Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 63 of 84
Found at i:14156939 original size:22 final size:24
Alignment explanation
Indices: 14156902--14156950 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
14156892 TAGCTTAGTT
**
14156902 TTTACATTTTTATTTTCCTTACAA
1 TTTACATTTTTATTTTCCACACAA
14156926 TTTAC-TTTTT-TTTTCCACACAA
1 TTTACATTTTTATTTTCCACACAA
14156948 TTT
1 TTT
14156951 CTTCCTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 5 0.22
24 5 0.22
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTACATTTTTATTTTCCACACAA
Found at i:14160494 original size:38 final size:37
Alignment explanation
Indices: 14160445--14160744 Score: 185
Period size: 38 Copynumber: 7.9 Consensus size: 37
14160435 AAATAAAAGT
* *
14160445 TCTCCAACGAGGCTTCAACTTTGGAAAAATAAAGTGC
1 TCTCCACCGAGGCTTCAACTTTGGAAAAATAAAGTAC
* *
14160482 TTCTCTACCGAGGCTTCAACTTT-GAAAAATAAAGCAC
1 -TCTCCACCGAGGCTTCAACTTTGGAAAAATAAAGTAC
** * **
14160519 TTCTCCACTAAGGCTTCAACTTTTGAAAAAATAAAAAAC
1 -TCTCCACCGAGGCTTCAAC-TTTGGAAAAATAAAGTAC
** * *
14160558 TCTTCCACTAAGACTTCAACTTTGGAAAAATAAA--AA
1 TC-TCCACCGAGGCTTCAACTTTGGAAAAATAAAGTAC
** *
14160594 TCTCCTACACTGAGGCTTCAACTTTCAAAAAATAAAGAAC
1 TCTCC-AC-C-GAGGCTTCAACTTTGGAAAAATAAAGTAC
* ** * * *
14160634 TCTTCCACTGAAACTTCAACTTTTGAAAAAAATAAAGAAT
1 TC-TCCACCGAGGCTTCAAC-TTTG-GAAAAATAAAGTAC
*** * * *
14160674 TCCTCTGTCGAAGCTTCAA-TTTAGAAAAATAAAGAAC
1 T-CTCCACCGAGGCTTCAACTTTGGAAAAATAAAGTAC
* **
14160711 TCCTCCACCAAGGCTTCAACTTTAAAAAAATAAA
1 T-CTCCACCGAGGCTTCAACTTTGGAAAAATAAA
14160745 ATCATATCCA
Statistics
Matches: 211, Mismatches: 38, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
35 3 0.01
36 5 0.02
37 55 0.26
38 84 0.40
39 30 0.14
40 30 0.14
41 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (37 bp):
TCTCCACCGAGGCTTCAACTTTGGAAAAATAAAGTAC
Found at i:14160615 original size:77 final size:77
Alignment explanation
Indices: 14160495--14160744 Score: 264
Period size: 77 Copynumber: 3.3 Consensus size: 77
14160485 TCTACCGAGG
* * * *
14160495 CTTCAACTTTG-AAAAATAAAGCA-CTTCTCCACTAAGGCTTCAACTTTTGAAAAAATAAAAAAC
1 CTTCAACTTTGAAAAAATAAAGAATCTCCT-CACTGAGGCTTCAACTTTTGAAAAAATAAAGAAC
14160558 TCTTCCACTAAGA
65 TCTTCCACTAAGA
* *
14160571 CTTCAACTTTGGAAAAATAAA-AATCTCCTACACTGAGGCTTCAAC-TTTCAAAAAATAAAGAAC
1 CTTCAACTTTGAAAAAATAAAGAATCTCCT-CACTGAGGCTTCAACTTTTGAAAAAATAAAGAAC
14160634 TCTTCCACTGAA-A
65 TCTTCCACT-AAGA
** * *
14160647 CTTCAACTTTTGAAAAAAATAAAGAAT-TCCTCTGTCGAAGCTTCAA-TTTAG-AAAAATAAAGA
1 CTTCAAC-TTTG-AAAAAATAAAGAATCTCCTCACT-GAGGCTTCAACTTTTGAAAAAATAAAGA
* * *
14160709 ACTCCTCCACCAAGG
63 ACTCTTCCACTAAGA
*
14160724 CTTCAACTTTAAAAAAATAAA
1 CTTCAACTTTGAAAAAATAAA
14160745 ATCATATCCA
Statistics
Matches: 149, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
75 10 0.07
76 50 0.34
77 62 0.42
78 24 0.16
79 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (77 bp):
CTTCAACTTTGAAAAAATAAAGAATCTCCTCACTGAGGCTTCAACTTTTGAAAAAATAAAGAACT
CTTCCACTAAGA
Found at i:14160705 original size:115 final size:114
Alignment explanation
Indices: 14160457--14160744 Score: 309
Period size: 115 Copynumber: 2.5 Consensus size: 114
14160447 TCCAACGAGG
* ** * * *
14160457 CTTCAACTTTGGAAAAATAAAGTGCTTCT-CTACCGAGGCTTCAACTTTGAAAAATAAAGCACTT
1 CTTCAACTTTAGAAAAATAAAGAACTCCTAC-ACCGAGGCTTCAACTTTAAAAAATAAAGAACTT
* * *
14160521 CTCCACTAAGGCTTCAACTTTTGAAAAAATAAAAAACTCTTCCACTAAGA
65 CTCCACTAAGACTTCAACTTTTGAAAAAATAAAAAACTCCTCCACGAAGA
* *
14160571 CTTCAACTTTGGAAAAATAAA-AATCTCCTACACTGAGGCTTCAACTTTCAAAAAATAAAGAAC-
1 CTTCAACTTTAGAAAAATAAAGAA-CTCCTACACCGAGGCTTCAACTTT-AAAAAATAAAGAACT
* * **
14160634 TCTTCCACTGAA-ACTTCAACTTTTGAAAAAAATAAAGAATTCCTCTGTCGAAG-
64 TC-TCCACT-AAGACTTCAACTTTTG-AAAAAATAAAAAACTCCTC-CACGAAGA
* *
14160687 CTTCAA-TTTAGAAAAATAAAGAACTCCTCCACCAAGGCTTCAACTTTAAAAAAATAAA
1 CTTCAACTTTAGAAAAATAAAGAACTCCTACACCGAGGCTTCAACTTT-AAAAAATAAA
14160745 ATCATATCCA
Statistics
Matches: 148, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
114 43 0.29
115 75 0.51
116 26 0.18
117 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (114 bp):
CTTCAACTTTAGAAAAATAAAGAACTCCTACACCGAGGCTTCAACTTTAAAAAATAAAGAACTTC
TCCACTAAGACTTCAACTTTTGAAAAAATAAAAAACTCCTCCACGAAGA
Found at i:14160830 original size:48 final size:48
Alignment explanation
Indices: 14160757--14160889 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 48
14160747 CATATCCAAG
* ** * * *
14160757 AAAGCTCATTCTTAATTAAGGCTTGAAACTTTAAAATTCTCATTTAGG
1 AAAGCTCATTCTCAACAAAAGCTTGAAACTTTAAAATTCTCATCTAGA
* * * * *
14160805 AATGCTCCTTCTCAACAAAAGCTTGAAATTTTAAACTTTTCATCTAGA
1 AAAGCTCATTCTCAACAAAAGCTTGAAACTTTAAAATTCTCATCTAGA
* * *
14160853 AAAGCTCATTTTCAACAAAGGCTTGAAGCTTTAAAAT
1 AAAGCTCATTCTCAACAAAAGCTTGAAACTTTAAAAT
14160890 AAAACATTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (48 bp):
AAAGCTCATTCTCAACAAAAGCTTGAAACTTTAAAATTCTCATCTAGA
Found at i:14166697 original size:20 final size:21
Alignment explanation
Indices: 14166668--14166714 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
14166658 CAACTCTTTT
14166668 AACT-AAAAAATAAAAAT-TA
1 AACTAAAAAAATAAAAATATA
*
14166687 AACTAAAAAAATTAAAATATA
1 AACTAAAAAAATAAAAATATA
14166708 AA-TAAAA
1 AACTAAAA
14166715 CTTAGGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (21 bp):
AACTAAAAAAATAAAAATATA
Found at i:14166929 original size:14 final size:14
Alignment explanation
Indices: 14166910--14166936 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14166900 GCAATCTTTA
14166910 GTTTTCAAGATTTT
1 GTTTTCAAGATTTT
14166924 GTTTTCAAGATTT
1 GTTTTCAAGATTT
14166937 ATAGTTCTTT
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:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (14 bp):
GTTTTCAAGATTTT
Found at i:14173225 original size:7 final size:7
Alignment explanation
Indices: 14173213--14173245 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
14173203 AATAATAATT
14173213 TAAAAAA
1 TAAAAAA
14173220 TAAAAAA
1 TAAAAAA
14173227 TAAAAAA
1 TAAAAAA
*
14173234 -AAATAA
1 TAAAAAA
14173240 TAAAAA
1 TAAAAA
14173246 GGATGCCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:14173241 original size:13 final size:14
Alignment explanation
Indices: 14173213--14173245 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14173203 AATAATAATT
14173213 TAAAAAATAAAAAA
1 TAAAAAATAAAAAA
*
14173227 TAAAAAA-AAATAA
1 TAAAAAATAAAAAA
14173240 TAAAAA
1 TAAAAA
14173246 GGATGCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAAAATAAAAAA
Found at i:14173461 original size:22 final size:22
Alignment explanation
Indices: 14173433--14173477 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
14173423 AAAAGAAAAA
* *
14173433 ATCAAATTCGAATATTATATTG
1 ATCAAATCCGAATATTACATTG
14173455 ATCAAATCCGAATATTACATTG
1 ATCAAATCCGAATATTACATTG
14173477 A
1 A
14173478 CACCTTCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (22 bp):
ATCAAATCCGAATATTACATTG
Found at i:14173601 original size:21 final size:22
Alignment explanation
Indices: 14173576--14173625 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
14173566 GGGTCTCATA
*
14173576 TTAAAAAATTTTTAAAT--ATT
1 TTAAAAAATTATTAAATAAATT
*
14173596 TTTAAAAA-TATTAAATAAATT
1 TTAAAAAATTATTAAATAAATT
14173617 TTAAAAAAT
1 TTAAAAAAT
14173626 AAAAAGCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.29
20 7 0.29
21 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAAATTATTAAATAAATT
Found at i:14173778 original size:22 final size:23
Alignment explanation
Indices: 14173725--14173778 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
14173715 TCTTAAAAAA
* *
14173725 TAAAATATAAAAAAATTAATTAT
1 TAAAATATAAAAAAATGAATAAT
14173748 TAAATATATAAAAAAA-GAA-AAT
1 TAAA-ATATAAAAAAATGAATAAT
14173770 GTAAAATAT
1 -TAAAATAT
14173779 CAAACATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.22
23 10 0.37
24 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
TAAAATATAAAAAAATGAATAAT
Found at i:14177737 original size:12 final size:12
Alignment explanation
Indices: 14177720--14177744 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14177710 AGCCCCCTGC
14177720 TTTTTGTTGACA
1 TTTTTGTTGACA
14177732 TTTTTGTTGACA
1 TTTTTGTTGACA
14177744 T
1 T
14177745 CTTTAACCCA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTTTGTTGACA
Found at i:14180878 original size:133 final size:138
Alignment explanation
Indices: 14180650--14180916 Score: 359
Period size: 139 Copynumber: 1.9 Consensus size: 138
14180640 AAAGTATAAA
* * *
14180650 TTTTGGTAATGTACTGTCATTACTCTTGGGCTGTCACGTGTAATTTGTTTTTTTTAATTTTTTTA
1 TTTTGCTAATGTACTGTCATTAATCTTAGGCTGTCACGTGTAATTTGTTTTTTTTAATTTTTTTA
*
14180715 ATTTTCTTTTAAAATATCTAATAAATGTTTTGTAAAATTAT-AAAACTATATA-TTT-AAAAATT
66 A---T-TTTTAAAATATCTAACAAATGTTTTGTAAAATTATAAAAACTATATATTTTAAAAAATT
14180777 TTATAATTTTGT
127 TTATAATTTTGT
* * *
14180789 TTTTGCTAATG-AGCTGTTATTAATCTTAGGCTGTCCCGTGTAATTTGTTTATTTTTTA-TTTTT
1 TTTTGCTAATGTA-CTGTCATTAATCTTAGGCTGTCACGTGTAATTTGTTT-TTTTTAATTTTTT
*
14180852 T-A-TTTTAAAATATCTAACAAATGTTTTTTAAAATTATAAAAACTATATATTTTAAAAAATTTT
64 TAATTTTTAAAATATCTAACAAATGTTTTGTAAAATTATAAAAACTATATATTTTAAAAAATTTT
14180915 AT
129 AT
14180917 TTTTTATGCA
Statistics
Matches: 115, Mismatches: 8, Indels: 13
0.85 0.06 0.10
Matches are distributed among these distances:
133 33 0.29
134 11 0.10
135 3 0.03
136 11 0.10
138 2 0.02
139 49 0.43
140 6 0.05
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (138 bp):
TTTTGCTAATGTACTGTCATTAATCTTAGGCTGTCACGTGTAATTTGTTTTTTTTAATTTTTTTA
ATTTTTAAAATATCTAACAAATGTTTTGTAAAATTATAAAAACTATATATTTTAAAAAATTTTAT
AATTTTGT
Found at i:14180980 original size:11 final size:11
Alignment explanation
Indices: 14180961--14180994 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
14180951 TTTACCCTTT
*
14180961 AAATTTTTTAA
1 AAATATTTTAA
14180972 AAATATTTT-A
1 AAATATTTTAA
14180982 AAATATTTTAA
1 AAATATTTTAA
14180993 AA
1 AA
14180995 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATATTTTAA
Found at i:14180986 original size:10 final size:10
Alignment explanation
Indices: 14180961--14180995 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
14180951 TTTACCCTTT
*
14180961 AAATTTTTTAA
1 AAATATTTT-A
14180972 AAATATTTTA
1 AAATATTTTA
14180982 AAATATTTTA
1 AAATATTTTA
14180992 AAAT
1 AAAT
14180996 TATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AAATATTTTA
Found at i:14181169 original size:16 final size:18
Alignment explanation
Indices: 14181148--14181183 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14181138 AATTTGTGTG
14181148 TTTTG-TCTTT-TTCTTT
1 TTTTGTTCTTTCTTCTTT
14181164 TTTTGTTCTTTCTTCTTT
1 TTTTGTTCTTTCTTCTTT
14181182 TT
1 TT
14181184 AGGATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTGTTCTTTCTTCTTT
Found at i:14181248 original size:23 final size:23
Alignment explanation
Indices: 14181203--14181259 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
14181193 TTTTTTATTG
*
14181203 TAAAATATTTAATAAATATTTTT
1 TAAAATATTTAAAAAATATTTTT
14181226 TAAAAT-TTTAAAAAATGTATTTTT
1 TAAAATATTTAAAAAA--TATTTTT
* *
14181250 TTAAAGATTT
1 TAAAATATTT
14181260 GTATGTATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 8 0.29
23 6 0.21
24 11 0.39
25 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TAAAATATTTAAAAAATATTTTT
Found at i:14181733 original size:20 final size:20
Alignment explanation
Indices: 14181694--14181740 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
14181684 CAAATATAAT
*
14181694 TTTTTAGTTTTTAATTATATA
1 TTTTTAGTTTTTAA-AATATA
14181715 TATTTTA-TTTTTAAAATATA
1 T-TTTTAGTTTTTAAAATATA
14181735 TTTTTA
1 TTTTTA
14181741 AAAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 8 0.33
22 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAGTTTTTAAAATATA
Found at i:14181738 original size:13 final size:13
Alignment explanation
Indices: 14181720--14181750 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14181710 ATATATATTT
*
14181720 TATTTTTAAAATA
1 TATTTTTAAAAAA
14181733 TATTTTTAAAAAA
1 TATTTTTAAAAAA
14181746 TATTT
1 TATTT
14181751 AAATTTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTTTAAAAAA
Found at i:14182288 original size:80 final size:83
Alignment explanation
Indices: 14182204--14182358 Score: 226
Period size: 80 Copynumber: 1.9 Consensus size: 83
14182194 AAAAAATAAA
* * * *
14182204 AAATAAAAATAATACATGACAAGCAATGGACTT-CCACTTGTCACTATACTATCC-TTTAGGG-T
1 AAATAAAAATAACACATGACAAGCAATGAACTTGCCACATGTCACCATACTATCCTTTTAGGGAT
*
14182266 AGTTTTTATCAATAAAAT
66 AGTCTTTATCAATAAAAT
* *
14182284 AAATAAAAATAACACATGGCAAGCAATGAACTTGCCGCATGTCACCATACTATCCTTTTAGGGAT
1 AAATAAAAATAACACATGACAAGCAATGAACTTGCCACATGTCACCATACTATCCTTTTAGGGAT
14182349 AGTCTTTATC
66 AGTCTTTATC
14182359 CATGGGATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
80 30 0.46
81 18 0.28
82 7 0.11
83 10 0.15
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (83 bp):
AAATAAAAATAACACATGACAAGCAATGAACTTGCCACATGTCACCATACTATCCTTTTAGGGAT
AGTCTTTATCAATAAAAT
Found at i:14182815 original size:9 final size:9
Alignment explanation
Indices: 14182803--14182878 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
14182793 GTTTTTTGAG
14182803 ATTTTTTAA
1 ATTTTTTAA
14182812 ATTTTTTTCAAA
1 A-TTTTTT--AA
14182824 ATTTTTTATA
1 ATTTTTTA-A
14182834 GATTTTTTAAA
1 -ATTTTTT-AA
*
14182845 ATTTTATAA
1 ATTTTTTAA
*
14182854 ATATTTTAA
1 ATTTTTTAA
***
14182863 AAGATTTAA
1 ATTTTTTAA
14182872 ATTTTTT
1 ATTTTTT
14182879 GAGGATTGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
9 21 0.40
10 13 0.25
11 14 0.27
12 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:14182827 original size:21 final size:20
Alignment explanation
Indices: 14182803--14182878 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
14182793 GTTTTTTGAG
14182803 ATTTTTTAAATTTTTTTCAAA
1 ATTTTTTAAATTTTTTT-AAA
14182824 ATTTTTTATAGA-TTTTTTAAA
1 ATTTTTTA-A-ATTTTTTTAAA
* *
14182845 ATTTTATAAA-TATTTTAAA
1 ATTTTTTAAATTTTTTTAAA
**
14182864 A-GATTTAAATTTTTT
1 ATTTTTTAAATTTTTT
14182879 GAGGATTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.11
19 14 0.30
20 1 0.02
21 18 0.39
22 7 0.15
23 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTTAAATTTTTTTAAA
Found at i:14182851 original size:19 final size:19
Alignment explanation
Indices: 14182827--14182864 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14182817 TTTCAAAATT
* *
14182827 TTTTATAGATTTTTTAAAA
1 TTTTATAAATATTTTAAAA
14182846 TTTTATAAATATTTTAAAA
1 TTTTATAAATATTTTAAAA
14182865 GATTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTATAAATATTTTAAAA
Found at i:14184502 original size:16 final size:17
Alignment explanation
Indices: 14184483--14184519 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
14184473 ATATTTTTAA
*
14184483 ATATTTATTTA-ATTTT
1 ATATTTATATATATTTT
14184499 ATATTTATATATATTTT
1 ATATTTATATATATTTT
14184516 -TATT
1 ATATT
14184520 AATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATTTATATATATTTT
Found at i:14184967 original size:20 final size:21
Alignment explanation
Indices: 14184929--14184967 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14184919 CTTTTTCCTT
14184929 TTTTGTTTGTTTACTTTTTCA
1 TTTTGTTTGTTTACTTTTTCA
*
14184950 TTTT-TTTGTTTATTTTTT
1 TTTTGTTTGTTTACTTTTT
14184968 ATTAGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (21 bp):
TTTTGTTTGTTTACTTTTTCA
Found at i:14195494 original size:6 final size:6
Alignment explanation
Indices: 14195483--14195527 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
14195473 CCTTTTTCTA
* *
14195483 TTTTAT TTTTAT TTTTAT TTTTGT TTTTGTT TTTTAT TTTT-T TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TTTTAT TTT
14195528 CAATTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
7 5 0.14
ACGTcount: A:0.09, C:0.00, G:0.04, T:0.87
Consensus pattern (6 bp):
TTTTAT
Found at i:14195510 original size:19 final size:17
Alignment explanation
Indices: 14195476--14195527 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
14195466 CATTTTCCCT
*
14195476 TTTTCTATTTTATTTTTA
1 TTTT-TATTTTTTTTTTA
*
14195494 TTTTTATTTTTGTTTTTGT
1 TTTTTATTTTT-TTTTT-A
14195513 TTTTTATTTTTTTTT
1 TTTTTATTTTTTTTT
14195528 CAATTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.20
18 13 0.43
19 11 0.37
ACGTcount: A:0.10, C:0.02, G:0.04, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTTTTTTTA
Found at i:14196623 original size:16 final size:16
Alignment explanation
Indices: 14196599--14196645 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
14196589 TTTTTGTAAA
14196599 ATTTTTTTGTTTTTT-
1 ATTTTTTTGTTTTTTC
14196614 ATTCTTTTTGTCTTTTTC
1 ATT-TTTTTGT-TTTTTC
*
14196632 ATTTTTTTATTTTT
1 ATTTTTTTGTTTTT
14196646 GATATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 11 0.39
18 3 0.11
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (16 bp):
ATTTTTTTGTTTTTTC
Found at i:14208863 original size:55 final size:55
Alignment explanation
Indices: 14208779--14208885 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
14208769 TTCTTATGCA
*
14208779 TTTGGTCATGATTCTTAAATCATAAGTAACAATTACTTTGACTTTTATAAAAGCC
1 TTTGGTCATGATTCTTAAATCACAAGTAACAATTACTTTGACTTTTATAAAAGCC
*
14208834 TTTGGTCATGATTCTTGAATCACAAGTAACAATTACTTTGACTTTTATAAAA
1 TTTGGTCATGATTCTTAAATCACAAGTAACAATTACTTTGACTTTTATAAAA
14208886 ACAATCCACT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (55 bp):
TTTGGTCATGATTCTTAAATCACAAGTAACAATTACTTTGACTTTTATAAAAGCC
Found at i:14209149 original size:12 final size:12
Alignment explanation
Indices: 14209132--14209157 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14209122 TTTATGGGTT
14209132 AAATTTGTCATC
1 AAATTTGTCATC
14209144 AAATTTGTCATC
1 AAATTTGTCATC
14209156 AA
1 AA
14209158 CTTTTGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (12 bp):
AAATTTGTCATC
Found at i:14211443 original size:19 final size:19
Alignment explanation
Indices: 14211430--14211570 Score: 83
Period size: 19 Copynumber: 7.4 Consensus size: 19
14211420 AAACCTTACT
*
14211430 CCCTAAACCTAACCTTAAA
1 CCCTAAACATAACCTTAAA
14211449 CCCTAAACATAACCTTAAA
1 CCCTAAACATAACCTTAAA
* * *
14211468 CCC-CAA-A-ACCCTAAAAA
1 CCCTAAACATAACCT-TAAA
* * *
14211485 CCC-AAACCCTAAACTCCAAA
1 CCCTAAA-CATAACCT-TAAA
* * *
14211505 CTCTAAACAAAATCTTAAA
1 CCCTAAACATAACCTTAAA
*
14211524 CCCTAAACTTAACCTTAAA
1 CCCTAAACATAACCTTAAA
* * **
14211543 CCTTAAACCTAAACCCCAAA
1 CCCTAAACAT-AACCTTAAA
14211563 CCCTAAAC
1 CCCTAAAC
14211571 TAAATCTCCA
Statistics
Matches: 92, Mismatches: 24, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
16 4 0.04
17 9 0.10
18 2 0.02
19 47 0.51
20 27 0.29
21 3 0.03
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (19 bp):
CCCTAAACATAACCTTAAA
Found at i:14211455 original size:7 final size:7
Alignment explanation
Indices: 14211430--14211628 Score: 75
Period size: 7 Copynumber: 28.9 Consensus size: 7
14211420 AAACCTTACT
14211430 CCCTAAA
1 CCCTAAA
14211437 -CCT-AA
1 CCCTAAA
*
14211442 CCTTAAA
1 CCCTAAA
14211449 CCCTAAA
1 CCCTAAA
*
14211456 -CAT-AA
1 CCCTAAA
*
14211461 CCTTAAA
1 CCCTAAA
*
14211468 CCCCAAAA
1 -CCCTAAA
14211476 CCCTAAAAA
1 CCCT--AAA
14211485 CCC-AAA
1 CCCTAAA
14211491 CCCTAAA
1 CCCTAAA
14211498 CTCC-AAA
1 C-CCTAAA
*
14211505 CTCTAAA
1 CCCTAAA
*
14211512 --CAAAA
1 CCCTAAA
* *
14211517 TCTTAAA
1 CCCTAAA
14211524 CCCTAAA
1 CCCTAAA
*
14211531 --CTTAA
1 CCCTAAA
*
14211536 CCTTAAA
1 CCCTAAA
*
14211543 CCTTAAA
1 CCCTAAA
14211550 -CCTAAA
1 CCCTAAA
*
14211556 CCCCAAA
1 CCCTAAA
14211563 CCCTAAA
1 CCCTAAA
14211570 --CTAAA
1 CCCTAAA
14211575 TCTCC-AAA
1 -C-CCTAAA
14211583 TCCGCATTTAAA
1 -CC-C---TAAA
*
14211595 CTCTAAA
1 CCCTAAA
14211602 CCCTAAA
1 CCCTAAA
*
14211609 CCTTAAA
1 CCCTAAA
14211616 CCCTAAA
1 CCCTAAA
14211623 CCCTAA
1 CCCTAA
14211629 TCTAGACCTT
Statistics
Matches: 145, Mismatches: 23, Indels: 48
0.67 0.11 0.22
Matches are distributed among these distances:
5 17 0.12
6 21 0.14
7 82 0.57
8 13 0.09
9 7 0.05
10 1 0.01
11 1 0.01
12 3 0.02
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:14218342 original size:12 final size:12
Alignment explanation
Indices: 14218312--14218342 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14218302 TGTCGAGGAG
*
14218312 AAAAAAAATTGC
1 AAAAAAGATTGC
14218324 AAAAAAGATTGC
1 AAAAAAGATTGC
14218336 AAAAAAG
1 AAAAAAG
14218343 GGGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.13, T:0.13
Consensus pattern (12 bp):
AAAAAAGATTGC
Found at i:14219560 original size:9 final size:9
Alignment explanation
Indices: 14219546--14219618 Score: 64
Period size: 9 Copynumber: 8.3 Consensus size: 9
14219536 TACTATGCTT
14219546 AAAAAAAAG
1 AAAAAAAAG
14219555 AAAAAAAAG
1 AAAAAAAAG
*
14219564 GAAAAAAAG
1 AAAAAAAAG
*
14219573 -GAAAAAA-
1 AAAAAAAAG
*
14219580 AACAAAAAG
1 AAAAAAAAG
*
14219589 -AACAAAAG
1 AAAAAAAAG
14219597 AAAAATAAA-
1 AAAAA-AAAG
14219606 ACAAAAAAAG
1 A-AAAAAAAG
14219616 AAA
1 AAA
14219619 GGTCTAGGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 17 0.33
9 26 0.51
10 8 0.16
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:14219586 original size:25 final size:24
Alignment explanation
Indices: 14219547--14219612 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 24
14219537 ACTATGCTTA
*
14219547 AAAAAAAGAAAAAAAAGGAAAAAAAG
1 AAAAAAA-AACAAAAA-GAAAAAAAG
* *
14219573 GAAAAAAAACAAAAAGAACAAAAG
1 AAAAAAAAACAAAAAGAAAAAAAG
14219597 AAAAATAAAACAAAAA
1 AAAAA-AAAACAAAAA
14219613 AAGAAAGGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.34
25 17 0.49
26 6 0.17
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.02
Consensus pattern (24 bp):
AAAAAAAAACAAAAAGAAAAAAAG
Found at i:14219587 original size:19 final size:18
Alignment explanation
Indices: 14219546--14219587 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
14219536 TACTATGCTT
*
14219546 AAAAAAAAGAAAAAAAAGG
1 AAAAAAAAGAAAAAAAA-C
*
14219565 AAAAAAAGGAAAAAAAAC
1 AAAAAAAAGAAAAAAAAC
14219583 AAAAA
1 AAAAA
14219588 GAACAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAC
Found at i:14219600 original size:19 final size:19
Alignment explanation
Indices: 14219547--14219618 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
14219537 ACTATGCTTA
**
14219547 AAAAAAAGAAAAA-AAAGG
1 AAAAAAAGAAAAATAAAAC
* *
14219565 AAAAAAAGGAAAAAAAACAAAA
1 AAAAAAA-G-AAAAATA-AAAC
14219587 AGAACAAAAGAAAAATAAAAC
1 A-AA-AAAAGAAAAATAAAAC
14219608 AAAAAAAGAAA
1 AAAAAAAGAAA
14219619 GGTCTAGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
18 7 0.16
19 9 0.20
20 7 0.16
21 5 0.11
22 9 0.20
23 3 0.07
24 4 0.09
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.01
Consensus pattern (19 bp):
AAAAAAAGAAAAATAAAAC
Found at i:14229627 original size:24 final size:24
Alignment explanation
Indices: 14229581--14229628 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
14229571 AAAAATGGGT
*
14229581 TAAAAATAAAATCAAATCAAAAAA
1 TAAAAATAAAATAAAATCAAAAAA
*
14229605 TAAAAATAAAAATAAAATGAAAAA
1 TAAAAAT-AAAATAAAATCAAAAA
14229629 GGAAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (24 bp):
TAAAAATAAAATAAAATCAAAAAA
Found at i:14229634 original size:25 final size:24
Alignment explanation
Indices: 14229582--14229635 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
14229572 AAAATGGGTT
* *
14229582 AAAAATAAAATCAAATCAAAAAAT
1 AAAAATAAAATAAAATCAAAAAAG
* *
14229606 AAAAATAAAAATAAAATGAAAAAGG
1 AAAAAT-AAAATAAAATCAAAAAAG
14229631 AAAAA
1 AAAAA
14229636 CTTACGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.13
Consensus pattern (24 bp):
AAAAATAAAATAAAATCAAAAAAG
Found at i:14230611 original size:19 final size:22
Alignment explanation
Indices: 14230589--14230648 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
14230579 ACTAAAGGAA
*
14230589 AATAA-AATAAA-AAT-ATATT
1 AATAATAATAAACAATAATAAT
14230608 AATAATAATAAACAATAATAAT
1 AATAATAATAAACAATAATAAT
14230630 AATAATAATAATACAATAA
1 AATAATAATAA-ACAATAA
14230649 AATTATCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.14
20 6 0.17
21 3 0.08
22 15 0.42
23 7 0.19
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATAAACAATAATAAT
Found at i:14230615 original size:3 final size:3
Alignment explanation
Indices: 14230589--14230642 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
14230579 ACTAAAGGAA
* * *
14230589 AAT AA- AAT AAA AAT -AT ATT AAT AAT AAT AAAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
14230633 AAT AAT AAT A
1 AAT AAT AAT A
14230643 CAATAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:14230617 original size:25 final size:23
Alignment explanation
Indices: 14230589--14230650 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 23
14230579 ACTAAAGGAA
14230589 AATAAAATAAAAATATATTAATAAT
1 AATAAAATAAAAATA-A-TAATAAT
*
14230614 AATAAACAATAATAATAATAATAAT
1 AAT-AA-AATAAAAATAATAATAAT
*
14230639 AATACAATAAAA
1 AATAAAATAAAA
14230651 TTATCTAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
25 13 0.41
26 3 0.09
27 9 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (23 bp):
AATAAAATAAAAATAATAATAAT
Found at i:14231407 original size:108 final size:107
Alignment explanation
Indices: 14231105--14231422 Score: 384
Period size: 110 Copynumber: 2.9 Consensus size: 107
14231095 ATCATCAGAG
* * * *
14231105 ATGATCTGGATTAAGCCAAGACCAAGTGATAAAGATGAAACCACAAGTCAAAATAAAGTGACCAG
1 ATGATCTGGACTAAGCCAAGATCAAGTGACAAAGACGAAACCACAAGTCAAAATAAAGTGACCAG
* * *
14231170 GATCGAGTCAAGGTCGAAAATAAATGATCAAGATGAAACCATGA
66 GATCGAGTCAAGGTCAAAAATAAATGATCAGGATG-AA-CACGA
* ** * * *
14231214 ATGATATGGACTAGAGCCAAGATCAAGTGACTGAGACAAAAACACAAGTCAAAAGAAAGTGACCA
1 ATGATCTGGACTA-AGCCAAGATCAAGTGACAAAGACGAAACCACAAGTCAAAATAAAGTGACCA
* * *
14231279 AGATCGAGTTAAGGTCAAAAATAAATGATCGGGATAGAACACGA
65 GGATCGAGTCAAGGTCAAAAATAAATGATCAGGAT-GAACACGA
* * *
14231323 ATGATCTGGACTAAGCCAAGATCAAGTGACCAAGACGAAACCACAAATCAAAATAAAATGACCAG
1 ATGATCTGGACTAAGCCAAGATCAAGTGACAAAGACGAAACCACAAGTCAAAATAAAGTGACCAG
* * * * *
14231388 GACCAAGTCGAGGTTAAAAATAAATGATCTGGATG
66 GATCGAGTCAAGGTCAAAAATAAATGATCAGGATG
14231423 GAACCATAAA
Statistics
Matches: 176, Mismatches: 31, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
107 1 0.01
108 72 0.41
109 27 0.15
110 75 0.43
111 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (107 bp):
ATGATCTGGACTAAGCCAAGATCAAGTGACAAAGACGAAACCACAAGTCAAAATAAAGTGACCAG
GATCGAGTCAAGGTCAAAAATAAATGATCAGGATGAACACGA
Found at i:14242490 original size:15 final size:15
Alignment explanation
Indices: 14242470--14242518 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
14242460 ATTTACAAAG
14242470 ATTTTTTTTAGAAAAT
1 ATTTTTTTTA-AAAAT
*
14242486 ATTTTTTTTAAATAT
1 ATTTTTTTTAAAAAT
**
14242501 ATTTTTTCCAAAAAT
1 ATTTTTTTTAAAAAT
14242516 ATT
1 ATT
14242519 AGTGGCAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (15 bp):
ATTTTTTTTAAAAAT
Found at i:14242618 original size:19 final size:19
Alignment explanation
Indices: 14242596--14242637 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14242586 AAAAGGGGTT
*
14242596 AAAAAT-AAAATCAAATCA
1 AAAAATAAAAATAAAATCA
*
14242614 AAAAATAAAAATAAAATGA
1 AAAAATAAAAATAAAATCA
14242633 AAAAA
1 AAAAA
14242638 GGAAAACCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATAAAAATAAAATCA
Found at i:14243533 original size:28 final size:27
Alignment explanation
Indices: 14243492--14243575 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 27
14243482 TAATGAAGAT
*
14243492 AATAATAATAGAAAATATAATAAGAATA
1 AATAA-AACAGAAAATATAATAAGAATA
* *
14243520 AATATACACAGAAATACTAAAATAAGAA-A
1 AATA-AAACAGAAA-A-TATAATAAGAATA
* *
14243549 AATAAAACA-AAAATATATTAATAATA
1 AATAAAACAGAAAATATAATAAGAATA
14243575 A
1 A
14243576 TAATAATACA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
25 8 0.18
26 3 0.07
27 3 0.07
28 14 0.31
29 7 0.16
30 10 0.22
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (27 bp):
AATAAAACAGAAAATATAATAAGAATA
Found at i:14245646 original size:13 final size:13
Alignment explanation
Indices: 14245617--14245671 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
14245607 GTTTTTTTGA
*
14245617 AACCCTAAATCC-A
1 AACCCTAAA-CCTT
14245630 AACCCTAAACCTT
1 AACCCTAAACCTT
*
14245643 AACCTTAAACCTT
1 AACCCTAAACCTT
*
14245656 AAACCCTAAATCTT
1 -AACCCTAAACCTT
14245670 AA
1 AA
14245672 ATCCCAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 2 0.06
13 23 0.64
14 11 0.31
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.24
Consensus pattern (13 bp):
AACCCTAAACCTT
Found at i:14245652 original size:20 final size:20
Alignment explanation
Indices: 14245629--14245764 Score: 102
Period size: 20 Copynumber: 6.8 Consensus size: 20
14245619 CCCTAAATCC
*
14245629 AAACCCTAAACCTTAACCTT
1 AAACCCTAAACCTAAACCTT
* *
14245649 AAACCTTAAACCCTAAATCTT
1 AAACCCTAAA-CCTAAACCTT
*
14245670 AAATCCC-AAATCTAAATCC--
1 AAA-CCCTAAACCTAAA-CCTT
*
14245689 AAACCCTAAACC-ATACCGTT
1 AAACCCTAAACCTAAACC-TT
* *
14245709 AAACTCTAAACCTAAATCTT
1 AAACCCTAAACCTAAACCTT
* * *
14245729 AAATCCT-ACCTCTAAACCCT
1 AAACCCTAAAC-CTAAACCTT
14245749 AAACCCTAAACCTAAA
1 AAACCCTAAACCTAAA
14245765 ATCTAAAACC
Statistics
Matches: 88, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
17 2 0.02
18 5 0.06
19 9 0.10
20 50 0.57
21 20 0.23
22 2 0.02
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (20 bp):
AAACCCTAAACCTAAACCTT
Found at i:14245687 original size:60 final size:59
Alignment explanation
Indices: 14245621--14245761 Score: 187
Period size: 60 Copynumber: 2.4 Consensus size: 59
14245611 TTTTGAAACC
14245621 CTAAATCCAAACCCTAAACCTTAACC-TTAAAC-CTTAAACCCTAAATCTTAAATCCCAAAT
1 CTAAATCCAAACCCTAAACCTT-ACCGTTAAACTC-TAAA-CCTAAATCTTAAATCCCAAAT
* * **
14245681 CTAAATCCAAACCCTAAACCATACCGTTAAACTCTAAACCTAAATCTTAAATCCTACCT
1 CTAAATCCAAACCCTAAACCTTACCGTTAAACTCTAAACCTAAATCTTAAATCCCAAAT
*
14245740 CTAAACCCTAAACCCTAAACCT
1 CTAAATCC-AAACCCTAAACCT
14245762 AAAATCTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
59 28 0.39
60 43 0.60
61 1 0.01
ACGTcount: A:0.42, C:0.33, G:0.01, T:0.24
Consensus pattern (59 bp):
CTAAATCCAAACCCTAAACCTTACCGTTAAACTCTAAACCTAAATCTTAAATCCCAAAT
Found at i:14245699 original size:7 final size:7
Alignment explanation
Indices: 14245616--14245811 Score: 76
Period size: 7 Copynumber: 29.3 Consensus size: 7
14245606 TGTTTTTTTG
14245616 AAACCCT
1 AAACCCT
*
14245623 AAATCC-
1 AAACCCT
14245629 AAACCCT
1 AAACCCT
14245636 AAA-CCT
1 AAACCCT
* *
14245642 TAACCTT
1 AAACCCT
*
14245649 AAACCTT
1 AAACCCT
14245656 AAACCCT
1 AAACCCT
* *
14245663 AAATCTT
1 AAACCCT
14245670 AAATCCC-
1 AAA-CCCT
*
14245677 AAA-TCT
1 AAACCCT
*
14245683 AAATCC-
1 AAACCCT
14245689 AAACCCT
1 AAACCCT
14245696 AAA-CC-
1 AAACCCT
* *
14245701 ATACCGTT
1 AAACC-CT
*
14245709 AAACTCT
1 AAACCCT
14245716 AAA-CCT
1 AAACCCT
* *
14245722 AAATCTT
1 AAACCCT
*
14245729 AAATCCT
1 AAACCCT
14245736 --ACCTCT
1 AAACC-CT
14245742 AAACCCT
1 AAACCCT
14245749 AAACCCT
1 AAACCCT
14245756 AAA-CCT
1 AAACCCT
**
14245762 AAAATCT
1 AAACCCT
*
14245769 AAAACCT
1 AAACCCT
*
14245776 -AACCTT
1 AAACCCT
*
14245782 AAAACCT
1 AAACCCT
* *
14245789 -AATCAT
1 AAACCCT
14245795 AAACCCT
1 AAACCCT
14245802 AAAACCCT
1 -AAACCCT
14245810 AA
1 AA
14245812 CCTAATCTAG
Statistics
Matches: 140, Mismatches: 32, Indels: 34
0.68 0.16 0.17
Matches are distributed among these distances:
5 5 0.04
6 42 0.30
7 79 0.56
8 14 0.10
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:14245724 original size:13 final size:13
Alignment explanation
Indices: 14245708--14245790 Score: 64
Period size: 13 Copynumber: 6.2 Consensus size: 13
14245698 ACCATACCGT
14245708 TAAACTCTAAACC
1 TAAACTCTAAACC
14245721 TAAA-TCTTAAATCC
1 TAAACTC-TAAA-CC
*
14245735 T-ACCTCTAAACCC
1 TAAACTCTAAA-CC
*
14245748 TAAACCCTAAACC
1 TAAACTCTAAACC
*
14245761 TAAAATCTAAAACC
1 TAAACTCT-AAACC
*
14245775 TAACCT-TAAAACC
1 TAAACTCT-AAACC
14245788 TAA
1 TAA
14245791 TCATAAACCC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.04
13 34 0.60
14 21 0.37
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAACTCTAAACC
Found at i:14245770 original size:20 final size:19
Alignment explanation
Indices: 14245620--14245777 Score: 88
Period size: 20 Copynumber: 7.9 Consensus size: 19
14245610 TTTTTGAAAC
*
14245620 CCTAAATCCAAACCCTAAA
1 CCTAAATCTAAACCCTAAA
* * *
14245639 CCTTAACCTTAAACCTTAAA
1 CCTAAATC-TAAACCCTAAA
14245659 CCCTAAATCTTAAATCCC-AAA
1 -CCTAAATC-TAAA-CCCTAAA
* *
14245680 TCTAAATCCAAACCCTAAA
1 CCTAAATCTAAACCCTAAA
* * *
14245699 CC-ATACCGTTAAACTCTAAA
1 CCTAAATC--TAAACCCTAAA
* *
14245719 CCTAAATCTTAAATCCT-AC
1 CCTAAATC-TAAACCCTAAA
*
14245738 CTCTAAACCCTAAACCCTAAA
1 C-CTAAA-TCTAAACCCTAAA
*
14245759 CCTAAAATCTAAAACCTAA
1 CCT-AAATCTAAACCCTAA
14245778 CCTTAAAACC
Statistics
Matches: 104, Mismatches: 24, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
18 6 0.06
19 15 0.14
20 58 0.56
21 23 0.22
22 2 0.02
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (19 bp):
CCTAAATCTAAACCCTAAA
Found at i:14245784 original size:20 final size:20
Alignment explanation
Indices: 14245709--14245790 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
14245699 CCATACCGTT
* *
14245709 AAACTCTAAACCTAAATCTTA
1 AAAC-CTAAACCTAAAACCTA
* * *
14245730 AATCCT-ACCTCTAAACCCTA
1 AAACCTAAAC-CTAAAACCTA
* *
14245750 AACCCTAAACCTAAAATCTA
1 AAACCTAAACCTAAAACCTA
14245770 AAACCT-AACCTTAAAACCTA
1 AAACCTAAACC-TAAAACCTA
14245790 A
1 A
14245791 TCATAAACCC
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
19 6 0.12
20 37 0.77
21 5 0.10
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
AAACCTAAACCTAAAACCTA
Found at i:14250964 original size:42 final size:42
Alignment explanation
Indices: 14250914--14250996 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
14250904 GTAGTTCACC
14250914 ACCTAAGTACACCCTAACTTATCCTACCTAATATTCACTTCT
1 ACCTAAGTACACCCTAACTTATCCTACCTAATATTCACTTCT
*
14250956 ACCTAAGTACACCCTGACTTATCCTACCTAATATTCACTTC
1 ACCTAAGTACACCCTAACTTATCCTACCTAATATTCACTTC
14250997 CATAATACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.34, G:0.04, T:0.33
Consensus pattern (42 bp):
ACCTAAGTACACCCTAACTTATCCTACCTAATATTCACTTCT
Found at i:14259719 original size:18 final size:17
Alignment explanation
Indices: 14259677--14259709 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14259667 AAATTAAAAA
14259677 ATAAAAATATTTTGAAG
1 ATAAAAATATTTTGAAG
*
14259694 AAAAAAATATTTTGAA
1 ATAAAAATATTTTGAA
14259710 ATTTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
ATAAAAATATTTTGAAG
Found at i:14260431 original size:21 final size:21
Alignment explanation
Indices: 14260406--14260449 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
14260396 TTGTAATAAT
14260406 ATAATTATTTTAAATTTTT-TA
1 ATAATT-TTTTAAATTTTTATA
14260427 ATAATTTTTTAAATTTTTATA
1 ATAATTTTTTAAATTTTTATA
14260448 AT
1 AT
14260450 GAATAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATAATTTTTTAAATTTTTATA
Found at i:14261224 original size:25 final size:25
Alignment explanation
Indices: 14261173--14261236 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
14261163 TGTAACATAT
* **
14261173 AAATAAATATAAATATATTTTTTAA
1 AAATAAATATAAAAATATTTTAAAA
14261198 AAATAAATAATAAAAATA-TTTAAAA
1 AAATAAAT-ATAAAAATATTTTAAAA
*
14261223 AATATAAACATAAA
1 AA-ATAAATATAAA
14261237 TTAACAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATAAATATAAAAATATTTTAAAA
Found at i:14261229 original size:26 final size:30
Alignment explanation
Indices: 14261169--14261230 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 30
14261159 GGACTGTAAC
**
14261169 ATATAAATAAATATAAATATATTTTTTAAA
1 ATATAAATAAATATAAATATATTTTAAAAA
14261199 A-ATAAAT-AATA-AAA-ATA-TTTAAAAA
1 ATATAAATAAATATAAATATATTTTAAAAA
14261224 ATATAAA
1 ATATAAA
14261231 CATAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 7 0.24
26 8 0.28
27 3 0.10
28 4 0.14
29 6 0.21
30 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
ATATAAATAAATATAAATATATTTTAAAAA
Found at i:14263149 original size:5 final size:6
Alignment explanation
Indices: 14263132--14263171 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
14263122 AATAATATTT
14263132 AAATCTA AAATT- AAATTA AAATTA AAATTA AAATTA AAAT
1 AAAT-TA AAATTA AAATTA AAATTA AAATTA AAATTA AAAT
14263172 ATTTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 23 0.72
7 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:14265392 original size:13 final size:13
Alignment explanation
Indices: 14265374--14265411 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14265364 TATAATTAAA
14265374 TAAAAATTAAAAT
1 TAAAAATTAAAAT
*
14265387 TAAAAA-TCAAAT
1 TAAAAATTAAAAT
14265399 TAATAAATTAAAA
1 TAA-AAATTAAAA
14265412 AGTCTTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 8 0.38
13 9 0.43
14 4 0.19
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:14278415 original size:41 final size:41
Alignment explanation
Indices: 14278354--14278512 Score: 151
Period size: 41 Copynumber: 3.9 Consensus size: 41
14278344 ATAAATATTT
* * *
14278354 AGGCTAATGAAAGATAGTTTCTCTACCAAATATGTGCCTCC
1 AGGCTGATGAAAAATAGTTTCTTTACCAAATATGTGCCTCC
* * * * * *
14278395 AGGCTGATGAAAGATGGTTTCTTTGCCAGAGATGTGCCTTC
1 AGGCTGATGAAAAATAGTTTCTTTACCAAATATGTGCCTCC
* * * *
14278436 AGG-TAGATGAAAAATAGTTTTTTTACCAAAAATATGCATCC
1 AGGCT-GATGAAAAATAGTTTCTTTACCAAATATGTGCCTCC
* *
14278477 AAGCGGATGAAAAATAGTCTT-TTTACCAAATATGTG
1 AGGCTGATGAAAAATAGT-TTCTTTACCAAATATGTG
14278513 TATTCGGGTT
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
40 1 0.01
41 92 0.97
42 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (41 bp):
AGGCTGATGAAAAATAGTTTCTTTACCAAATATGTGCCTCC
Found at i:14278883 original size:117 final size:117
Alignment explanation
Indices: 14278727--14279215 Score: 460
Period size: 117 Copynumber: 4.2 Consensus size: 117
14278717 TTTCATCCTG
* * * * * *
14278727 GTCATTTATATTCGACCTTGACTCAGTTCTGATCACTTTACTTTGAC-TCACGACATCATCCCAG
1 GTCATTTATTTTCGATCTCGACTCAGTCCTGGTCACTTTACTTTGACTTCA-GGCATCATCCCAG
* *
14278791 TCATTTGATCTCGACTTAGGTCAAATCATCTTCAAACTCGTGACATCAGTCTA
65 TCATTTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTGACATCAGTCTA
* * ** *
14278844 GTCATTTATTTTCAATCTCAACTCAGTTTTGGTCACTTTATTTTGACTTGCA-GCATCATCCCAG
1 GTCATTTATTTTCGATCTCGACTCAGTCCTGGTCACTTTACTTTGACTT-CAGGCATCATCCCAG
* *
14278908 TCATTTGATCTCAACTCAGGTCAGATCATCGTT-AGACTCGTGACATCAGTCTTA
65 TCATTTGATCTCGACTTAGGTCAGATCATC-TTCAGACTCGTGACATCAGTC-TA
* * * * * * * * *
14278962 -TCATTCATTTTTGACCTTGACTC-GATCATGGTCACTTTACTTGGAC-TCGCGGCATCGTCTCA
1 GTCATTTATTTTCGATCTCGACTCAG-TCCTGGTCACTTTACTTTGACTTC-AGGCATCATCCCA
* ** *
14279024 ATCATTTGATCTCGACTTAGGTCAGATCATCTTCAGACTCACGACATCAGTCCA
64 GTCATTTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTGACATCAGTCTA
* * * *
14279078 GTCATTTATTTACGATATCGACTCAGTCCTGGTCATTTTACTTT-ACCTTGAGGCATCATCCCAG
1 GTCATTTATTTTCGATCTCGACTCAGTCCTGGTCACTTTACTTTGA-CTTCAGGCATCATCCCAG
* * * * * * * *
14279142 TCGTTTGATCTC-AATCCAGGTTAGATCATCATCAGACTCG-CACCATCAGTTTG
65 TCATTTGATCTCGACT-TAGGTCAGATCATCTTCAGACTCGTGA-CATCAGTCTA
14279195 GTCATTTA-TTT-GATCTCGACT
1 GTCATTTATTTTCGATCTCGACT
14279216 TAGGTCAGAT
Statistics
Matches: 300, Mismatches: 58, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
115 10 0.03
116 11 0.04
117 270 0.90
118 7 0.02
119 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.36
Consensus pattern (117 bp):
GTCATTTATTTTCGATCTCGACTCAGTCCTGGTCACTTTACTTTGACTTCAGGCATCATCCCAGT
CATTTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTGACATCAGTCTA
Found at i:14279151 original size:234 final size:234
Alignment explanation
Indices: 14278740--14279181 Score: 595
Period size: 234 Copynumber: 1.9 Consensus size: 234
14278730 ATTTATATTC
* * *
14278740 GACCTTGACTCAGTTCTGATCACTTTACTTTGACTCACGACATCATCCCAGTCATTTGATCTCGA
1 GACCTTGACTCAGATCTGATCACTTTACTTGGACTCACGACATCATCCCAATCATTTGATCTCGA
** * * *
14278805 CTTAGGTCAAATCATCTTCAAACTCGTGACATCAGTCTAGTCATTTATTTTCAATCTCAACTCAG
66 CTTAGGTCAAATCATCTTCAAACTCACGACATCAGTCCAGTCATTTATTTACAATATCAACTCAG
** *
14278870 TTTTGGTCACTTTATTTTGACTTGCAGCATCATCCCAGTCATTTGATCTCAA-CTCAGGTCAGAT
131 TCCTGGTCACTTTACTTTGACTTGCAGCATCATCCCAGTCATTTGATCTCAATC-CAGGTCAGAT
* *
14278934 CATCGTTAGACTCGTGACATCAGTCTTATCATTCATTTTT
195 CATCATCAGACTCGTGACATCAGTCTTATCATTCATTTTT
* * * * *
14278974 GACCTTGACTC-GATCATGGTCACTTTACTTGGACTCGCGGCATCGTCTCAATCATTTGATCTCG
1 GACCTTGACTCAGATC-TGATCACTTTACTTGGACTCACGACATCATCCCAATCATTTGATCTCG
* * * *
14279038 ACTTAGGTCAGATCATCTTCAGACTCACGACATCAGTCCAGTCATTTATTTACGATATCGACTCA
65 ACTTAGGTCAAATCATCTTCAAACTCACGACATCAGTCCAGTCATTTATTTACAATATCAACTCA
* * *
14279103 GTCCTGGTCATTTTACTTT-ACCTTG-AGGCATCATCCCAGTCGTTTGATCTCAATCCAGGTTAG
130 GTCCTGGTCACTTTACTTTGA-CTTGCA-GCATCATCCCAGTCATTTGATCTCAATCCAGGTCAG
14279166 ATCATCATCAGACTCG
193 ATCATCATCAGACTCG
14279182 CACCATCAGT
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
233 5 0.03
234 173 0.97
235 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (234 bp):
GACCTTGACTCAGATCTGATCACTTTACTTGGACTCACGACATCATCCCAATCATTTGATCTCGA
CTTAGGTCAAATCATCTTCAAACTCACGACATCAGTCCAGTCATTTATTTACAATATCAACTCAG
TCCTGGTCACTTTACTTTGACTTGCAGCATCATCCCAGTCATTTGATCTCAATCCAGGTCAGATC
ATCATCAGACTCGTGACATCAGTCTTATCATTCATTTTT
Found at i:14279664 original size:3 final size:3
Alignment explanation
Indices: 14279656--14279712 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
14279646 GATAGCTTGT
* *
14279656 TTA TTA TTA TTA TTA TTA TTA GTA TTA TTT TTA TT- TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
14279701 TTA TTTA TTA TT
1 TTA -TTA TTA TT
14279713 TTTAGTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:14282234 original size:17 final size:17
Alignment explanation
Indices: 14282212--14282244 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14282202 TATCATTTTA
14282212 GGTTTATTAAGTGAATT
1 GGTTTATTAAGTGAATT
*
14282229 GGTTTATTGAGTGAAT
1 GGTTTATTAAGTGAAT
14282245 CTTTCATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (17 bp):
GGTTTATTAAGTGAATT
Found at i:14282522 original size:14 final size:14
Alignment explanation
Indices: 14282500--14282531 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14282490 TAACAATTGG
*
14282500 TATGGGCTTGAATA
1 TATGAGCTTGAATA
14282514 TATGAGCTTGAATA
1 TATGAGCTTGAATA
14282528 TATG
1 TATG
14282532 GTTATATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (14 bp):
TATGAGCTTGAATA
Found at i:14289591 original size:44 final size:44
Alignment explanation
Indices: 14289512--14289595 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
14289502 TGTCAATAAA
* ** *
14289512 TTTTATGCTACCTATTTATGCATGAAGGTCTTGTGTACCATTTG
1 TTTTATGCTACCTAATTATGCATGAAGCCCATGTGTACCATTTG
*
14289556 TTTTATGCTACCTAATTATGTATGAAGCCCATGTGTACCA
1 TTTTATGCTACCTAATTATGCATGAAGCCCATGTGTACCA
14289596 CTATTAATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (44 bp):
TTTTATGCTACCTAATTATGCATGAAGCCCATGTGTACCATTTG
Found at i:14291450 original size:21 final size:20
Alignment explanation
Indices: 14291402--14291454 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
14291392 TAACTTGTGC
* *
14291402 AACTAAATTTAACTTGAGAA
1 AACTAAATTAAACTAGAGAA
*
14291422 ACCTTAAATTAAACTAGAGCAA
1 AAC-TAAATTAAACTAGAG-AA
14291444 AACTAAATTAA
1 AACTAAATTAA
14291455 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.07
21 21 0.78
22 4 0.15
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (20 bp):
AACTAAATTAAACTAGAGAA
Found at i:14291610 original size:20 final size:20
Alignment explanation
Indices: 14291587--14291626 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14291577 ACTTATACTA
*
14291587 AACTTACAAA-AAATTAAATT
1 AACTTA-AAATAAACTAAATT
14291607 AACTTAAAATAAACTAAATT
1 AACTTAAAATAAACTAAATT
14291627 GAATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (20 bp):
AACTTAAAATAAACTAAATT
Found at i:14293634 original size:2 final size:2
Alignment explanation
Indices: 14293627--14293653 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14293617 CAAAGAAAAG
14293627 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 A
14293654 AGCTTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14309000 original size:21 final size:22
Alignment explanation
Indices: 14308967--14309011 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
14308957 TCCTTAAAAG
* **
14308967 TTAAGTTTCTTTATTTTTTATT
1 TTAACTTTCTTTATACTTTATT
14308989 TTAACTTT-TTTATACTTTATT
1 TTAACTTTCTTTATACTTTATT
14309010 TT
1 TT
14309012 TTCAAACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (22 bp):
TTAACTTTCTTTATACTTTATT
Found at i:14309043 original size:35 final size:35
Alignment explanation
Indices: 14308996--14309065 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
14308986 ATTTTAACTT
14308996 TTTTATACTTTATTTTTTCAAACCAAAGTTTATAA
1 TTTTATACTTTATTTTTTCAAACCAAAGTTTATAA
*
14309031 TTTTATATTTTATTTTTTCAAACCAAAGTTTATAA
1 TTTTATACTTTATTTTTTCAAACCAAAGTTTATAA
14309066 GTATTTCAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (35 bp):
TTTTATACTTTATTTTTTCAAACCAAAGTTTATAA
Found at i:14314678 original size:7 final size:7
Alignment explanation
Indices: 14314666--14314694 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
14314656 ATATTTGGAC
14314666 GTGCATG
1 GTGCATG
14314673 GTGCATG
1 GTGCATG
14314680 GTGCATG
1 GTGCATG
14314687 GTGCATG
1 GTGCATG
14314694 G
1 G
14314695 GAGGAGCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.45, T:0.28
Consensus pattern (7 bp):
GTGCATG
Found at i:14318435 original size:20 final size:18
Alignment explanation
Indices: 14318410--14318457 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
14318400 ATTTATTATC
14318410 ATTTGTTTATATGATTGAA
1 ATTTGTTTATAT-ATTGAA
*
14318429 TATTTGTTTA-ATATTTAA
1 -ATTTGTTTATATATTGAA
14318447 ATTT-TTTATAT
1 ATTTGTTTATAT
14318458 TGGTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 6 0.23
18 5 0.19
19 2 0.08
20 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (18 bp):
ATTTGTTTATATATTGAA
Found at i:14318505 original size:17 final size:17
Alignment explanation
Indices: 14318485--14318519 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14318475 TTGGGGCTTA
14318485 ATTTATTATTTAT-TTAT
1 ATTTA-TATTTATATTAT
14318502 ATTTATATTTATATTAT
1 ATTTATATTTATATTAT
14318519 A
1 A
14318520 AATGGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATATTTATATTAT
Found at i:14318618 original size:20 final size:19
Alignment explanation
Indices: 14318580--14318618 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14318570 TAATTTAATT
* *
14318580 TTTATGAAATTATTTTTTA
1 TTTATAAAATTATTATTTA
14318599 TTTATAAAATTTATTATTTA
1 TTTATAAAA-TTATTATTTA
14318619 ATTAAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTATTATTTA
Found at i:14319049 original size:8 final size:8
Alignment explanation
Indices: 14319036--14319064 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14319026 TGAGTTAATT
14319036 TATATTTA
1 TATATTTA
14319044 TATATTTA
1 TATATTTA
14319052 TATATTTA
1 TATATTTA
14319060 -ATATT
1 TATATT
14319065 ATCTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTTA
Found at i:14319204 original size:164 final size:164
Alignment explanation
Indices: 14319015--14319348 Score: 659
Period size: 164 Copynumber: 2.0 Consensus size: 164
14319005 CAAAATAATT
14319015 TTTTATGCACTTGAGTTAATTTATATTTATATATTTATATATTTAATATTATCTATATTAGTTGC
1 TTTTATGCACTTGAGTTAATTTATATTTATATATTTATATATTTAATATTATCTATATTAGTTGC
14319080 TCCACTTAACATAAATCTTAAATCCATCCTTGAGAATTACATTAAGGTTTTTTAAGGTAAAAATG
66 TCCACTTAACATAAATCTTAAATCCATCCTTGAGAATTACATTAAGGTTTTTTAAGGTAAAAATG
14319145 AATCTAAATTTTTTGTTTAAGTACTAATTTCATC
131 AATCTAAATTTTTTGTTTAAGTACTAATTTCATC
14319179 TTTTATGCACTTGAGTTAATTTATATTTATATATTTATATATTTAATATTATCTATATTAGTTGC
1 TTTTATGCACTTGAGTTAATTTATATTTATATATTTATATATTTAATATTATCTATATTAGTTGC
*
14319244 TCCACTTAACATAAATCTTGAATCCATCCTTGAGAATTACATTAAGGTTTTTTAAGGTAAAAATG
66 TCCACTTAACATAAATCTTAAATCCATCCTTGAGAATTACATTAAGGTTTTTTAAGGTAAAAATG
14319309 AATCTAAATTTTTTGTTTAAGTACTAATTTCATC
131 AATCTAAATTTTTTGTTTAAGTACTAATTTCATC
14319343 TTTTAT
1 TTTTAT
14319349 ATTATATTTT
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 169 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (164 bp):
TTTTATGCACTTGAGTTAATTTATATTTATATATTTATATATTTAATATTATCTATATTAGTTGC
TCCACTTAACATAAATCTTAAATCCATCCTTGAGAATTACATTAAGGTTTTTTAAGGTAAAAATG
AATCTAAATTTTTTGTTTAAGTACTAATTTCATC
Found at i:14319213 original size:8 final size:8
Alignment explanation
Indices: 14319200--14319228 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14319190 TGAGTTAATT
14319200 TATATTTA
1 TATATTTA
14319208 TATATTTA
1 TATATTTA
14319216 TATATTTA
1 TATATTTA
14319224 -ATATT
1 TATATT
14319229 ATCTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTTA
Found at i:14322425 original size:86 final size:84
Alignment explanation
Indices: 14322333--14322632 Score: 341
Period size: 86 Copynumber: 3.5 Consensus size: 84
14322323 GATTGAGCTG
* *
14322333 AAGAAAGATTTAACATAAGTCGAAATTCGAAAAA-AAAATGACCTAGATTGAACCGAAGTTTGAA
1 AAGAAAGATTTAACATAAGTC-AAAATCCAAAAACAAAATGACCTAGATTGAACCGAAGTTT-AA
* *
14322397 ATGAATAACTTGGACTAAGCC
64 ATGAATAACCTAGACTAAGCC
* * * * *
14322418 AATGAAAGATTTGACATAAGTCAAAATCCAAAAACAAAACGACCTGGATTCAACTGAAGTTTAAA
1 AA-GAAAGATTTAACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCGAAGTTTAAA
* *
14322483 GTGAATACCCTAGACTGAGCC
65 -TGAATAACCTAGACTAAGCC
* * * *
14322504 AAAGAAGGATTTAACATAAGTCAAAATCCAAAAACAAAATGACCTACATTGAATCGAAGTCTAAA
1 -AAGAAAGATTTAACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCGAAGT-TTAA
*
14322569 ATGAATATCCTAGACTAAGCC
64 ATGAATAACCTAGACTAAGCC
* * * * *
14322590 AAGGAAGGATTTGACATAAGTCGAAATCCGAAAATAAAATGAC
1 AA-GAAAGATTTAACATAAGTCAAAATCCAAAAACAAAATGAC
14322633 TTGGATTAAA
Statistics
Matches: 183, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
85 17 0.09
86 160 0.87
87 6 0.03
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (84 bp):
AAGAAAGATTTAACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCGAAGTTTAAAT
GAATAACCTAGACTAAGCC
Found at i:14322861 original size:17 final size:17
Alignment explanation
Indices: 14322839--14322871 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14322829 TTAAAAATTC
*
14322839 ACAAGAATTTTAGATTT
1 ACAAGAATTTGAGATTT
14322856 ACAAGAATTTGAGATT
1 ACAAGAATTTGAGATT
14322872 CGCAAGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (17 bp):
ACAAGAATTTGAGATTT
Found at i:14322878 original size:34 final size:34
Alignment explanation
Indices: 14322835--14323014 Score: 113
Period size: 34 Copynumber: 5.3 Consensus size: 34
14322825 ATTTTTAAAA
* * *
14322835 ATTCACAAGAATTTTAGATTTACAAGAATTTGAG
1 ATTCGCAAGAATTTTAGATTTGCAAGAATTAGAG
* * * *
14322869 ATTCGCAAG-ATATTCGAATTCGCAAGAACTAGAG
1 ATTCGCAAGAATTTTAG-ATTTGCAAGAATTAGAG
** * *
14322903 ATTCATAA-AATTTTCAAATTTGCAAGAATTGGAG
1 ATTCGCAAGAATTTT-AGATTTGCAAGAATTAGAG
* * *
14322937 ATTCGTAAGACA-TTCAGA-TTCCTAAGAATTAGA-
1 ATTCGCAAGA-ATTTTAGATTTGC-AAGAATTAGAG
*
14322970 AGTTCGCAAG-ATATTTAGATTCGCAAGAATT-GAAG
1 A-TTCGCAAGAAT-TTTAGATTTGCAAGAATTAG-AG
14323005 ATTCGCAAGA
1 ATTCGCAAGA
14323015 CATTCAGATA
Statistics
Matches: 109, Mismatches: 24, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
32 1 0.01
33 10 0.09
34 91 0.83
35 6 0.06
36 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (34 bp):
ATTCGCAAGAATTTTAGATTTGCAAGAATTAGAG
Found at i:14323150 original size:51 final size:51
Alignment explanation
Indices: 14323056--14323167 Score: 120
Period size: 51 Copynumber: 2.2 Consensus size: 51
14323046 AGATATTCAA
* *
14323056 ATTCGCAAGAATTGGAGATTCGCAAGACATTCAAATTTGTAAGA-TTTTCAG
1 ATTCACAAGAATTGGAGATTCGCAAGACATTCAAATTTGTAAGACATTT-AG
* * ** * *
14323107 ATTTACAAGAATTGGAGATTCGTAAGATTTTTAGATTCT-TAAGACATTTAG
1 ATTCACAAGAATTGGAGATTCGCAAGACATTCAAATT-TGTAAGACATTTAG
14323158 ATTCACAAGA
1 ATTCACAAGA
14323168 GTTAGAGGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
51 46 0.92
52 4 0.08
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (51 bp):
ATTCACAAGAATTGGAGATTCGCAAGACATTCAAATTTGTAAGACATTTAG
Found at i:14323253 original size:68 final size:68
Alignment explanation
Indices: 14322835--14323264 Score: 339
Period size: 68 Copynumber: 6.3 Consensus size: 68
14322825 ATTTTTAAAA
* ** * * * *
14322835 ATTCACAAGA-ATTTTAGATTTACAAGAATTTGAGATTCGCAAGATATTC-GAATTCGCAAGAAC
1 ATTCACAAGATA-TTCAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAG-ATTCGTAAGAAT
14322898 TAGAG
64 TAGAG
* * * * * * *
14322903 ATTCATAAAATTTTCAAATTTGCAAGAATTGGAGATTCGTAAGACATTCAGATTCCTAAGAATTA
1 ATTCACAAGATATTCAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAGATTCGTAAGAATTA
14322968 GA-
66 GAG
* * * * *
14322970 AGTTCGCAAGATATTTAGATTCGCAAGAATTGAAGATTCGCAAGACATTCAGATACGTAAAAATT
1 A-TTCACAAGATATTCAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAGATTCGTAAGAATT
14323035 -GAAG
65 AG-AG
* ** * * * * *
14323039 GTTTGCAAGATATTCAAATTCGCAAGAATTGGAGATTCGCAAGACATTCAAATTTGTAAGATTTT
1 ATTCACAAGATATTCAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAGATTCGTAAGAATTA
*
14323104 CAG
66 GAG
* * * * ** ** * ** *
14323107 ATTTACAAGA-ATTGGAGATTCGTAAGATTTTTAGATTCTTAAGACATTTAGATTCACAAGAGTT
1 ATTCACAAGATATT-CAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAGATTCGTAAGAATT
14323171 AGAG
65 AGAG
* ** * *
14323175 GTAAACAAGATATTCAGATTTGCAAGAATTGGAGATTCGCAAGGCATTCAGATTCGTAAGAATTA
1 ATTCACAAGATATTCAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAGATTCGTAAGAATTA
14323240 GAG
66 GAG
** * *
14323243 ATTCGTAAGATTTTTAGATTCG
1 ATTCACAAGATATTCAGATTCG
14323265 TAAGGCTTTC
Statistics
Matches: 277, Mismatches: 77, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
67 5 0.02
68 268 0.97
69 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (68 bp):
ATTCACAAGATATTCAGATTCGCAAGAATTGGAGATTCGCAAGACATTCAGATTCGTAAGAATTA
GAG
Found at i:14323265 original size:17 final size:17
Alignment explanation
Indices: 14323221--14323289 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
14323211 TCGCAAGGCA
14323221 TTCAGATTCGTAAGAAT
1 TTCAGATTCGTAAGAAT
** *
14323238 TAGAGATTCGTAAGATT
1 TTCAGATTCGTAAGAAT
* **
14323255 TTTAGATTCGTAAGGCT
1 TTCAGATTCGTAAGAAT
*
14323272 TTCAGATTCGTAAAAAT
1 TTCAGATTCGTAAGAAT
14323289 T
1 T
14323290 GAAGATTCAC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (17 bp):
TTCAGATTCGTAAGAAT
Found at i:14323268 original size:34 final size:34
Alignment explanation
Indices: 14322857--14323252 Score: 246
Period size: 34 Copynumber: 11.6 Consensus size: 34
14322847 TTTAGATTTA
* *
14322857 CAAGAATTTGAGATTCGCAAGATATTC-GAATTCG
1 CAAGAATTAGAGATTCGCAAGACATTCAG-ATTCG
* ** * ** * *
14322891 CAAGAACTAGAGATTCATAAAATTTTCAAATTTG
1 CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
* *
14322925 CAAGAATTGGAGATTCGTAAGACATTCAGATTC-
1 CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
* *
14322958 CTAAGAATTAGA-AGTTCGCAAGATATTTAGATTCG
1 C-AAGAATTAGAGA-TTCGCAAGACATTCAGATTCG
*
14322993 CAAGAATT-GAAGATTCGCAAGACATTCAGATACG
1 CAAGAATTAG-AGATTCGCAAGACATTCAGATTCG
* * * * * *
14323027 TAAAAATT-GAAGGTTTGCAAGATATTCAAATTCG
1 CAAGAATTAG-AGATTCGCAAGACATTCAGATTCG
* * *
14323061 CAAGAATTGGAGATTCGCAAGACATTCAAATTTG
1 CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
* * ** ** *
14323095 TAAGATTTTCAGATTTACAAGA-ATTGGAGATTCG
1 CAAGAATTAGAGATTCGCAAGACATT-CAGATTCG
* * ** ** * *
14323129 TAAGATTTTTAGATTCTTAAGACATTTAGATTCA
1 CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
* * *** * *
14323163 CAAGAGTTAGAGGTAAACAAGATATTCAGATTTG
1 CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
* *
14323197 CAAGAATTGGAGATTCGCAAGGCATTCAGATTCG
1 CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
* *
14323231 TAAGAATTAGAGATTCGTAAGA
1 CAAGAATTAGAGATTCGCAAGA
14323253 TTTTTAGATT
Statistics
Matches: 276, Mismatches: 77, Indels: 18
0.74 0.21 0.05
Matches are distributed among these distances:
33 6 0.02
34 264 0.96
35 6 0.02
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (34 bp):
CAAGAATTAGAGATTCGCAAGACATTCAGATTCG
Found at i:14323313 original size:51 final size:51
Alignment explanation
Indices: 14323207--14323317 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
14323197 CAAGAATTGG
* ** *
14323207 AGATTCGCAAGGCATTCAGATTCGTAAGAATTAGAGATTCGTAAGATTTTT
1 AGATTCGCAAGGCATTCAGATTCGTAAAAATTAGAGATTCCAAAGATTTTC
* *
14323258 AGATTCGTAAGGCTTTCAGATTCGTAAAAATT-GAAGATTCACAAAG-TTTTC
1 AGATTCGCAAGGCATTCAGATTCGTAAAAATTAG-AGATTC-CAAAGATTTTC
14323309 AGATTCGCA
1 AGATTCGCA
14323318 TTCTAGAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 47 0.92
52 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (51 bp):
AGATTCGCAAGGCATTCAGATTCGTAAAAATTAGAGATTCCAAAGATTTTC
Found at i:14323375 original size:21 final size:22
Alignment explanation
Indices: 14323350--14323405 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
14323340 TTTCAAACGT
14323350 TTTCATTCAAAAATTTTAGA-A
1 TTTCATTCAAAAATTTTAGAGA
* *
14323371 TTTCA-TCCAAAATTTTTGAGA
1 TTTCATTCAAAAATTTTAGAGA
*
14323392 TTCTGATTCAAAAA
1 TT-TCATTCAAAAA
14323406 CTCTAGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 12 0.43
21 8 0.29
22 2 0.07
23 6 0.21
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (22 bp):
TTTCATTCAAAAATTTTAGAGA
Found at i:14324574 original size:128 final size:127
Alignment explanation
Indices: 14324381--14324630 Score: 376
Period size: 128 Copynumber: 2.0 Consensus size: 127
14324371 TTTACCTTAA
* * *
14324381 TTTCAAAGGATCTTCAGATAATATTGATCTTCATATATTAAGCTGTTATTCTGGTTTTCAGTTTA
1 TTTCAAAGGATCTTCAAATAACATTGATCTTCATATATTAAGCTGTTATTCTAGTTTTCAGTTTA
* *
14324446 GATGTCTTTCTACCCAAATTGCCCTTTCGGGTTTTCAATTTGAG-TTTTCCTTTTTCTCCCG
66 GATGTCTTTCTACCCAAATTACCCTTTCGGGTTATCAATTTGAGTTTTTCCTTTTTCTCCCG
* *
14324507 TTTCAAAGGATCTTCAAATAACATTGATCTTTCCATATATTGAGTTGTTATTCTAGTTTTCAGTT
1 TTTCAAAGGATCTTCAAATAACATTGATC-TT-CATATATTAAGCTGTTATTCTAGTTTTCAGTT
* * * *
14324572 TAGATGTCTTTTTACCCAAATTATCCTTTTGGGTTATCAATTTGAGTTTTTTCTTTTTC
64 TAGATGTCTTTCTACCCAAATTACCCTTTCGGGTTATCAATTTGAGTTTTTCCTTTTTC
14324631 CACTATTTTT
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
126 27 0.25
127 2 0.02
128 70 0.64
129 11 0.10
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (127 bp):
TTTCAAAGGATCTTCAAATAACATTGATCTTCATATATTAAGCTGTTATTCTAGTTTTCAGTTTA
GATGTCTTTCTACCCAAATTACCCTTTCGGGTTATCAATTTGAGTTTTTCCTTTTTCTCCCG
Found at i:14324645 original size:24 final size:23
Alignment explanation
Indices: 14324618--14324702 Score: 66
Period size: 23 Copynumber: 3.5 Consensus size: 23
14324608 TCAATTTGAG
*
14324618 TTTTTTCTTTTTCCACTATTTTTA
1 TTTTTTCTTTTTCCA-TTTTTTTA
14324642 -TTTTTCATTTTT-CATTTTTCTTA
1 TTTTTTC-TTTTTCCATTTTT-TTA
* * *
14324665 TTCTTTCATTTTCTCATTTTCTTTTT
1 TTTTTTCTTTTTC-CA-TTT-TTTTA
14324691 TTTTTTCTTTTT
1 TTTTTTCTTTTT
14324703 TTCCTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
22 4 0.08
23 15 0.31
24 10 0.21
25 2 0.04
26 15 0.31
27 2 0.04
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTCTTTTTCCATTTTTTTA
Found at i:14324646 original size:7 final size:7
Alignment explanation
Indices: 14324635--14324684 Score: 57
Period size: 7 Copynumber: 6.7 Consensus size: 7
14324625 TTTTTCCACT
14324635 ATTTTT-
1 ATTTTTC
14324641 ATTTTTC
1 ATTTTTC
14324648 ATTTTTC
1 ATTTTTC
14324655 ATTTTTC
1 ATTTTTC
14324662 TTATTCTTTC
1 --ATT-TTTC
14324672 ATTTTCTC
1 ATTTT-TC
14324680 ATTTT
1 ATTTT
14324685 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.15
7 16 0.41
8 10 0.26
9 3 0.08
10 4 0.10
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTC
Found at i:14324698 original size:20 final size:21
Alignment explanation
Indices: 14324673--14324715 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
14324663 TATTCTTTCA
14324673 TTTTCTCATTTT-CTTTTTTT
1 TTTTCTCATTTTCCTTTTTTT
**
14324693 TTTTCTTTTTTTCCTTTTTTT
1 TTTTCTCATTTTCCTTTTTTT
14324714 TT
1 TT
14324716 CACCCATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTCTCATTTTCCTTTTTTT
Found at i:14328648 original size:60 final size:59
Alignment explanation
Indices: 14328562--14328865 Score: 339
Period size: 60 Copynumber: 5.1 Consensus size: 59
14328552 TTTTTTGAAA
* * *
14328562 TTTCAAGGAAATTTGATATTTTCAACTTTTCCTTAAAATATTTTTTCTTGAAATTTTTAT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTT-TTGAAATTTTTAT
* * * *
14328622 TTTTAAGAAAAATTGATACTTTCAAC-TTTCCTTAAAGCAT-TTTTCTTTTAAAACTTTTGT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAA--ATATTTT-TTTTGAAATTTTTAT
* *
14328682 TTTCAAGAAAAATTGATACTTTTAATTTTTTCCTTAAAAATACTTTGTTTTTGAAATTTTTAT
1 TTTCAAGAAAAATTGATACTTTCAA-CTTTTCCTT-AAAATA-TTT-TTTTTGAAATTTTTAT
* * *
14328745 TTTCAAGAAAAATTGATACTTTCAACTTTTCC-TAAAAAATGTCTTTTTGAAAATTTTAT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATAT-TTTTTTTGAAATTTTTAT
***
14328804 TTTCAA-AGAAAATTGATACTTTCAACTTTTCCTTAAAA-ATAACTTTTGAAATTTTTACT
1 TTTCAAGA-AAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTGAAATTTTTA-T
14328863 TTT
1 TTT
14328866 ATTTTTTTTG
Statistics
Matches: 209, Mismatches: 22, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
58 14 0.07
59 62 0.30
60 70 0.33
61 7 0.03
62 13 0.06
63 42 0.20
64 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTGAAATTTTTAT
Found at i:14328813 original size:123 final size:121
Alignment explanation
Indices: 14328562--14328850 Score: 374
Period size: 123 Copynumber: 2.4 Consensus size: 121
14328552 TTTTTTGAAA
* *
14328562 TTTCAAGGAAATTTGATATTTTCAACTTTTCCTT-AAAATA-TTTTTTCTTGAAATTTTTATTTT
1 TTTCAA-GAAAATTGATACTTTCAACTTTTCCTTAAAAATACTTTTTTCTTGAAATTTTTATTTT
* ** * * *
14328625 TAAGAAAAATTGATACTTTCAACTTTCCTTAAAGCATTTTTCTTTTAAAACTTTTGT
65 CAAGAAAAATTGATACTTTCAACTTTCCTTAAAAAATTCTTCTTTGAAAACTTTTAT
* *
14328682 TTTCAAGAAAAATTGATACTTTTAATTTTTTCCTTAAAAATACTTTGTTT-TTGAAATTTTTATT
1 TTTCAAG-AAAATTGATACTTTCAA-CTTTTCCTTAAAAATACTTT-TTTCTTGAAATTTTTATT
14328746 TTCAAGAAAAATTGATACTTTCAACTTTTCC-TAAAAAATGTCTT-TTTGAAAA-TTTTAT
63 TTCAAGAAAAATTGATACTTTCAAC-TTTCCTTAAAAAAT-TCTTCTTTGAAAACTTTTAT
14328804 TTTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATAACTTTT
1 TTTC-AAGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-ACTTTT
14328851 GAAATTTTTA
Statistics
Matches: 148, Mismatches: 12, Indels: 17
0.84 0.07 0.10
Matches are distributed among these distances:
119 1 0.01
120 20 0.14
121 23 0.16
122 36 0.24
123 57 0.39
124 11 0.07
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.48
Consensus pattern (121 bp):
TTTCAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATACTTTTTTCTTGAAATTTTTATTTTC
AAGAAAAATTGATACTTTCAACTTTCCTTAAAAAATTCTTCTTTGAAAACTTTTAT
Found at i:14328843 original size:59 final size:58
Alignment explanation
Indices: 14328562--14328865 Score: 317
Period size: 59 Copynumber: 5.1 Consensus size: 58
14328552 TTTTTTGAAA
* * * *
14328562 TTTCAAGGAAATTTGATATTTTCAACTTTTCCTTAAAATATTTTTTCTTGAAATTTTTAT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAA-ATTCTTT-TTGAAATTTTTAT
* * * * * *
14328622 TTTTAAGAAAAATTGATACTTTCAAC-TTTCCTTAAAGCATTTTTCTTTTAAAACTTTTGT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAA--AATTCT-TTTTGAAATTTTTAT
* * *
14328682 TTTCAAGAAAAATTGATACTTTTAATTTTTTCCTTAAAAATACTTTGTTTTTGAAATTTTTAT
1 TTTCAAGAAAAATTGATACTTTCAA-CTTTTCCTT-AAAA-A--TTCTTTTTGAAATTTTTAT
* *
14328745 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATGTCTTTTTGAAAATTTTAT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TCTTTTTGAAATTTTTAT
*
14328804 TTTCAA-AGAAAATTGATACTTTCAACTTTTCCTTAAAAATAAC-TTTTGAAATTTTTACT
1 TTTCAAGA-AAAATTGATACTTTCAACTTTTCCTTAAAAAT-TCTTTTTGAAATTTTTA-T
14328863 TTT
1 TTT
14328866 ATTTTTTTTG
Statistics
Matches: 207, Mismatches: 25, Indels: 25
0.81 0.10 0.10
Matches are distributed among these distances:
58 15 0.07
59 68 0.33
60 60 0.29
61 8 0.04
62 14 0.07
63 39 0.19
64 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (58 bp):
TTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTCTTTTTGAAATTTTTAT
Found at i:14330592 original size:37 final size:39
Alignment explanation
Indices: 14330483--14330610 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 39
14330473 AAAAATAATG
*
14330483 TTTCTAAGATAAAAAAATACAGTATTTATTAAAAAGATGGCA
1 TTTCTAAGAT-AAAAAATA-A-TATTTATTAAAAAGATGACA
* *
14330525 TTTCTAAGATAAAAAAGT--T-TTTATTGAAAAGATGATA
1 TTTCTAAGATAAAAAA-TAATATTTATTAAAAAGATGACA
*
14330562 TTTCTAATATAAAAAATAATATTT-TT--AAA-A-GACA
1 TTTCTAAGATAAAAAATAATATTTATTAAAAAGATGACA
*
14330596 TTTCTAAAATAAAAA
1 TTTCTAAGATAAAAA
14330611 TGCAACTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
34 17 0.22
35 1 0.01
36 4 0.05
37 30 0.39
38 4 0.05
39 3 0.04
41 6 0.08
42 11 0.14
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (39 bp):
TTTCTAAGATAAAAAATAATATTTATTAAAAAGATGACA
Found at i:14330652 original size:18 final size:18
Alignment explanation
Indices: 14330605--14330646 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
14330595 ATTTCTAAAA
14330605 TAAAAATGCAA-CTTTTGT
1 TAAAAATGCAATC-TTTGT
14330623 TAAAAATGCAATCTTTGT
1 TAAAAATGCAATCTTTGT
14330641 TGAAAA
1 T-AAAA
14330647 GACAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (18 bp):
TAAAAATGCAATCTTTGT
Found at i:14330681 original size:40 final size:40
Alignment explanation
Indices: 14330623--14330726 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
14330613 CAACTTTTGT
* * * *
14330623 TAAAAATGCAATCTTTGTTGAAAAGACAATATTTCTTAGG
1 TAAAAATGTAATCTTTGTTGAAAAGACAACATTTCTAAGA
* * *
14330663 TACAAATGTAGTCTTTGTTGAAAAGACGACATTTCTAAGA
1 TAAAAATGTAATCTTTGTTGAAAAGACAACATTTCTAAGA
* *
14330703 TAAAAATGTAATTTTTATTGAAAA
1 TAAAAATGTAATCTTTGTTGAAAA
14330727 CATGAAAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (40 bp):
TAAAAATGTAATCTTTGTTGAAAAGACAACATTTCTAAGA
Found at i:14330824 original size:73 final size:73
Alignment explanation
Indices: 14330683--14330816 Score: 166
Period size: 73 Copynumber: 1.9 Consensus size: 73
14330673 GTCTTTGTTG
* * * * *
14330683 AAAAGACGACATTTCTAAGATAAAAATGTAATTTTTATTGAAAACATGAAAAATATATATTTTAA
1 AAAAGACGACACTTATAAGATAAAAATATAATCTTTATTAAAAACATGAAAAATATATATTTTAA
14330748 AATTGAAT
66 AATTGAAT
* * *
14330756 AAAA-ACGACACTTATAAGATAGAAAATATAGTCTTTGTTAAAAATATGAAAAA-AT-TATTTT
1 AAAAGACGACACTTATAAGATA-AAAATATAATCTTTATTAAAAACATGAAAAATATATATTTT
14330817 TCAAAATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
71 6 0.12
72 17 0.33
73 29 0.56
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.34
Consensus pattern (73 bp):
AAAAGACGACACTTATAAGATAAAAATATAATCTTTATTAAAAACATGAAAAATATATATTTTAA
AATTGAAT
Found at i:14331615 original size:62 final size:63
Alignment explanation
Indices: 14331511--14331653 Score: 202
Period size: 62 Copynumber: 2.3 Consensus size: 63
14331501 AAATTGTAGA
* * *
14331511 GGATTATTAAAGGTGTTTTTGGTCAAAAAATGCATTTAATAATCCC-CTTCATTTTTTATGAGG
1 GGATTATTGAAGGTGTTTTTGGTCAAAAAATACATTTAATAATCCCTCTTAATTTTTTATGA-G
*
14331574 GGATTATTGAAGGTG-TTTTGTGT-AAAAAATACATTTAATAATCCCTTTTAATTTTTTATGAG
1 GGATTATTGAAGGTGTTTTTG-GTCAAAAAATACATTTAATAATCCCTCTTAATTTTTTATGAG
*
14331636 GGATTATTGAAAGTGTTT
1 GGATTATTGAAGGTGTTT
14331654 CAGGCAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
62 41 0.57
63 31 0.43
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (63 bp):
GGATTATTGAAGGTGTTTTTGGTCAAAAAATACATTTAATAATCCCTCTTAATTTTTTATGAG
Found at i:14331789 original size:63 final size:61
Alignment explanation
Indices: 14331699--14331906 Score: 185
Period size: 62 Copynumber: 3.3 Consensus size: 61
14331689 AAATAGAAGC
14331699 GATTATTGAA--TATGTTTTTTG-TAAAAAAATGCCTTCAATAATTTCACTAAAAAATTGTAGAG
1 GATTATTGAAGGTAT-TTTTTTGCT-AAAAAA-GCCTTCAATAATTTC-CTAAAAAATTGTAGAG
* * * *
14331761 GATTATTGAAGGTATTTTTTTGCTAAAAACA-CCTTTAATAAATTCCCCAAAAAAGTTGTAAAG
1 GATTATTGAAGGTATTTTTTTGCTAAAAA-AGCCTTCAAT-AATTTCCTAAAAAA-TTGTAGAG
* * * * * *
14331824 GATTATTAAAGGCA-TTTTTTACTAAAAACGCCTTCAATAATCTCCTTTAAAAAATTAGAAG-G
1 GATTATTGAAGGTATTTTTTTGCTAAAAAAGCCTTCAATAATTTCC--TAAAAAATT-GTAGAG
*
14331886 GATTATTGAAGGTTTTTTTTT
1 GATTATTGAAGGTATTTTTTT
14331907 TTTTTTTTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
61 5 0.04
62 58 0.49
63 50 0.42
64 5 0.04
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (61 bp):
GATTATTGAAGGTATTTTTTTGCTAAAAAAGCCTTCAATAATTTCCTAAAAAATTGTAGAG
Found at i:14331977 original size:73 final size:73
Alignment explanation
Indices: 14331838--14331977 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 73
14331828 ATTAAAGGCA
* * * * **
14331838 TTTTTTACTAAAAACGCCTTCAATAATCTCCTTTAAAAAATTAGAAGGGATTATTGAAGGTTTTT
1 TTTTTTACAAAAAACACCTTCAATAATCGCCTTAAAAAAATTAGAAGGGATTATTGAAGGCCTTT
14331903 TTTTTTTT
66 TTTTTTTT
* *
14331911 TTTTTTGCAAAAAACACCTTTAATAATCGCCTTAAAAAAATTA-AAGGGGATTATTGAAGGCCTT
1 TTTTTTACAAAAAACACCTTCAATAATCGCCTTAAAAAAATTAGAA-GGGATTATTGAAGGCCTT
14331975 TTT
65 TTT
14331978 GGCCAAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 2 0.03
73 56 0.97
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (73 bp):
TTTTTTACAAAAAACACCTTCAATAATCGCCTTAAAAAAATTAGAAGGGATTATTGAAGGCCTTT
TTTTTTTT
Found at i:14332021 original size:135 final size:136
Alignment explanation
Indices: 14331775--14332041 Score: 296
Period size: 135 Copynumber: 2.0 Consensus size: 136
14331765 ATTGAAGGTA
* *
14331775 TTTTTTTGCTAAAAACACCTTTAATAAATTCCCCAAAAAAGTTGTAAAGGATTATTAAAGGCATT
1 TTTTTTTGCAAAAAACACCTTTAATAAATTCCCCAAAAAAGATGTAAAGGATTATTAAAGGCATT
* * * * *
14331840 TTTTACTAAAAACGCCTTCAATAATCTCCTTTAAAAAATTAGAA-GGGATTATTGAAGGTTTTTT
66 TTTGACAAAAAACACCTTCAATAATCTCCTTTAAAAAATTAGAAGGGGATTATTGAAGATGTTTT
14331904 TTTTTT
131 TTTTTT
* *
14331910 TTTTTTTGCAAAAAACACCTTTAAT-AA-TCGCCTTAAAAAA-AT-TAAAGGGGATTATTGAAGG
1 TTTTTTTGCAAAAAACACCTTTAATAAATTC-CC-CAAAAAAGATGTAAA--GGATTATTAAAGG
* * * * * *
14331971 CCTTTTTGGCCAAAAAACACTTTCAATAATCTTC-TTATCAAAATT-TAAGGGGATTATTGAAGA
62 CATTTTT-GACAAAAAACACCTTCAATAATCTCCTTTA-AAAAATTAGAAGGGGATTATTGAAGA
14332034 TGTTTTTT
125 TGTTTTTT
14332042 GCTTGAAATG
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
133 6 0.05
134 5 0.05
135 53 0.48
136 46 0.42
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (136 bp):
TTTTTTTGCAAAAAACACCTTTAATAAATTCCCCAAAAAAGATGTAAAGGATTATTAAAGGCATT
TTTGACAAAAAACACCTTCAATAATCTCCTTTAAAAAATTAGAAGGGGATTATTGAAGATGTTTT
TTTTTT
Found at i:14334924 original size:34 final size:35
Alignment explanation
Indices: 14334881--14334958 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 35
14334871 GGTATCTCAA
* *
14334881 AGATACAAACGCCACTAA-TATAGCGACGTTTTTC
1 AGATACAAACACCACTAATTATAGCGACATTTTTC
* * *
14334915 AGATGCAAACACCGCTAATTATAGCGGCATTTTTC
1 AGATACAAACACCACTAATTATAGCGACATTTTTC
*
14334950 ATATACAAA
1 AGATACAAA
14334959 TGCTAATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 15 0.42
35 21 0.58
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (35 bp):
AGATACAAACACCACTAATTATAGCGACATTTTTC
Found at i:14342842 original size:20 final size:21
Alignment explanation
Indices: 14342812--14342856 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
14342802 TTAATGATAT
14342812 TTAATTTAATTATATAATTAA
1 TTAATTTAATTATATAATTAA
* *
14342833 TTAA-TTAATTTTATGATTAA
1 TTAATTTAATTATATAATTAA
14342853 TTAA
1 TTAA
14342857 ATATATCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAATTTAATTATATAATTAA
Found at i:14345342 original size:3 final size:3
Alignment explanation
Indices: 14345336--14345366 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14345326 ATCATCATTG
*
14345336 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14345367 GCATAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14358418 original size:17 final size:16
Alignment explanation
Indices: 14358398--14358433 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14358388 ATAAATAAGT
14358398 AAAAATAATAAAATAG
1 AAAAATAATAAAATAG
* *
14358414 AAAAATCATTAAATAG
1 AAAAATAATAAAATAG
14358430 AAAA
1 AAAA
14358434 CCAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATAATAAAATAG
Found at i:14360179 original size:3 final size:3
Alignment explanation
Indices: 14360171--14360212 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14360161 GTAAATAGTG
14360171 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14360213 TAAAAAGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14360560 original size:19 final size:19
Alignment explanation
Indices: 14360515--14360562 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
14360505 ATTATAATAG
* **
14360515 AAACCCAAAACCCTAAGTG
1 AAACCCTAAACCCTAAGCA
* *
14360534 AGATCCTAAACCCTAAGCA
1 AAACCCTAAACCCTAAGCA
14360553 AAACCCTAAA
1 AAACCCTAAA
14360563 ATTGAAACCT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.31, G:0.08, T:0.12
Consensus pattern (19 bp):
AAACCCTAAACCCTAAGCA
Found at i:14361229 original size:23 final size:25
Alignment explanation
Indices: 14361198--14361244 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
14361188 TCATCAATAA
14361198 TTATCATTTATAAA-GAA-ATTATT
1 TTATCATTTATAAAGGAATATTATT
* *
14361221 TTATTATTTTTAAAGGAATATTAT
1 TTATCATTTATAAAGGAATATTAT
14361245 GACAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (25 bp):
TTATCATTTATAAAGGAATATTATT
Found at i:14361335 original size:18 final size:19
Alignment explanation
Indices: 14361296--14361331 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14361286 TATGTCGGAG
14361296 AATTTGAAAGTATTTCTTT
1 AATTTGAAAGTATTTCTTT
14361315 AATTT-AAAG-ATTT-TTT
1 AATTTGAAAGTATTTCTTT
14361331 A
1 A
14361332 TAATATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 4 0.24
19 5 0.29
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTTGAAAGTATTTCTTT
Found at i:14361856 original size:14 final size:14
Alignment explanation
Indices: 14361837--14361863 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14361827 TTTTTAAAAG
14361837 AAATTAATAATTAA
1 AAATTAATAATTAA
14361851 AAATTAATAATTA
1 AAATTAATAATTA
14361864 CATGTTAGTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAATAATTAA
Found at i:14366426 original size:21 final size:22
Alignment explanation
Indices: 14366402--14366445 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14366392 TTTGTTTAGT
14366402 TTTCCAGCCTTATTTT-CTTCA
1 TTTCCAGCCTTATTTTGCTTCA
* *
14366423 TTTCTAGCTTTATTTTGCTTCA
1 TTTCCAGCCTTATTTTGCTTCA
14366445 T
1 T
14366446 GTTTGAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.14, C:0.23, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTCCAGCCTTATTTTGCTTCA
Found at i:14366951 original size:13 final size:13
Alignment explanation
Indices: 14366933--14366963 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14366923 TTTTACTTCC
*
14366933 ATTTTGATGTTTG
1 ATTTTGATGTTGG
14366946 ATTTTGATGTTGG
1 ATTTTGATGTTGG
14366959 ATTTT
1 ATTTT
14366964 ATGCATGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (13 bp):
ATTTTGATGTTGG
Found at i:14367480 original size:35 final size:35
Alignment explanation
Indices: 14367434--14367504 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
14367424 TTTAGGTCAC
14367434 ATTTCCATTCAGTAAAATTGCTTACATTGCATTTT
1 ATTTCCATTCAGTAAAATTGCTTACATTGCATTTT
14367469 ATTTCCATTCAGTAAAATTGCTTACATTGCATTTT
1 ATTTCCATTCAGTAAAATTGCTTACATTGCATTTT
14367504 A
1 A
14367505 GCCTCATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (35 bp):
ATTTCCATTCAGTAAAATTGCTTACATTGCATTTT
Found at i:14367994 original size:16 final size:17
Alignment explanation
Indices: 14367969--14368037 Score: 72
Period size: 16 Copynumber: 4.2 Consensus size: 17
14367959 TTTAGTTTAA
14367969 TTTTTA-TTTT-GTAAT
1 TTTTTATTTTTAGTAAT
*
14367984 TTTTTATTTTTAGTAACA
1 TTTTTATTTTTAGTAA-T
* *
14368002 TTTCTATTTTTAGT-AG
1 TTTTTATTTTTAGTAAT
*
14368018 TTGTTATTTTTAGTAAT
1 TTTTTATTTTTAGTAAT
14368035 TTT
1 TTT
14368038 CCCTTTAGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 6 0.14
16 16 0.37
17 8 0.19
18 13 0.30
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTTTATTTTTAGTAAT
Found at i:14368420 original size:20 final size:18
Alignment explanation
Indices: 14368382--14368425 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
14368372 GTAGTCTAGA
*
14368382 ATTTTTGTAAATTTTTTT
1 ATTTTTGTAAATATTTTT
14368400 ATTTTTAGTACAATATTTTT
1 ATTTTT-GTA-AATATTTTT
14368420 ATTTTT
1 ATTTTT
14368426 CCTTTATCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 14 0.61
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTTTGTAAATATTTTT
Found at i:14373510 original size:4 final size:4
Alignment explanation
Indices: 14373501--14373585 Score: 50
Period size: 4 Copynumber: 21.0 Consensus size: 4
14373491 ATTATTTCAC
* * * *
14373501 TTAT TTAT TTAT TTA- TTAG TTAT CTAT TTAT CTAC TTAT TTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * *
14373547 TTTT TGGTAGA TTAT TCAT TTAT TTAT TT-T CTTAT TTAT
1 TTAT T--TA-T TTAT TTAT TTAT TTAT TTAT -TTAT TTAT
14373586 CTTCTATTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
3 7 0.11
4 49 0.80
5 3 0.05
6 1 0.02
7 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:14374469 original size:16 final size:16
Alignment explanation
Indices: 14374448--14374498 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
14374438 AACCAAGCTG
14374448 TTTTTATTT-TTTATAT
1 TTTTTATTTATTT-TAT
14374464 TTTTTATTTATTTTAT
1 TTTTTATTTATTTTAT
*
14374480 TTAGTTATTTATTTTAT
1 TT-TTTATTTATTTTAT
14374497 TT
1 TT
14374499 AGTTATTACC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTATTTATTTTAT
Done.