTTTTTATGTT
1 ATTTTTTATGTT
14491005 GA-TTTTTATGTT
1 -ATTTTTTATGTT
*
14491017 ATTTTTTATGAT
1 ATTTTTTATGTT
14491029 ATT
1 ATT
14491032 GTTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (12 bp):
ATTTTTTATGTT
Found at i:14491042 original size:24 final size:24
Alignment explanation
Indices: 14490993--14491043 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
14490983 TTTAATTTTA
* * *
14490993 ATTTTTTATGTTGATTTTTATGTT
1 ATTTTTTATGATGATTGTTATATT
14491017 ATTTTTTATGAT-ATTGTTATTATT
1 ATTTTTTATGATGATTGTTA-TATT
14491041 ATT
1 ATT
14491044 ATTGTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.69
Consensus pattern (24 bp):
ATTTTTTATGATGATTGTTATATT
Found at i:14491471 original size:10 final size:11
Alignment explanation
Indices: 14491456--14491488 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
14491446 AGATTGATTT
14491456 AAACAAT-ATA
1 AAACAATAATA
14491466 AAACAATAATA
1 AAACAATAATA
14491477 AAA-AATAATA
1 AAACAATAATA
14491487 AA
1 AA
14491489 GAATGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (11 bp):
AAACAATAATA
Found at i:14491934 original size:13 final size:14
Alignment explanation
Indices: 14491916--14491956 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
14491906 TGAGTGGTCA
14491916 ATTTTCTATAAAT-
1 ATTTTCTATAAATG
*
14491929 ATTTTCTAAATAATG
1 ATTTTCTATA-AATG
14491944 ATTTTCTATAAAT
1 ATTTTCTATAAAT
14491957 TCCACCAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTTTCTATAAATG
Found at i:14503643 original size:40 final size:39
Alignment explanation
Indices: 14503553--14503701 Score: 190
Period size: 40 Copynumber: 3.8 Consensus size: 39
14503543 GCCTTTCAGA
* * * * *
14503553 TTTTAATATTTAAAGTTTGTTACCTCTGGTCATAAGAGA
1 TTTTAACATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGT
* * * *
14503592 TTTTAACATTTAAAGTTTATTGCCTTTGGTGAGATGAGCT
1 TTTTAACATTTAAAGTTTGTTGCCTCTGGTGAAAAGAG-T
*
14503632 TTTTAATATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGTT
1 TTTTAACATTTAAAGTTTGTTGCCTCTGGTGAAAAGAG-T
14503672 TTTTAACATTTAAAGTTTGTTGCCTCTGGT
1 TTTTAACATTTAAAGTTTGTTGCCTCTGGT
14503702 TAGAAGAATT
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 31 0.33
40 63 0.67
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (39 bp):
TTTTAACATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGT
Found at i:14503646 original size:79 final size:80
Alignment explanation
Indices: 14503553--14503701 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
14503543 GCCTTTCAGA
*
14503553 TTTTAATATTTAAAGTTTGTTACCTCTGGTCATAAGAG-ATTTTAACATTTAAAGTTTATTGCCT
1 TTTTAATATTTAAAGTTTGTTACCTCTGGTCAAAAGAGTATTTTAACATTTAAAGTTTATTGCCT
*
14503617 TTGGTGAGATGAGCT
66 CTGGTGAGATGAGCT
* * * *
14503632 TTTTAATATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGTTTTTTAACATTTAAAGTTTGTTGCCT
1 TTTTAATATTTAAAGTTTGTTACCTCTGGTCAAAAGAGTATTTTAACATTTAAAGTTTATTGCCT
14503697 CTGGT
66 CTGGT
14503702 TAGAAGAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 35 0.56
80 28 0.44
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (80 bp):
TTTTAATATTTAAAGTTTGTTACCTCTGGTCAAAAGAGTATTTTAACATTTAAAGTTTATTGCCT
CTGGTGAGATGAGCT
Found at i:14503966 original size:39 final size:39
Alignment explanation
Indices: 14503841--14504017 Score: 162
Period size: 39 Copynumber: 4.5 Consensus size: 39
14503831 TTAAATGAGC
*** * *
14503841 AATTTAAAGTTCGCTGCCTTTAGTCAGAA-GAGCCTTTTA
1 AATTTAAAGTTTATTGCCTTTAGTGA-AATGAGCCTTTTG
* *
14503880 ACATTTAAAGTTTGTTGCCTTTAGTTAAATGAG-CTTTTG
1 A-ATTTAAAGTTTATTGCCTTTAGTGAAATGAGCCTTTTG
* * *
14503919 -ATTTAAAGTTTATTGCCTCTAGTGAAAGGAGCCTTTCG
1 AATTTAAAGTTTATTGCCTTTAGTGAAATGAGCCTTTTG
* * * * *
14503957 AATTTAAAGTTCATTGACTTTGGTGAGATGAGCTTTTTG
1 AATTTAAAGTTTATTGCCTTTAGTGAAATGAGCCTTTTG
*
14503996 AATTTAAAGTTTTATAGCCTTT
1 AATTTAAAG-TTTATTGCCTTT
14504018 GTTTAGAGGA
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
37 27 0.24
38 5 0.04
39 47 0.42
40 34 0.30
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (39 bp):
AATTTAAAGTTTATTGCCTTTAGTGAAATGAGCCTTTTG
Found at i:14504040 original size:40 final size:39
Alignment explanation
Indices: 14503940--14504040 Score: 103
Period size: 40 Copynumber: 2.6 Consensus size: 39
14503930 ATTGCCTCTA
* *
14503940 GTGAAAGGAGCCTTTCGAATTTAAAGTTCATTGACTTTG
1 GTGAGAGGAGCCTTTCGAATTTAAAGTTCATAGACTTTG
* * * * *
14503979 GTGAGATGAGCTTTTTGAATTTAAAGTTTTATAGCCTTTG
1 GTGAGAGGAGCCTTTCGAATTTAAAG-TTCATAGACTTTG
* * *
14504019 TTTAGAGGAGCCTTTCAAATTT
1 GTGAGAGGAGCCTTTCGAATTT
14504041 TCTTTCAAAA
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
39 22 0.46
40 26 0.54
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (39 bp):
GTGAGAGGAGCCTTTCGAATTTAAAGTTCATAGACTTTG
Found at i:14504203 original size:3 final size:3
Alignment explanation
Indices: 14504195--14504220 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14504185 TATCTTTTTA
14504195 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
14504221 ATCTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14505086 original size:25 final size:24
Alignment explanation
Indices: 14505058--14505108 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14505048 ATTTTTCGTT
*
14505058 TTGATTTTGATTTTGATTTTTTATG
1 TTGATTTTGATGTT-ATTTTTTATG
*
14505083 TTGATTTTTATGTTATTTTTTATG
1 TTGATTTTGATGTTATTTTTTATG
14505107 TT
1 TT
14505109 ATTGTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.71
Consensus pattern (24 bp):
TTGATTTTGATGTTATTTTTTATG
Found at i:14505090 original size:12 final size:13
Alignment explanation
Indices: 14505070--14505108 Score: 64
Period size: 12 Copynumber: 3.2 Consensus size: 13
14505060 GATTTTGATT
14505070 TTGATTTTTTATG
1 TTGATTTTTTATG
14505083 TTGA-TTTTTATG
1 TTGATTTTTTATG
14505095 TT-ATTTTTTATG
1 TTGATTTTTTATG
14505107 TT
1 TT
14505109 ATTGTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.04
12 20 0.80
13 4 0.16
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (13 bp):
TTGATTTTTTATG
Found at i:14505100 original size:11 final size:11
Alignment explanation
Indices: 14505075--14505116 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
14505065 TGATTTTGAT
14505075 TTTTTATGTTGA
1 TTTTTATGTT-A
14505087 TTTTTATGTTA
1 TTTTTATGTTA
14505098 TTTTTTATGTTA
1 -TTTTTATGTTA
*
14505110 TTGTTAT
1 TTTTTAT
14505117 TATTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (11 bp):
TTTTTATGTTA
Found at i:14505122 original size:24 final size:24
Alignment explanation
Indices: 14505073--14505123 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
14505063 TTTGATTTTG
* *
14505073 ATTTTTTATGTTGATTTTTATGTT
1 ATTTTTTATGTTGATTGTTATATT
14505097 ATTTTTTATGTT-ATTGTTATTATT
1 ATTTTTTATGTTGATTGTTA-TATT
14505121 ATT
1 ATT
14505124 GTTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (24 bp):
ATTTTTTATGTTGATTGTTATATT
Found at i:14505741 original size:25 final size:24
Alignment explanation
Indices: 14505707--14505773 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
14505697 AATTTTTTTT
*
14505707 ATAAAAAAATATAATTAAAGAATAA-
1 ATAATAAAAT-TAATTAAA-AATAAC
*
14505732 ATAATAAAATT-TTTAAAAATAATC
1 ATAATAAAATTAATTAAAAATAA-C
14505756 ATAATAAAGATTAATTAA
1 ATAATAAA-ATTAATTAA
14505774 TTAATTCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 9 0.26
25 12 0.34
26 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (24 bp):
ATAATAAAATTAATTAAAAATAAC
Found at i:14511238 original size:26 final size:23
Alignment explanation
Indices: 14511209--14511264 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
14511199 TTAATTTTGA
14511209 ATTTGATTTGATTTTATATTTATAAT
1 ATTTGATTT-ATTTTAT-TTT-TAAT
* *
14511235 ATTTTAATTTATTTTATTTTTTAT
1 A-TTTGATTTATTTTATTTTTAAT
14511259 ATTTGA
1 ATTTGA
14511265 ATTAGACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 3 0.12
26 8 0.31
27 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTGATTTATTTTATTTTTAAT
Found at i:14511315 original size:17 final size:17
Alignment explanation
Indices: 14511273--14511358 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 17
14511263 GAATTAGACT
14511273 TAAAATTAAT-AAAATA
1 TAAAATTAATAAAAATA
***
14511289 TTATTTTTAATAAAAATA
1 -TAAAATTAATAAAAATA
14511307 TAAAATTAAATAAATAAT-
1 TAAAATT-AATAAA-AATA
14511325 TAAAA-T-ATAAAAATA
1 TAAAATTAATAAAAATA
*
14511340 -AATAAATAATTAAAAATA
1 TAA-AATTAA-TAAAAATA
14511358 T
1 T
14511359 TTATATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
14 5 0.09
15 7 0.13
16 1 0.02
17 13 0.24
18 25 0.46
19 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATTAATAAAAATA
Found at i:14511317 original size:12 final size:12
Alignment explanation
Indices: 14511310--14511353 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
14511300 AAAAATATAA
14511310 AATTAAATAAAT
1 AATTAAATAAAT
14511322 AATTAAAATATAA-
1 AATT-AAATA-AAT
*
14511335 AAATAAATAAAT
1 AATTAAATAAAT
14511347 AATTAAA
1 AATTAAA
14511354 AATATTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 2 0.07
12 15 0.56
13 8 0.30
14 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATTAAATAAAT
Found at i:14511324 original size:25 final size:25
Alignment explanation
Indices: 14511296--14511358 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
14511286 ATATTATTTT
*
14511296 TAATAAAAATATAAAATTAAATAAA
1 TAATAAAAATATAAAAATAAATAAA
*
14511321 TAATTAAAATATAAAAATAAATAAA
1 TAATAAAAATATAAAAATAAATAAA
14511346 TAATTAAAAATAT
1 TAA-TAAAAATAT
14511359 TTATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 26 0.76
26 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
TAATAAAAATATAAAAATAAATAAA
Found at i:14512296 original size:2 final size:2
Alignment explanation
Indices: 14512289--14512313 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14512279 CTATCTGAGA
14512289 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14512314 GTGCTATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14516151 original size:25 final size:25
Alignment explanation
Indices: 14516117--14516167 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
14516107 ATAGTGTGCC
* *
14516117 ACGACAACTACTGTTTATCATTTCT
1 ACGACAACTACTGCTCATCATTTCT
14516142 ACGACAACTACTGCTCATCATTTCT
1 ACGACAACTACTGCTCATCATTTCT
14516167 A
1 A
14516168 TGTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (25 bp):
ACGACAACTACTGCTCATCATTTCT
Found at i:14522385 original size:2 final size:2
Alignment explanation
Indices: 14522378--14522407 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14522368 TCTGCAATGA
14522378 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14522408 TTATATATAT
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:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14522414 original size:2 final size:2
Alignment explanation
Indices: 14522409--14522446 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
14522399 TCTCTCTCTT
14522409 TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TCA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T
14522447 TTCATCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 29 0.88
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14532555 original size:19 final size:17
Alignment explanation
Indices: 14532531--14532568 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
14532521 TGATTGCTCA
14532531 TTATTCTTTTTCTTTTTAT
1 TTATTC-TTTT-TTTTTAT
14532550 TTATTCTTTTTTTTTAT
1 TTATTCTTTTTTTTTAT
14532567 TT
1 TT
14532569 CTCTTACGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTCTTTTTTTTTAT
Found at i:14533971 original size:21 final size:22
Alignment explanation
Indices: 14533933--14533978 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14533923 CCAAAAATTA
14533933 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
*
14533955 ATAAAATATTATTTTTAAAAAT
1 ATAAAATATTATTTTTTAAAAT
14533977 AT
1 AT
14533979 CATTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:14544302 original size:29 final size:30
Alignment explanation
Indices: 14544255--14544313 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
14544245 GTTGAGGTAG
14544255 CTTAGAATTTTTCTGTTTACTAGAAGAATA
1 CTTAGAATTTTTCTGTTTACTAGAAGAATA
*
14544285 CTTAGAA-TTTTCTGTTTACTATAAGAATA
1 CTTAGAATTTTTCTGTTTACTAGAAGAATA
14544314 TAAATTACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (30 bp):
CTTAGAATTTTTCTGTTTACTAGAAGAATA
Found at i:14548529 original size:21 final size:22
Alignment explanation
Indices: 14548479--14548530 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
14548469 CGAAAATACC
* *
14548479 TCCAGTAAAATTACAATAAAAA
1 TCCACTAAAATTAAAATAAAAA
**
14548501 -AGACTAAAATTAAAATAAAAA
1 TCCACTAAAATTAAAATAAAAA
14548522 TCCA-TAAAA
1 TCCACTAAAA
14548531 AGTCAAACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.21
Consensus pattern (22 bp):
TCCACTAAAATTAAAATAAAAA
Found at i:14549205 original size:2 final size:2
Alignment explanation
Indices: 14549198--14549227 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14549188 TGTATAAAGT
14549198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14549228 AATTGTTGTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14550675 original size:21 final size:21
Alignment explanation
Indices: 14550651--14550690 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14550641 ACTCTCATTT
*
14550651 TTAATTATTAATAAATAATAC
1 TTAATTAATAATAAATAATAC
*
14550672 TTAATTAATAATAACTAAT
1 TTAATTAATAATAAATAAT
14550691 TAAAACCAAA
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:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAATTAATAATAAATAATAC
Found at i:14551794 original size:16 final size:17
Alignment explanation
Indices: 14551730--14551796 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
14551720 ACACATTTAT
14551730 TTTATATATCAATATAAA
1 TTTATATAT-AATATAAA
* **
14551748 TTTA-ATATGATA-ATT
1 TTTATATATAATATAAA
* *
14551763 TTTATATTTTATATAAA
1 TTTATATATAATATAAA
14551780 TTTA-ATATAATATAAA
1 TTTATATATAATATAAA
14551796 T
1 T
14551797 ATATGAATGA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
15 5 0.13
16 20 0.53
17 9 0.24
18 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
TTTATATATAATATAAA
Found at i:14553264 original size:20 final size:21
Alignment explanation
Indices: 14553241--14553279 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14553231 CATAAAAGTT
14553241 TTGAGT-TAATAT-TTCATAAA
1 TTGAGTGTAA-ATCTTCATAAA
14553261 TTGAGTGTAAATCTTCATA
1 TTGAGTGTAAATCTTCATA
14553280 TAATAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (21 bp):
TTGAGTGTAAATCTTCATAAA
Found at i:14559866 original size:2 final size:2
Alignment explanation
Indices: 14559859--14559884 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14559849 AAATGATCAA
14559859 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14559885 CTTCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14562360 original size:11 final size:10
Alignment explanation
Indices: 14562346--14562384 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
14562336 TTCCAATGTA
14562346 TTTTCTTTTT
1 TTTTCTTTTT
14562356 CTTTTCTTTTT
1 -TTTTCTTTTT
14562367 TTTT-TTTTT
1 TTTTCTTTTT
14562376 TTGTTCTTT
1 TT-TTCTTT
14562385 CTACCTTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.27
10 6 0.23
11 13 0.50
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:14562614 original size:2 final size:2
Alignment explanation
Indices: 14562607--14562660 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
14562597 ATCATGCATG
* *
14562607 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TG TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
14562648 TG TA TG TA TA TA T
1 TA TA TA TA TA TA T
14562661 TTTGATCTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14563878 original size:30 final size:30
Alignment explanation
Indices: 14563844--14563904 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
14563834 TTTATCATCA
14563844 ACTTAATTTTAATCAATTTTCAATGAAATT
1 ACTTAATTTTAATCAATTTTCAATGAAATT
* *
14563874 ACTTAATTTTAATTAATTTTTAATGAAATT
1 ACTTAATTTTAATCAATTTTCAATGAAATT
14563904 A
1 A
14563905 AGTATGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (30 bp):
ACTTAATTTTAATCAATTTTCAATGAAATT
Found at i:14564041 original size:34 final size:34
Alignment explanation
Indices: 14563998--14564064 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
14563988 TTTTAATTTT
*
14563998 CAAACTTGCAATTGAATAGAATCCATATCAAGAC
1 CAAACTTGCAATTGAATAAAATCCATATCAAGAC
14564032 CAAACTTGCAATTGAATAAAATCCATATCAAGA
1 CAAACTTGCAATTGAATAAAATCCATATCAAGA
14564065 AACTTATTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.24
Consensus pattern (34 bp):
CAAACTTGCAATTGAATAAAATCCATATCAAGAC
Found at i:14566218 original size:18 final size:17
Alignment explanation
Indices: 14566180--14566226 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
14566170 AAAATTTAAT
14566180 TTAAATA-TAAA-ATTA
1 TTAAATATTAAATATTA
*
14566195 TAAAATATTAAATATTTA
1 TTAAATATTAAATA-TTA
*
14566213 TTAAATATGAAATA
1 TTAAATATTAAATA
14566227 ATATCACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 6 0.23
16 4 0.15
17 1 0.04
18 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAATATTAAATATTA
Found at i:14566918 original size:24 final size:22
Alignment explanation
Indices: 14566891--14566949 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
14566881 TTTATTGATT
14566891 AAATTTAATTAATATTTAAAAATA
1 AAATTTAATTAATATTT-AAAA-A
* *
14566915 AAATTTAATTTTTATATTTAATAA
1 AAATTTAA--TTAATATTTAAAAA
14566939 AAATTTAATTA
1 AAATTTAATTA
14566950 TTTATATTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.07
24 17 0.57
25 3 0.10
26 8 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTTAATTAATATTTAAAAA
Found at i:14566924 original size:29 final size:24
Alignment explanation
Indices: 14566902--14566957 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
14566892 AATTTAATTA
14566902 ATATTTAAAAATAAAATTTAATTTTT
1 ATATTT-AAAA-AAAATTTAATTTTT
*
14566928 ATATTTAATAAAAATTTAATTATTT
1 ATATTTAAAAAAAATTTAATT-TTT
14566953 ATATT
1 ATATT
14566958 CGAATTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 11 0.39
25 11 0.39
26 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTTAAAAAAAATTTAATTTTT
Found at i:14576100 original size:24 final size:25
Alignment explanation
Indices: 14576061--14576110 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
14576051 TTTTTTATTT
*
14576061 ATTTAACATATTAAATT-TATAAATA
1 ATTTAACATATCAAATTGT-TAAATA
14576086 ATTT-ACATATCAAATTGTTAAATA
1 ATTTAACATATCAAATTGTTAAATA
14576110 A
1 A
14576111 ATAAATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTTAACATATCAAATTGTTAAATA
Found at i:14576671 original size:31 final size:28
Alignment explanation
Indices: 14576622--14576700 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 28
14576612 TAGTTTTGGC
* *
14576622 ATAAATAAATTATTTATTTATCTAACAT
1 ATAAATTATTTATTTATTTATCTAACAT
* *
14576650 ATAAAGTATATTTTATATATTTATTTAACAT
1 ATAAA-T-TA-TTTATTTATTTATCTAACAT
*
14576681 GTAAATTATTTATTTATTTA
1 ATAAATTATTTATTTATTTA
14576701 ATATGTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 16 0.38
29 3 0.07
30 2 0.05
31 21 0.50
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (28 bp):
ATAAATTATTTATTTATTTATCTAACAT
Found at i:14576885 original size:24 final size:24
Alignment explanation
Indices: 14576856--14576941 Score: 100
Period size: 24 Copynumber: 3.4 Consensus size: 24
14576846 TGTAATCTCA
14576856 ATTTATTTAATATGTAAATTATTT
1 ATTTATTTAATATGTAAATTATTT
14576880 ATTTATTTAATATGTAAGTTATTTATTT
1 ATTTATTTAATATGTAA---A-TTATTT
* * *
14576908 GTTTATTTAACATATAAATTATTTT
1 ATTTATTTAATATGTAAATTA-TTT
14576933 ATTTATTTA
1 ATTTATTTA
14576942 TTTAACGTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
24 20 0.38
25 12 0.23
27 1 0.02
28 20 0.38
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (24 bp):
ATTTATTTAATATGTAAATTATTT
Found at i:14576888 original size:28 final size:28
Alignment explanation
Indices: 14576856--14576946 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
14576846 TGTAATCTCA
14576856 ATTTATTTAATATGT-AA--A-TTATTT
1 ATTTATTTAATATGTAAATTATTTATTT
*
14576880 ATTTATTTAATATGTAAGTTATTTATTT
1 ATTTATTTAATATGTAAATTATTTATTT
* * *
14576908 GTTTATTTAACATATAAATTATTTTATTT
1 ATTTATTTAATATGTAAATTA-TTTATTT
14576937 ATTTATTTAA
1 ATTTATTTAA
14576947 CGTGTAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
24 15 0.27
25 1 0.02
27 1 0.02
28 23 0.41
29 16 0.29
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
ATTTATTTAATATGTAAATTATTTATTT
Found at i:14582111 original size:34 final size:35
Alignment explanation
Indices: 14582073--14582143 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
14582063 ATCTGATTAG
14582073 TTAGAATCATTTTTTTAAACACTTAATGTT-AAAA
1 TTAGAATCATTTTTTTAAACACTTAATGTTCAAAA
* * *
14582107 TTAGAATCATTTTTTTGAATATTTAATGTTCAAAA
1 TTAGAATCATTTTTTTAAACACTTAATGTTCAAAA
14582142 TT
1 TT
14582144 TAAAAAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (35 bp):
TTAGAATCATTTTTTTAAACACTTAATGTTCAAAA
Found at i:14584172 original size:58 final size:58
Alignment explanation
Indices: 14583986--14584218 Score: 346
Period size: 60 Copynumber: 4.0 Consensus size: 58
14583976 TTTTTTTTTG
*
14583986 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTT-
1 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAAATTT-ATTTC
14584045 TCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTG-AAATTTATTTC
1 T-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTC
* * * *
14584102 TGAGGAAAATTGAAACTTTCAACTCTTCCCCAAAAATATTTTTTTGAAAATTTATTTC
1 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTC
*
14584160 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGAAAATTTATTT
14584219 TTCTTTTCCC
Statistics
Matches: 158, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
56 37 0.23
57 13 0.08
58 46 0.29
59 7 0.04
60 55 0.35
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (58 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTC
Found at i:14584202 original size:114 final size:116
Alignment explanation
Indices: 14583988--14584203 Score: 366
Period size: 114 Copynumber: 1.9 Consensus size: 116
14583978 TTTTTTTGTA
* * * *
14583988 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAA
1 AGGAAAATTGAAACTTTCAACTCTTCCCCAAAAATATTTTTTTGGAAAATTTGATTTTCAAGGAA
14584053 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTG
66 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTG
14584104 AGGAAAATTGAAACTTTCAACTCTTCCCCAAAAATATTTTTTT-GAAAATTT-A-TTTCTAAGGA
1 AGGAAAATTGAAACTTTCAACTCTTCCCCAAAAATATTTTTTTGGAAAATTTGATTTTC-AAGGA
14584166 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
65 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
14584204 TTTGGAAATT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
113 4 0.04
114 44 0.46
115 7 0.07
116 40 0.42
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (116 bp):
AGGAAAATTGAAACTTTCAACTCTTCCCCAAAAATATTTTTTTGGAAAATTTGATTTTCAAGGAA
AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTG
Found at i:14584248 original size:36 final size:37
Alignment explanation
Indices: 14584182--14584254 Score: 112
Period size: 36 Copynumber: 1.9 Consensus size: 37
14584172 ATACTTTCAA
*
14584182 CTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTT
1 CTTTTCCCCAAAAATA--TTTTTTTGGAAATTTATTTTT
14584221 CTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTT
1 CTTTTCCCCAAAAATATTTTTTTGGAAATTTATTT
14584255 CTAAGGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 18 0.55
39 15 0.45
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.55
Consensus pattern (37 bp):
CTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTT
Found at i:14584292 original size:96 final size:97
Alignment explanation
Indices: 14584127--14584302 Score: 336
Period size: 96 Copynumber: 1.8 Consensus size: 97
14584117 CTTTCAACTC
14584127 TTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTA
1 TTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTA
14584192 AAAATATTTTTTTTTGGAAATTTATTTTTCTT
66 AAAATATTTTTTTTTGGAAATTTATTTTTCTT
*
14584224 TTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTA
1 TTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTA
14584288 AAAATATTTTTTTTT
66 AAAATATTTTTTTTT
14584303 TTGGAATTTT
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
96 65 0.83
97 13 0.17
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (97 bp):
TTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTA
AAAATATTTTTTTTTGGAAATTTATTTTTCTT
Found at i:14584428 original size:23 final size:23
Alignment explanation
Indices: 14584402--14584445 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14584392 ATAAAATAAA
* *
14584402 CAAATAAACAAAGAAAAAAAATT
1 CAAAGAAACAAAAAAAAAAAATT
*
14584425 CAAAGAAAGAAAAAAAAAAAA
1 CAAAGAAACAAAAAAAAAAAA
14584446 AAAAAACCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (23 bp):
CAAAGAAACAAAAAAAAAAAATT
Found at i:14584786 original size:20 final size:20
Alignment explanation
Indices: 14584761--14584804 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
14584751 ACACCGGTGC
14584761 CGGATTCTGGAAAATATCGT
1 CGGATTCTGGAAAATATCGT
14584781 CGGATTCTGGAAAATATCGT
1 CGGATTCTGGAAAATATCGT
14584801 CGGA
1 CGGA
14584805 AGATCGCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (20 bp):
CGGATTCTGGAAAATATCGT
Found at i:14584965 original size:26 final size:25
Alignment explanation
Indices: 14584926--14584980 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
14584916 AATCTGGAAA
* *
14584926 TTTCCCAGAAATTT-TCAGAAAAAAT
1 TTTCCCAAAAATTTCT-AAAAAAAAT
14584951 TTTCGCCAAAAATTTCTAAAAAAAAT
1 TTTC-CCAAAAATTTCTAAAAAAAAT
14584977 TTTC
1 TTTC
14584981 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 21 0.81
27 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (25 bp):
TTTCCCAAAAATTTCTAAAAAAAAT
Found at i:14585369 original size:17 final size:18
Alignment explanation
Indices: 14585347--14585380 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14585337 TAGATAAGTA
*
14585347 AAAATACAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
14585364 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
14585381 AAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:14585425 original size:16 final size:16
Alignment explanation
Indices: 14585406--14585516 Score: 50
Period size: 16 Copynumber: 6.6 Consensus size: 16
14585396 TATTAGTAAT
14585406 AATACATAAATAATAA
1 AATACATAAATAATAA
*
14585422 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
*
14585440 CAA-AAATTAAATAA-ATA
1 -AATACA-TAAATAATA-A
* * *
14585457 AATATATACAT-ATATT
1 AATACATAAATAATA-A
14585473 AATACAT-AATAATAA
1 AATACATAAATAATAA
* *
14585488 TAATAAAAATAAATAATAC
1 -AAT--ACATAAATAATAA
14585507 AATACATAAA
1 AATACATAAA
14585517 ATACAAAAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 24
0.66 0.11 0.22
Matches are distributed among these distances:
15 3 0.04
16 32 0.45
17 9 0.13
18 18 0.25
19 9 0.13
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:14585472 original size:35 final size:35
Alignment explanation
Indices: 14585376--14585474 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 35
14585366 AATAAAAAAG
* * * *
14585376 ATAAA-AAATATATATATACATATTAGTAATAATAC
1 ATAAATAAATAAATATATACATA-TATTAACAATAA
*
14585411 ATAAAT-AATAAA-ATACACATAAATATTAACAA-AA
1 ATAAATAAATAAATATATACAT--ATATTAACAATAA
14585445 ATTAAATAAATAAATATATACATATATTAA
1 A-TAAATAAATAAATATATACATATATTAA
14585475 TACATAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
34 9 0.17
35 29 0.56
36 7 0.13
37 7 0.13
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (35 bp):
ATAAATAAATAAATATATACATATATTAACAATAA
Found at i:14585519 original size:67 final size:70
Alignment explanation
Indices: 14585354--14585519 Score: 166
Period size: 67 Copynumber: 2.4 Consensus size: 70
14585344 GTAAAAATAC
* * *
14585354 AAAAATAAATAA-AATAAAAA-AGATAAAAAATATATATATACATATTAGTAATAATACATAAAT
1 AAAAATAAATAATAACAAAAATA-A-AATAAATAAATATATACATATTAGT-ATAATACATAAAT
14585417 AATAAAAT
63 AATAAAAT
* * * *
14585425 ACACATAAATATTAACAAAAATTAAATAAATAAATATATACATA-TA-T-TAATACAT-AATAAT
1 AAAAATAAATAATAACAAAAATAAAATAAATAAATATATACATATTAGTATAATACATAAATAAT
14585486 AATAAT
66 AA-AAT
*
14585492 AAAAATAAATAAT-ACAATACATAAAATA
1 AAAAATAAATAATAACAA-AAATAAAATA
14585520 CAAAAGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
66 12 0.15
67 29 0.37
69 1 0.01
70 2 0.03
71 27 0.34
72 8 0.10
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (70 bp):
AAAAATAAATAATAACAAAAATAAAATAAATAAATATATACATATTAGTATAATACATAAATAAT
AAAAT
Found at i:14592567 original size:2 final size:2
Alignment explanation
Indices: 14592560--14592608 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14592550 ATATTAAACC
14592560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14592602 AT AT AT A
1 AT AT AT A
14592609 CTGGAGTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14592611 original size:120 final size:120
Alignment explanation
Indices: 14592468--14592684 Score: 434
Period size: 120 Copynumber: 1.8 Consensus size: 120
14592458 GCATATGGCC
14592468 ATATATATATATATATATATACTGGAGTGTTAGGTAAAATCAAGTATTGGTTTGAATTTTGAAAG
1 ATATATATATATATATATATACTGGAGTGTTAGGTAAAATCAAGTATTGGTTTGAATTTTGAAAG
14592533 GAAAATTTCATGCATGAATATTAAACCATATATATATATATATATATATATATAT
66 GAAAATTTCATGCATGAATATTAAACCATATATATATATATATATATATATATAT
14592588 ATATATATATATATATATATACTGGAGTGTTAGGTAAAATCAAGTATTGGTTTGAATTTTGAAAG
1 ATATATATATATATATATATACTGGAGTGTTAGGTAAAATCAAGTATTGGTTTGAATTTTGAAAG
14592653 GAAAATTTCATGCATGAATATTAAACCATATA
66 GAAAATTTCATGCATGAATATTAAACCATATA
14592685 GAATGTATTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (120 bp):
ATATATATATATATATATATACTGGAGTGTTAGGTAAAATCAAGTATTGGTTTGAATTTTGAAAG
GAAAATTTCATGCATGAATATTAAACCATATATATATATATATATATATATATAT
Found at i:14594115 original size:44 final size:44
Alignment explanation
Indices: 14594065--14594165 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
14594055 CAAACCATTT
*
14594065 AAAAGTTGTTGAGCCTTTACTCAGAGAAAACTTTTTAAATTTTC
1 AAAAGTTGTCGAGCCTTTACTCAGAGAAAACTTTTTAAATTTTC
* * ***
14594109 AAAAGTTGTCGAGTCTTTACTTAGAGAAGTTTTTTTAAATTTTC
1 AAAAGTTGTCGAGCCTTTACTCAGAGAAAACTTTTTAAATTTTC
*
14594153 AAAAAATTGTCGA
1 -AAAAGTTGTCGA
14594166 ACCTATGCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 38 0.78
45 11 0.22
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (44 bp):
AAAAGTTGTCGAGCCTTTACTCAGAGAAAACTTTTTAAATTTTC
Found at i:14594688 original size:16 final size:16
Alignment explanation
Indices: 14594667--14594701 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14594657 ATTAAACATT
14594667 AAACAAAAAAAATAAA
1 AAACAAAAAAAATAAA
*
14594683 AAACAAAAAACATAAA
1 AAACAAAAAAAATAAA
14594699 AAA
1 AAA
14594702 AAGAGCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.06
Consensus pattern (16 bp):
AAACAAAAAAAATAAA
Found at i:14595990 original size:59 final size:59
Alignment explanation
Indices: 14595876--14596143 Score: 366
Period size: 59 Copynumber: 4.6 Consensus size: 59
14595866 TCTTGCGTAG
* *** *
14595876 GAAAAATTGATACTTTCAACTTTTTCC-CGAAAATATTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTC-AAAAAAACCTTTTTTGAAATTTTATTTTTAA
* *
14595936 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTATATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTATTTTTAA
* *
14595995 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATA--TTTTTAGAAATTTTGATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAAAACCTTTTTTGAAATTTT-ATTTTTAA
* *
14596053 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATCCTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTATTTTTAA
14596111 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA
14596144 TATTTCTCTT
Statistics
Matches: 185, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
57 23 0.12
58 62 0.34
59 73 0.39
60 27 0.15
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTATTTTTAA
Found at i:14596124 original size:116 final size:116
Alignment explanation
Indices: 14595876--14596148 Score: 433
Period size: 116 Copynumber: 2.3 Consensus size: 116
14595866 TCTTGCGTAG
* * *
14595876 GAAAAATTGATACTTTCAACTTTTTCCCGAAAATATTTTTTTTTGAAAATTTATTTTTAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTT-CCTAAAA-A-TATTTTTAGAAAATTTATTTTTAAGGAAA
14595941 ATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTATATTTTTAA
63 ATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTATATTTTTAA
*
14595995 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTAGAAATTTTGATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTAGAAAATTT-ATTTTTAAGGAAAAT
* *
14596060 TGATACTTTCAACTTTTCCTC-AAAAATCCTTTTTTGAAATTTTATTTTTAA
65 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTATATTTTTAA
14596111 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTT
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTT
14596149 CTCTTTGAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
115 7 0.05
116 71 0.49
117 37 0.25
118 6 0.04
119 25 0.17
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (116 bp):
GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTAGAAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTATATTTTTAA
Found at i:14596144 original size:58 final size:58
Alignment explanation
Indices: 14595876--14596144 Score: 382
Period size: 58 Copynumber: 4.6 Consensus size: 58
14595866 TCTTGCGTAG
** *
14595876 GAAAAATTGATACTTTCAACTTTTTCC-CGAAAATATTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTC-AAAA-ATCCTTTTTTGAAATTTTATTTTTAA
* * *
14595936 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTATATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATCCTTTTTTGAAATTTTATTTTTAA
* *
14595995 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAAT-ATTTTTAGAAATTTTGATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATCCTTTTTTGAAATTTT-ATTTTTAA
*
14596053 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAATTTTATTTTTAA
14596111 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
14596145 ATTTCTCTTT
Statistics
Matches: 188, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
57 19 0.10
58 79 0.42
59 59 0.31
60 31 0.16
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAATTTTATTTTTAA
Found at i:14598542 original size:20 final size:20
Alignment explanation
Indices: 14598514--14598556 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14598504 AAAAGAAAAT
14598514 AAATCATAAA-ATAAAAATAA
1 AAATCATAAATAT-AAAATAA
* *
14598534 AAATGATAAATATGAAATAA
1 AAATCATAAATATAAAATAA
14598554 AAA
1 AAA
14598557 ATTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATCATAAATATAAAATAA
Found at i:14598590 original size:118 final size:118
Alignment explanation
Indices: 14598450--14598685 Score: 463
Period size: 118 Copynumber: 2.0 Consensus size: 118
14598440 TCATCACAAT
*
14598450 CACCAAGCTTTCAGCCCTTTTTTTTTTTAATTAATCAGATAATCAAAAGAAAGGAAAAGAAAATA
1 CACCAAGCTTTCAGCCCCTTTTTTTTTTAATTAATCAGATAATCAAAAGAAAGGAAAAGAAAATA
14598515 AATCATAAAATAAAAATAAAAATGATAAATATGAAATAAAAAATTTAAAATAA
66 AATCATAAAATAAAAATAAAAATGATAAATATGAAATAAAAAATTTAAAATAA
14598568 CACCAAGCTTTCAGCCCCTTTTTTTTTTAATTAATCAGATAATCAAAAGAAAGGAAAAGAAAATA
1 CACCAAGCTTTCAGCCCCTTTTTTTTTTAATTAATCAGATAATCAAAAGAAAGGAAAAGAAAATA
14598633 AATCATAAAATAAAAATAAAAATGATAAATATGAAATAAAAAATTTAAAATAA
66 AATCATAAAATAAAAATAAAAATGATAAATATGAAATAAAAAATTTAAAATAA
14598686 AAAAATGAAT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.28
Consensus pattern (118 bp):
CACCAAGCTTTCAGCCCCTTTTTTTTTTAATTAATCAGATAATCAAAAGAAAGGAAAAGAAAATA
AATCATAAAATAAAAATAAAAATGATAAATATGAAATAAAAAATTTAAAATAA
Found at i:14598660 original size:20 final size:20
Alignment explanation
Indices: 14598632--14598688 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
14598622 AAAAGAAAAT
14598632 AAATCATAAAATAAAAAT-AA
1 AAAT-ATAAAATAAAAATAAA
*
14598652 AAATGAT-AAATATGAAATAAA
1 AAAT-ATAAAATA-AAAATAAA
*
14598673 AAATTTAAAATAAAAA
1 AAATATAAAATAAAAA
14598689 AATGAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 5 0.17
20 14 0.47
21 11 0.37
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
AAATATAAAATAAAAATAAA
Found at i:14598676 original size:14 final size:14
Alignment explanation
Indices: 14598659--14598700 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
14598649 TAAAAATGAT
14598659 AAATATGAAATAAA
1 AAATATGAAATAAA
* *
14598673 AAATTTAAAATAAA
1 AAATATGAAATAAA
14598687 AAA-ATG-AATAAA
1 AAATATGAAATAAA
14598699 AA
1 AA
14598701 TCCCCACAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 8 0.33
13 1 0.04
14 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAATATGAAATAAA
Found at i:14599329 original size:23 final size:22
Alignment explanation
Indices: 14599302--14599348 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
14599292 TTTAAATTTG
14599302 AAAAATAA-AGAAAATAATAACAA
1 AAAAATAATAGAAAAT-ATAA-AA
*
14599325 AAAAATAATATAAAATATAAAA
1 AAAAATAATAGAAAATATAAAA
14599347 AA
1 AA
14599349 TGAAAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 12 0.55
24 6 0.27
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAAATAATAGAAAATATAAAA
Found at i:14599360 original size:21 final size:19
Alignment explanation
Indices: 14599324--14599362 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
14599314 AATAATAACA
*
14599324 AAAAAATAATATAAAATAT
1 AAAAAATAAAATAAAATAT
14599343 AAAAAATGAAAATGAAAATA
1 AAAAAAT-AAAAT-AAAATA
14599363 GAATAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAAATAAAATAAAATAT
Found at i:14599727 original size:31 final size:31
Alignment explanation
Indices: 14599692--14599799 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 31
14599682 TTCAAAACCT
14599692 TCAAAACCCTAAAACCCTCGAAATCC-CAAAA
1 TCAAAACCCTAAAACCCTCGAAA-CCTCAAAA
* * *
14599723 TCAAAATCCTAAAA-CC-CAAAACCTTAAAA
1 TCAAAACCCTAAAACCCTCGAAACCTCAAAA
*
14599752 TTTCAAAACCATAAAAACCCTCGAAACCTCAAAA
1 --TCAAAACCCT-AAAACCCTCGAAACCTCAAAA
14599786 TCCAAAACCCTAAA
1 T-CAAAACCCTAAA
14599800 TTCTAAATAC
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
28 2 0.03
29 8 0.13
30 2 0.03
31 21 0.34
32 8 0.13
33 10 0.16
34 11 0.18
ACGTcount: A:0.51, C:0.31, G:0.02, T:0.16
Consensus pattern (31 bp):
TCAAAACCCTAAAACCCTCGAAACCTCAAAA
Found at i:14599806 original size:71 final size:72
Alignment explanation
Indices: 14599674--14599815 Score: 173
Period size: 71 Copynumber: 2.0 Consensus size: 72
14599664 AACTCTAAAT
* * * *
14599674 CTTAAAATTTCAAAACCTTCAAAACCCTAAAACCCTCGAAATCCCAAAATCAAAATCCTAAA-AC
1 CTTAAAATTTCAAAACCATAAAAACCCTAAAACCCTCAAAATCCCAAAACCAAAATCCTAAATAC
14599738 CCAAAAC
66 CCAAAAC
* * *
14599745 CTTAAAATTTCAAAACCATAAAAACCCTCGAAA-CCTCAAAAT-CCAAAACCCTAAATTCTAAAT
1 CTTAAAATTTCAAAACCATAAAAACCCT-AAAACCCTCAAAATCCCAAAA-CCAAAATCCTAAAT
*
14599808 ACTCAAAA
64 ACCCAAAA
14599816 TCCTAAACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
70 6 0.10
71 44 0.73
72 10 0.17
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (72 bp):
CTTAAAATTTCAAAACCATAAAAACCCTAAAACCCTCAAAATCCCAAAACCAAAATCCTAAATAC
CCAAAAC
Found at i:14599845 original size:8 final size:8
Alignment explanation
Indices: 14599782--14599879 Score: 50
Period size: 7 Copynumber: 13.0 Consensus size: 8
14599772 TCGAAACCTC
14599782 AAAATCC-
1 AAAATCCT
*
14599789 AAAACCCT
1 AAAATCCT
*
14599797 -AAATTCT
1 AAAATCCT
*
14599804 -AAATACT
1 AAAATCCT
14599811 CAAAATCCT
1 -AAAATCCT
14599820 -AAA-CCTT
1 AAAATCC-T
* *
14599827 GAAATCTT
1 AAAATCCT
14599835 AAAATCCT
1 AAAATCCT
14599843 AAAA-CC-
1 AAAATCCT
*
14599849 AAAATGCT
1 AAAATCCT
*
14599857 AAAA-CCC
1 AAAATCCT
*
14599864 AAAACCCT
1 AAAATCCT
14599872 AAAATCCT
1 AAAATCCT
14599880 GAAACCTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
6 6 0.09
7 29 0.42
8 27 0.39
9 7 0.10
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAATCCT
Found at i:14599858 original size:14 final size:15
Alignment explanation
Indices: 14599835--14599875 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14599825 TTGAAATCTT
14599835 AAAATCCTAAAA-CC
1 AAAATCCTAAAACCC
*
14599849 AAAATGCTAAAACCC
1 AAAATCCTAAAACCC
*
14599864 AAAACCCTAAAA
1 AAAATCCTAAAA
14599876 TCCTGAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.59, C:0.27, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAATCCTAAAACCC
Found at i:14603930 original size:2 final size:2
Alignment explanation
Indices: 14603923--14603959 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14603913 CTTTTCCGGA
14603923 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14603960 AGGCAGGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14604983 original size:30 final size:30
Alignment explanation
Indices: 14604949--14605005 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
14604939 TCGATTTACT
* *
14604949 TAAAATTATTAAATATAATTTATAATTATC
1 TAAAATCATTAAATATAATTCATAATTATC
14604979 TAAAATCATTAAATATAATTCATAATT
1 TAAAATCATTAAATATAATTCATAATT
14605006 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAAATCATTAAATATAATTCATAATTATC
Found at i:14610227 original size:4 final size:4
Alignment explanation
Indices: 14610218--14610247 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
14610208 TTTTAAATTA
14610218 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
14610248 TAATGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:14612327 original size:214 final size:214
Alignment explanation
Indices: 14612081--14612500 Score: 612
Period size: 214 Copynumber: 2.0 Consensus size: 214
14612071 ATATCATATC
* * *
14612081 TGATAATATAAGATAAATAATTACAGATTATGTATTCGATACGACTC-TAATAAGTGATCATCGA
1 TGATAATATAAAATAAATAATTACAAATTATGTATTCGATACGA-TCATAATAAGTGATCATCAA
* * **
14612145 T-AAAATTTTAATCCAAAATCTTTTTATAAAAAAAAAAACCTAATCAATTAAATTAACTATTTGT
65 TAAAAATTTAAATCCAAAATCTTTTTAT-AAAAAAAAAACCTAATCAATTAAATTAACTACTCAT
*
14612209 TAATCTCTAAATTCCATTATCAAAACTTAAAAACTAGCACTCCAA-CGTTGCAAAGAGTTGAAGT
129 TAATCTCTAAATTCCATTATCAAAACTTAAAAACCAGCACT-CAAGCGTTGCAAAGAGTTGAAGT
*
14612273 TTCGTCGAAGAAAAACGGATTT
193 TTCGTCAAAGAAAAACGGATTT
* * * *
14612295 TGATAATCTAAAATAAATTATTATAAATTATGTATTCGATATGATCATAATAAGTGATCATCAAT
1 TGATAATATAAAATAAATAATTACAAATTATGTATTCGATACGATCATAATAAGTGATCATCAAT
* * * *
14612360 AAAAATTTAAATTCAAAATTTTTTTATCAAAAAAAAATCTAATCAATTAAATTAACTACTCATTA
66 AAAAATTTAAATCCAAAATCTTTTTATAAAAAAAAAACCTAATCAATTAAATTAACTACTCATTA
* **
14612425 ATCTCTAAATTCCATTATCAAAACTTAAAAACCAGCACTCAAGCGTTGCACAGAGTTGGCGTTTC
131 ATCTCTAAATTCCATTATCAAAACTTAAAAACCAGCACTCAAGCGTTGCAAAGAGTTGAAGTTTC
14612490 GTCAAAGAAAA
196 GTCAAAGAAAA
14612501 GCGCACCTTG
Statistics
Matches: 183, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
213 5 0.03
214 155 0.85
215 23 0.13
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (214 bp):
TGATAATATAAAATAAATAATTACAAATTATGTATTCGATACGATCATAATAAGTGATCATCAAT
AAAAATTTAAATCCAAAATCTTTTTATAAAAAAAAAACCTAATCAATTAAATTAACTACTCATTA
ATCTCTAAATTCCATTATCAAAACTTAAAAACCAGCACTCAAGCGTTGCAAAGAGTTGAAGTTTC
GTCAAAGAAAAACGGATTT
Found at i:14617657 original size:29 final size:30
Alignment explanation
Indices: 14617595--14617681 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
14617585 GATAAATATT
* * *
14617595 ATATTA-ATTAATTAATTTAT--AATTTAA
1 ATATTATATTAAATAGTTTATAAAATTTTA
14617622 ATATTATATTAAA-AGTTTATAAAATTTTA
1 ATATTATATTAAATAGTTTATAAAATTTTA
* * *
14617651 ATATTATATTAAATATTTTATTACATTTTA
1 ATATTATATTAAATAGTTTATAAAATTTTA
14617681 A
1 A
14617682 AGATTATTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.24
28 5 0.10
29 19 0.38
30 14 0.28
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
ATATTATATTAAATAGTTTATAAAATTTTA
Found at i:14618393 original size:18 final size:18
Alignment explanation
Indices: 14618344--14618393 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
14618334 TTTTAGACTA
14618344 AATTATCAAATTTAAAAAT
1 AATTAT-AAATTTAAAAAT
* *
14618363 -ATTATTTAA-TTAAAATT
1 AATTA-TAAATTTAAAAAT
14618380 AATTATAAATTTAA
1 AATTATAAATTTAA
14618394 TTTTTATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
17 10 0.40
18 14 0.56
19 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTATAAATTTAAAAAT
Found at i:14619699 original size:42 final size:42
Alignment explanation
Indices: 14619647--14619729 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
14619637 ATATTTTAAA
*
14619647 CTCCACAAATAAGATTAA-AAGAGTGACATATATTTCTTAATT
1 CTCCACAAATAAGATTAAGAA-AGTGACATATATCTCTTAATT
* *
14619689 CTCCATAAATAAGATTAAGAAAGTGGCATATATCTCTTAAT
1 CTCCACAAATAAGATTAAGAAAGTGACATATATCTCTTAAT
14619730 ATATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (42 bp):
CTCCACAAATAAGATTAAGAAAGTGACATATATCTCTTAATT
Found at i:14623712 original size:27 final size:27
Alignment explanation
Indices: 14623646--14623714 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
14623636 GTCCCAAAAA
*
14623646 AAAAAAAATAAAAATATTACAAAATATG
1 AAAAATAA-AAAAATATTACAAAATATG
*
14623674 AAATATAAAAAAATATTA-AAAATAAT-
1 AAAAATAAAAAAATATTACAAAAT-ATG
14623700 ACAAAATACAAAAAA
1 A-AAAATA-AAAAAA
14623715 AAAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 6 0.17
27 17 0.49
28 12 0.34
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.20
Consensus pattern (27 bp):
AAAAATAAAAAAATATTACAAAATATG
Done.