Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 41 of 218
Found at i:12756576 original size:20 final size:19
Alignment explanation
Indices: 12756523--12756576 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
12756513 ATAAAACAAC
12756523 GAAAAAAATAAACATAAAAA
1 GAAAAAAATAAAC-TAAAAA
12756543 GAAAAAAGA-AAACTAAAAA
1 GAAAAAA-ATAAACTAAAAA
12756562 GAAAACAAATAAACT
1 GAAAA-AAATAAACT
12756577 CAATGATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.39
20 18 0.58
21 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.09
Consensus pattern (19 bp):
GAAAAAAATAAACTAAAAA
Found at i:12757818 original size:18 final size:19
Alignment explanation
Indices: 12757777--12757822 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
12757767 AAGAAATAAA
*
12757777 CATAATAAAAAATAGAAAG
1 CATAATAAAAAATACAAAG
* *
12757796 AATAATAAGAAA-ACAAAG
1 CATAATAAAAAATACAAAG
12757814 CATAATAAA
1 CATAATAAA
12757823 TACAATAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.15
Consensus pattern (19 bp):
CATAATAAAAAATACAAAG
Found at i:12757867 original size:11 final size:13
Alignment explanation
Indices: 12757815--12757865 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
12757805 AAAACAAAGC
12757815 ATAATAAATACAAT
1 ATAATAAATA-AAT
*
12757829 AAGAATAAATAAGA-
1 -ATAATAAATAA-AT
12757843 ATAATAAATAAAT
1 ATAATAAATAAAT
12757856 ATAA-AAATAA
1 ATAATAAATAA
12757866 TAATAAGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 7 0.22
13 14 0.44
14 1 0.03
15 10 0.31
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAATAAATAAAT
Found at i:12765925 original size:16 final size:16
Alignment explanation
Indices: 12765904--12765936 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12765894 TTACCCAAGT
*
12765904 ACAATGAGCAATGAGA
1 ACAATGAACAATGAGA
12765920 ACAATGAACAATGAGA
1 ACAATGAACAATGAGA
12765936 A
1 A
12765937 AAAAAACATT
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:0.55, C:0.12, G:0.21, T:0.12
Consensus pattern (16 bp):
ACAATGAACAATGAGA
Found at i:12767493 original size:29 final size:28
Alignment explanation
Indices: 12767460--12767541 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
12767450 CATTAACATC
*
12767460 AATAAAAGTTATAAATATTATTAAATTTT
1 AATAAAA-TTATAAATATTATTAAAATTT
12767489 AATAAAAAATT-TAAATATTA--AAAATTT
1 AAT--AAAATTATAAATATTATTAAAATTT
*
12767516 AGTAAAATTA-AAATATATATATAAAA
1 AATAAAATTATAAATAT-TAT-TAAAA
12767542 ATCGTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
25 12 0.27
26 2 0.05
27 8 0.18
29 16 0.36
30 2 0.05
31 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
AATAAAATTATAAATATTATTAAAATTT
Found at i:12767556 original size:19 final size:19
Alignment explanation
Indices: 12767534--12767599 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
12767524 TAAAATATAT
12767534 ATATAAAAATCGTAAAAAA
1 ATATAAAAATCGTAAAAAA
* **
12767553 ATATAAAAAATTGTAAAATT
1 ATAT-AAAAATCGTAAAAAA
* *
12767573 TTATAAAGATCGTAAAAAA
1 ATATAAAAATCGTAAAAAA
*
12767592 TTATAAAA
1 ATATAAAA
12767600 TATGTAGAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 22 0.59
20 15 0.41
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (19 bp):
ATATAAAAATCGTAAAAAA
Found at i:12767863 original size:16 final size:16
Alignment explanation
Indices: 12767842--12767872 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12767832 TTTTATAAAA
12767842 TTTTACAATTTTTATT
1 TTTTACAATTTTTATT
12767858 TTTTACAATTTTTAT
1 TTTTACAATTTTTAT
12767873 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTACAATTTTTATT
Found at i:12767888 original size:36 final size:35
Alignment explanation
Indices: 12767821--12767891 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
12767811 AAAAGTTAAT
** **
12767821 TTTTTTATGATTTTTATAAAATTTTACAATTTTTA
1 TTTTTTACAATTTTTATAAAAAATTACAATTTTTA
*
12767856 TTTTTTACAATTTTTATAAAAAAATTATAATTTTTA
1 TTTTTTACAATTTTTAT-AAAAAATTACAATTTTTA
12767892 ATAAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTTTTACAATTTTTATAAAAAATTACAATTTTTA
Found at i:12767912 original size:29 final size:29
Alignment explanation
Indices: 12767880--12767981 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
12767870 TATAAAAAAA
12767880 TTATAATTTTTAATAAATTTAAAA-TTTT
1 TTATAATTTTTAATAAATTTAAAATTTTT
*
12767908 TT-T-ATTTTTATTAAAATTTAATAATTTTT
1 TTATAATTTTTAAT-AAATTTAA-AATTTTT
* *** *
12767937 TTAAAATTTATT-ATTTTTTTATAATTTTT
1 TTATAATTT-TTAATAAATTTAAAATTTTT
* *
12767966 TTCTTATTTTTAATAA
1 TTATAATTTTTAATAA
12767982 GAGCATGGGC
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
26 8 0.15
27 9 0.16
28 6 0.11
29 21 0.38
30 4 0.07
31 5 0.09
32 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TTATAATTTTTAATAAATTTAAAATTTTT
Found at i:12767915 original size:46 final size:46
Alignment explanation
Indices: 12767865--12767958 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 46
12767855 ATTTTTTACA
12767865 ATTTTTATAAAAAAATT-ATAATTTTTA-ATAAATTTAAAATTTTTTT
1 ATTTTTAT-AAAAAATTAATAATTTTTATA-AAATTTAAAATTTTTTT
* * * **
12767911 ATTTTTATTAAAATTTAATAATTTTTTTAAAATTTATTATTTTTTT
1 ATTTTTATAAAAAATTAATAATTTTTATAAAATTTAAAATTTTTTT
12767957 AT
1 AT
12767959 AATTTTTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 6 0.15
46 34 0.83
47 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (46 bp):
ATTTTTATAAAAAATTAATAATTTTTATAAAATTTAAAATTTTTTT
Found at i:12767916 original size:27 final size:28
Alignment explanation
Indices: 12767885--12767939 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
12767875 AAAAATTATA
12767885 ATTTTTAAT-AAATTTAA-AATTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTTT
*
12767911 ATTTTTATTAAAATTTAATAATTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTTT
12767939 A
1 A
12767940 AAATTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 8 0.31
27 8 0.31
28 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTTAATAAAATTTAATAATTTTTTT
Found at i:12767940 original size:19 final size:18
Alignment explanation
Indices: 12767897--12767963 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
12767887 TTTTAATAAA
*
12767897 TTTAAAATTTTTTTATTTT
1 TTTAAAA-TTTATTATTTT
*
12767916 TATTAAAATTTAATAATTTT
1 T-TTAAAATTT-ATTATTTT
12767936 TTTAAAATTTATTATTTT
1 TTTAAAATTTATTATTTT
*
12767954 TTTATAATTT
1 TTTAAAATTT
12767964 TTTTCTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.38
19 13 0.31
20 13 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAAAATTTATTATTTT
Found at i:12767957 original size:11 final size:11
Alignment explanation
Indices: 12767943--12767976 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12767933 TTTTTTAAAA
12767943 TTTATTATTTT
1 TTTATTATTTT
*
12767954 TTTATAATTTT
1 TTTATTATTTT
*
12767965 TTTCTTATTTT
1 TTTATTATTTT
12767976 T
1 T
12767977 AATAAGAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:12768084 original size:87 final size:89
Alignment explanation
Indices: 12767983--12768162 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 89
12767973 TTTTAATAAG
* * * *
12767983 AGCATGGGCTTAATTG-TTTTTTGAAAAATTTTGAGGG-TCTTCTTGATGCGTTTTGAAAGTTCA
1 AGCAAGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGCT-TTCTTGATACATTTTGAAAGTTCA
12768046 AGT-ATTCAATTGAGTG-AAAAAAAA
65 AGTGATT-AATTGAGTGTAAAAAAAA
* *
12768070 AGCAAGGGCTTAATTGTTTTTTTTTGAAGAAGTTTGAGGGCTTTTTTGATACATTTTGAAAGTTC
1 AGCAAGGGCTTAATTG--TTTTTTTGAAAAAGTTTGAGGGCTTTCTTGATACATTTTGAAAGTTC
* *
12768135 AAGTGCTTATTTGAGTGTAAAAAAAA
64 AAGTGATTAATTGAGTGTAAAAAAAA
12768161 AG
1 AG
12768163 AGAAGCTTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
87 15 0.19
90 51 0.65
91 13 0.16
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (89 bp):
AGCAAGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGCTTTCTTGATACATTTTGAAAGTTCAA
GTGATTAATTGAGTGTAAAAAAAA
Found at i:12768171 original size:90 final size:91
Alignment explanation
Indices: 12767999--12768185 Score: 222
Period size: 90 Copynumber: 2.1 Consensus size: 91
12767989 GGCTTAATTG
* * *
12767999 TTTTTTGAAAAATTTTGAGGGTCTTCTTGATGCGTTTTGAAAGTTCAAGTATTCAATTGAGTGAA
1 TTTTTTGAAAAAGTTTGAGGGTCTTCTTGATACATTTTGAAAGTTCAAGTATTCAATTGAGTGAA
* *
12768064 AAAAAAAGCAAGGGCTTAATT-GTTT
66 AAAAAAAGCAAGAGCTTAATTACTTT
* * * *
12768089 TTTTTTGAAGAAGTTTGAGGG-CTTTTTTGATACATTTTGAAAGTTCAAGTGCTT-ATTTGAGTG
1 TTTTTTGAAAAAGTTTGAGGGTC-TTCTTGATACATTTTGAAAGTTCAAGT-ATTCAATTGAGTG
12768152 TAAAAAAAAAG--AGAAGCTTAATTACTTT
64 -AAAAAAAAAGCAAG-AGCTTAATTACTTT
12768180 TTTTTT
1 TTTTTT
12768186 TTTTAAGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
89 3 0.04
90 59 0.71
91 21 0.25
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (91 bp):
TTTTTTGAAAAAGTTTGAGGGTCTTCTTGATACATTTTGAAAGTTCAAGTATTCAATTGAGTGAA
AAAAAAAGCAAGAGCTTAATTACTTT
Found at i:12769525 original size:53 final size:54
Alignment explanation
Indices: 12769440--12769550 Score: 197
Period size: 53 Copynumber: 2.0 Consensus size: 54
12769430 AAAAAATCCC
12769440 TAAAATCCTGTAAAAAAAAAAAGAAAAGAAAAGAATTTGATTGAAAGCAATGACTT
1 TAAAATCCTGT--AAAAAAAAAGAAAAGAAAAGAATTTGATTGAAAGCAATGACTT
12769496 TAAAATCCTGT-AAAAAAAAGAAAAGAAAAGAATTTGATTGAAAGCAATGACTT
1 TAAAATCCTGTAAAAAAAAAGAAAAGAAAAGAATTTGATTGAAAGCAATGACTT
12769549 TA
1 TA
12769551 GTGACATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
53 44 0.80
56 11 0.20
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (54 bp):
TAAAATCCTGTAAAAAAAAAGAAAAGAAAAGAATTTGATTGAAAGCAATGACTT
Found at i:12775712 original size:18 final size:18
Alignment explanation
Indices: 12775691--12775727 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12775681 AAATTCACAT
12775691 ATTTT-AATAATTTTAAAA
1 ATTTTAAATAA-TTTAAAA
12775709 ATTTTAAATAATTTAAAA
1 ATTTTAAATAATTTAAAA
12775727 A
1 A
12775728 ACTTCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAAATAATTTAAAA
Found at i:12775725 original size:9 final size:10
Alignment explanation
Indices: 12775691--12775722 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
12775681 AAATTCACAT
12775691 ATTTT-AATA
1 ATTTTAAATA
12775700 ATTTTAAA-A
1 ATTTTAAATA
12775709 ATTTTAAATA
1 ATTTTAAATA
12775719 ATTT
1 ATTT
12775723 AAAAAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:12775728 original size:19 final size:18
Alignment explanation
Indices: 12775691--12775728 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
12775681 AAATTCACAT
*
12775691 ATTTTAATAATTTTAAAA
1 ATTTTAATAATTTAAAAA
12775709 ATTTTAAATAATTTAAAAA
1 ATTTT-AATAATTTAAAAA
12775728 A
1 A
12775729 CTTCTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAATAATTTAAAAA
Found at i:12775861 original size:21 final size:21
Alignment explanation
Indices: 12775837--12775888 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
12775827 CACTGTTTCT
*
12775837 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
12775858 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
12775879 AATCTCACCG
1 AATCTCACCG
12775889 TCACCGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.37, G:0.10, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:12780517 original size:17 final size:16
Alignment explanation
Indices: 12780490--12780560 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 16
12780480 GATAACATTA
*
12780490 AATTTTGAAATTTTTT
1 AATTTTAAAATTTTTT
*
12780506 ATATTTTAAAATAATTTT
1 A-ATTTTAAAAT-TTTTT
**
12780524 -ATTTTTGAA-TTTTT
1 AATTTTAAAATTTTTT
*
12780538 AATTTTAAAGAGTTTTT
1 AATTTTAAA-ATTTTTT
12780555 AATTTT
1 AATTTT
12780561 TTTCCAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.09
15 6 0.14
16 9 0.21
17 20 0.47
18 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
AATTTTAAAATTTTTT
Found at i:12781158 original size:7 final size:7
Alignment explanation
Indices: 12781148--12781196 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
12781138 TATTTTTTGA
12781148 AAAATTT
1 AAAATTT
12781155 AAAATTT
1 AAAATTT
12781162 AAAATTT
1 AAAATTT
12781169 AAAATTT
1 AAAATTT
12781176 AAAATTT
1 AAAATTT
12781183 AAAATTT
1 AAAATTT
12781190 AAAATTT
1 AAAATTT
12781197 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:12781595 original size:21 final size:20
Alignment explanation
Indices: 12781571--12781610 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
12781561 ACTTTATTCA
12781571 AAACTCAACCTAAATAAAAAT
1 AAACTCAA-CTAAATAAAAAT
12781592 AAACTCAACTAAATTAAAA
1 AAACTCAACTAAA-TAAAA
12781611 CTTAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.20
Consensus pattern (20 bp):
AAACTCAACTAAATAAAAAT
Found at i:12781913 original size:16 final size:15
Alignment explanation
Indices: 12781886--12781938 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
12781876 ATTATAACAC
12781886 TAATTATCATATTAT-
1 TAATTAT-ATATTATA
12781901 TAAATTAATATATTATA
1 T-AATT-ATATATTATA
*
12781918 TAATTATATATTTTA
1 TAATTATATATTATA
12781933 T-ATTAT
1 TAATTAT
12781939 CATTAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 5 0.15
15 11 0.32
16 15 0.44
17 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTATATATTATA
Found at i:12781915 original size:8 final size:7
Alignment explanation
Indices: 12781888--12781996 Score: 50
Period size: 7 Copynumber: 15.9 Consensus size: 7
12781878 TATAACACTA
12781888 ATTATCAT
1 ATTAT-AT
*
12781896 ATTATTAA
1 ATTA-TAT
12781904 ATTAATAT
1 ATT-ATAT
12781912 ATTATAT
1 ATTATAT
12781919 AATTATAT
1 -ATTATAT
*
12781927 ATTTTAT
1 ATTATAT
*
12781934 ATTAT-C
1 ATTATAT
12781940 ATTA-AT
1 ATTATAT
* *
12781946 TTTAGAT
1 ATTATAT
*
12781953 TTTATAT
1 ATTATAT
12781960 ATT-T-T
1 ATTATAT
* *
12781965 AATAAAT
1 ATTATAT
12781972 ATTAT-T
1 ATTATAT
*
12781978 TTTATAT
1 ATTATAT
12781985 ATT-TAT
1 ATTATAT
*
12781991 AATATA
1 ATTATA
12781997 AATAATTATA
Statistics
Matches: 76, Mismatches: 16, Indels: 19
0.68 0.14 0.17
Matches are distributed among these distances:
5 3 0.04
6 18 0.24
7 33 0.43
8 20 0.26
9 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (7 bp):
ATTATAT
Found at i:12781933 original size:17 final size:17
Alignment explanation
Indices: 12781886--12781991 Score: 64
Period size: 17 Copynumber: 6.5 Consensus size: 17
12781876 ATTATAACAC
*
12781886 TAATTATCATATTAT-TA
1 TAATTAT-ATATTTTATA
*
12781903 -AATTA-ATATATTATA
1 TAATTATATATTTTATA
12781918 TAATTATATATTTTATA
1 TAATTATATATTTTATA
* * *
12781935 TTATCAT-TAATTTTAGA
1 TAATTATAT-ATTTTATA
*
12781952 T-TTTATATATTTTA-A
1 TAATTATATATTTTATA
*
12781967 TAAATAT-TATTTTTATA
1 TAATTATATA-TTTTATA
*
12781984 TATTTATA
1 TAATTATA
12781992 ATATAAATAA
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.09
16 28 0.41
17 29 0.43
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (17 bp):
TAATTATATATTTTATA
Found at i:12781945 original size:24 final size:22
Alignment explanation
Indices: 12781909--12781959 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
12781899 ATTAAATTAA
*
12781909 TATATTATATAATTATATATTT
1 TATATTATATAATTATAGATTT
*
12781931 TATATTATCATTAATTTTAGATTT
1 TATATTAT-A-TAATTATAGATTT
12781955 TATAT
1 TATAT
12781960 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 1 0.04
24 16 0.64
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATTATATAATTATAGATTT
Found at i:12781990 original size:33 final size:34
Alignment explanation
Indices: 12781904--12781991 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
12781894 ATATTATTAA
* *
12781904 ATTAATATATTATATAATTATATATTTTATATTATC
1 ATTAAT-T-TTATATATTTATATATTTTATATAATC
*
12781940 ATTAATTTTAGAT-TTTATATATTTTA-ATAAAT-
1 ATTAATTTTATATATTTATATATTTTATAT-AATC
*
12781972 ATTATTTTTATATATTTATA
1 ATTAATTTTATATATTTATA
12781992 ATATAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 13 0.29
33 20 0.44
34 5 0.11
35 1 0.02
36 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (34 bp):
ATTAATTTTATATATTTATATATTTTATATAATC
Found at i:12794047 original size:30 final size:30
Alignment explanation
Indices: 12794011--12794088 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
12794001 ATTTTCATTT
12794011 TTATTTTTTAATTTTAAAATACTTTTAAAA
1 TTATTTTTTAATTTTAAAATACTTTTAAAA
* *** *
12794041 TTATTTTTTTTATTTTTTTATATTTTTAAAA
1 TTA-TTTTTTAATTTTAAAATACTTTTAAAA
*
12794072 TAATTTTTTAATATTTA
1 TTATTTTTTAAT-TTTA
12794089 TTTTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (30 bp):
TTATTTTTTAATTTTAAAATACTTTTAAAA
Found at i:12794093 original size:42 final size:40
Alignment explanation
Indices: 12794007--12794094 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 40
12793997 ATATATTTTC
*
12794007 ATTTTTATTTTTTAATTTTAAAATACTTTTAAAATTATTT
1 ATTTTTATTTTTTAATTTTAAAATAATTTTAAAATTATTT
**
12794047 -TTTTTATTTTTTTATATTTTTAAAATAATTTTTTAA-TATTT
1 ATTTTTA-TTTTTTA-A-TTTTAAAATAATTTTAAAATTATTT
12794088 ATTTTTA
1 ATTTTTA
12794095 AAATGGACGG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 6 0.15
40 7 0.17
41 6 0.15
42 22 0.54
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (40 bp):
ATTTTTATTTTTTAATTTTAAAATAATTTTAAAATTATTT
Found at i:12797346 original size:9 final size:9
Alignment explanation
Indices: 12797332--12797359 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12797322 TTTTGTTACA
12797332 ACAATTAAT
1 ACAATTAAT
12797341 ACAATTAAT
1 ACAATTAAT
12797350 ACAATTAAT
1 ACAATTAAT
12797359 A
1 A
12797360 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:12797381 original size:68 final size:65
Alignment explanation
Indices: 12797302--12797442 Score: 237
Period size: 68 Copynumber: 2.1 Consensus size: 65
12797292 TCAAGTTTGT
*
12797302 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT--AATTAATAA-TTGAT
12797367 AAA
63 AAA
*
12797370 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTGATAAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTGATAAA
12797435 TTTACTAA
1 TTTACTAA
12797443 CAATTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
65 15 0.21
66 9 0.13
68 47 0.66
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (65 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTGATAAA
Found at i:12797452 original size:16 final size:16
Alignment explanation
Indices: 12797431--12797472 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
12797421 TAATAATTGA
*
12797431 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
12797447 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
12797463 TAGTTTTAAT
1 TAATTTTAAT
12797473 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:12797471 original size:22 final size:22
Alignment explanation
Indices: 12797446--12797500 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
12797436 TTACTAACAA
* * *
12797446 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
12797468 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
12797490 TTAATTTTAAT
1 TTAATTTTAAT
12797501 TTAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:12800625 original size:23 final size:22
Alignment explanation
Indices: 12800570--12800627 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
12800560 TTAGATTTAC
12800570 ATATAAATATATTTACATGAAT
1 ATATAAATATATTTACATGAAT
* *
12800592 -TATTGAAATATATTTCCATGTAT
1 ATA-T-AAATATATTTACATGAAT
12800615 ATATAATATATAT
1 ATATAA-ATATAT
12800628 AATTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 23 0.77
24 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATAAATATATTTACATGAAT
Found at i:12806882 original size:21 final size:21
Alignment explanation
Indices: 12806838--12806883 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12806828 CCATTCGTTT
* *
12806838 AACATATTCAAAACACGATCA
1 AACATAATCAAAACACGATAA
* *
12806859 AACATAATCAAAACATGCTAA
1 AACATAATCAAAACACGATAA
12806880 AACA
1 AACA
12806884 ATCATCCTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.17
Consensus pattern (21 bp):
AACATAATCAAAACACGATAA
Found at i:12808136 original size:16 final size:16
Alignment explanation
Indices: 12808115--12808145 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12808105 AATTCAATCC
12808115 ATTTCAATCCACTATA
1 ATTTCAATCCACTATA
*
12808131 ATTTCAATTCACTAT
1 ATTTCAATCCACTAT
12808146 CAAAGTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTCAATCCACTATA
Found at i:12811206 original size:16 final size:16
Alignment explanation
Indices: 12811187--12811221 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12811177 AAAAAATCCT
12811187 AAACCCTAAAATTAAA
1 AAACCCTAAAATTAAA
**
12811203 AAACCCTAACCTTAAA
1 AAACCCTAAAATTAAA
12811219 AAA
1 AAA
12811222 ATTAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACCCTAAAATTAAA
Found at i:12811210 original size:23 final size:22
Alignment explanation
Indices: 12811177--12811219 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12811167 AACCCTTCCA
*
12811177 AAAAAATCCTAAACCCTAAAATT
1 AAAAAACCCT-AACCCTAAAATT
*
12811200 AAAAAACCCTAACCTTAAAA
1 AAAAAACCCTAACCCTAAAA
12811220 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAAAACCCTAACCCTAAAATT
Found at i:12811220 original size:23 final size:24
Alignment explanation
Indices: 12811177--12811229 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
12811167 AACCCTTCCA
*
12811177 AAAAAATCCTAAACCCT-AAAATT
1 AAAAAACCCTAAACCCTAAAAATT
*
12811200 AAAAAACCCT-AACCTTAAAAAAATT
1 AAAAAACCCTAAACCCT--AAAAATT
12811225 AAAAA
1 AAAAA
12811230 CAATTAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
25 11 0.44
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (24 bp):
AAAAAACCCTAAACCCTAAAAATT
Found at i:12815926 original size:38 final size:39
Alignment explanation
Indices: 12815878--12815957 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 39
12815868 GTTTATGAAA
12815878 TTAGGGTTAAGATTTAAGGTTGT-TTAATTTTTAAGTGT
1 TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
* * * * *
12815916 TTAGGTTTAAGGTTTAGGGTTTTATTTATTTTTAAGTGT
1 TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
12815955 TTA
1 TTA
12815958 TTAATTATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 19 0.53
39 17 0.47
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.54
Consensus pattern (39 bp):
TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
Found at i:12815983 original size:41 final size:40
Alignment explanation
Indices: 12815900--12816000 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 40
12815890 TTTAAGGTTG
12815900 TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
1 TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
* *
12815940 TTT-ATTTTTAAGTGTTTA-TTAATTATGGATTTAGGGTTTTA
1 TTTAATTTTTAAGTGTTTAGGT--TTAAGG-TTTAGGGTTTTA
*
12815981 TTTAATTTTT-AGGGTTTAGG
1 TTTAATTTTTAAGTGTTTAGG
12816001 GATTCTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
38 1 0.02
39 15 0.29
40 8 0.15
41 22 0.42
42 6 0.12
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (40 bp):
TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
Found at i:12816088 original size:29 final size:29
Alignment explanation
Indices: 12816003--12816092 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
12815993 GGTTTAGGGA
12816003 TTCTAAAAAAAATAAATTTTACAAGAT-AGG
1 TTCT-AAAAAAAT-AATTTTACAAGATGAGG
*
12816033 TTCTAAAAAAATAATTTTA-AGGGGATGA-G
1 TTCTAAAAAAATAATTTTACA--AGATGAGG
*
12816062 TTCTGAAAAAATAATTTTGACAAGATG-GG
1 TTCTAAAAAAATAATTTT-ACAAGATGAGG
12816091 TT
1 TT
12816093 GAGTTTTGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
27 1 0.02
28 7 0.14
29 36 0.71
30 6 0.12
31 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.32
Consensus pattern (29 bp):
TTCTAAAAAAATAATTTTACAAGATGAGG
Found at i:12822652 original size:20 final size:19
Alignment explanation
Indices: 12822627--12822677 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
12822617 ATAATTAAAA
12822627 GTTTTTTTAAAAAAACTAT
1 GTTTTTTTAAAAAAACTAT
* *
12822646 -TGTTTTTAAAAAAATTAT
1 GTTTTTTTAAAAAAACTAT
*
12822664 GATTTTTCTAAAAA
1 G-TTTTTTTAAAAA
12822678 GTTTTTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 16 0.62
20 10 0.38
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (19 bp):
GTTTTTTTAAAAAAACTAT
Found at i:12823862 original size:17 final size:17
Alignment explanation
Indices: 12823840--12823891 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
12823830 AGCAAATGCT
12823840 TATTTTTGTAATTAATA
1 TATTTTTGTAATTAATA
*
12823857 TA-TTTT-TCA-T-ATA
1 TATTTTTGTAATTAATA
12823870 T-TTTTTGTAATTAAT-
1 TATTTTTGTAATTAATA
12823885 TATTTTT
1 TATTTTT
12823892 ACATTAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
13 8 0.29
14 3 0.11
15 4 0.14
16 11 0.39
17 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTTTTGTAATTAATA
Found at i:12828755 original size:50 final size:50
Alignment explanation
Indices: 12828630--12828870 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 50
12828620 GATAATAACA
* * *
12828630 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
12828679 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
12828729 TGTCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
** * ** *
12828779 TGCCAACACCATGTCCCAGACATGGTCTTACATGGCACCTCTCATAGCCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATA---TC---GG
12828835 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
12828871 GCCTCTTTAC
Statistics
Matches: 155, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
48 4 0.03
49 39 0.25
50 74 0.48
51 2 0.01
53 2 0.01
56 34 0.22
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:12839216 original size:6 final size:6
Alignment explanation
Indices: 12839205--12839262 Score: 66
Period size: 6 Copynumber: 9.7 Consensus size: 6
12839195 GTTTTTTTAT
**
12839205 TTAATA TTAATA -TAATTA TTTTTA TTTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA TTAA-TA TTAATA -TTAATA TTAATA TTAATA TTAATA
12839254 TTAAT- TTAA
1 TTAATA TTAA
12839263 AATTTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 7 0.16
6 33 0.73
7 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTAATA
Found at i:12839255 original size:25 final size:25
Alignment explanation
Indices: 12839202--12839262 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
12839192 GAGGTTTTTT
**
12839202 TATTTAATATTAATATAATTATTTT
1 TATTTAATATTAATATAATTATTAA
12839227 TATTTAATATTAATATTAA-TATTAA
1 TATTTAATATTAATA-TAATTATTAA
12839252 TA-TTAAT-TTAA
1 TATTTAATATTAA
12839263 AATTTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.15
25 21 0.64
26 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTTAATATTAATATAATTATTAA
Found at i:12839268 original size:7 final size:7
Alignment explanation
Indices: 12839256--12839294 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
12839246 TATTAATATT
12839256 AATTTAA
1 AATTTAA
12839263 AATTTAA
1 AATTTAA
12839270 AATTTAA
1 AATTTAA
12839277 AATTTAA
1 AATTTAA
12839284 AATTTAA
1 AATTTAA
12839291 AATT
1 AATT
12839295 ATCATTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:12839334 original size:17 final size:17
Alignment explanation
Indices: 12839312--12839345 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12839302 CATTTTAAAA
12839312 ATTTTTATATAATTTTT
1 ATTTTTATATAATTTTT
12839329 ATTTTTATATAATTTTT
1 ATTTTTATATAATTTTT
12839346 TGAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTATATAATTTTT
Found at i:12839570 original size:29 final size:29
Alignment explanation
Indices: 12839537--12839639 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 29
12839527 CAATCTCAAT
*
12839537 TAGTTGGGTGACCAATTTTAAA-AAGTTCA
1 TAGTTGGGTGACCAA-TTTAAACAAATTCA
*** *
12839566 TAGTTGGGTGACCAAAAAAGAAACAAATCCA
1 TAGTTGGGTGACC--AATTTAAACAAATTCA
*
12839597 TAGTT-GGTGACCAATTTAAATAAATTCA
1 TAGTTGGGTGACCAATTTAAACAAATTCA
*
12839625 TAGTTGAGTGACCAA
1 TAGTTGGGTGACCAA
12839640 AAAAGAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 16 0.27
29 21 0.36
30 10 0.17
31 12 0.20
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (29 bp):
TAGTTGGGTGACCAATTTAAACAAATTCA
Found at i:12839602 original size:31 final size:30
Alignment explanation
Indices: 12839564--12839668 Score: 115
Period size: 31 Copynumber: 3.5 Consensus size: 30
12839554 TTAAAAAGTT
12839564 CATAGTTGGGTGACCAAAAAAGAAACAAATC
1 CATAGTTGGGTGACCAAAAAAGAAA-AAATC
*** * *
12839595 CATAGTT-GGTGACCAATTTA-AATAAATT
1 CATAGTTGGGTGACCAAAAAAGAAAAAATC
* *
12839623 CATAGTTGAGTGACCAAAAAAGAAAATGATC
1 CATAGTTGGGTGACCAAAAAAGAAAA-AATC
12839654 CATAGTTGGGTGACC
1 CATAGTTGGGTGACC
12839669 TATGGTGTAC
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 11 0.19
29 11 0.19
30 13 0.22
31 23 0.40
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (30 bp):
CATAGTTGGGTGACCAAAAAAGAAAAAATC
Found at i:12839609 original size:59 final size:60
Alignment explanation
Indices: 12839537--12839668 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
12839527 CAATCTCAAT
* *
12839537 TAGTTGGGTGACCAATTTTAAA-AAGTTCATAGTTGGGTGACCAAAAAAGAAACA-AATCCA
1 TAGTTGGGTGACCAA-TTTAAATAAATTCATAGTTGAGTGACCAAAAAAGAAA-ATAATCCA
*
12839597 TAGTT-GGTGACCAATTTAAATAAATTCATAGTTGAGTGACCAAAAAAGAAAATGATCCA
1 TAGTTGGGTGACCAATTTAAATAAATTCATAGTTGAGTGACCAAAAAAGAAAATAATCCA
12839656 TAGTTGGGTGACC
1 TAGTTGGGTGACC
12839669 TATGGTGTAC
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
58 7 0.11
59 47 0.71
60 12 0.18
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (60 bp):
TAGTTGGGTGACCAATTTAAATAAATTCATAGTTGAGTGACCAAAAAAGAAAATAATCCA
Found at i:12845342 original size:18 final size:18
Alignment explanation
Indices: 12845319--12845361 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
12845309 AATATATGAT
12845319 GACCAATCTTATCAATTG
1 GACCAATCTTATCAATTG
12845337 GACCAATCTTATCAATTG
1 GACCAATCTTATCAATTG
*
12845355 GAACAAT
1 GACCAAT
12845362 GTTCACGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (18 bp):
GACCAATCTTATCAATTG
Found at i:12849793 original size:13 final size:13
Alignment explanation
Indices: 12849775--12849799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12849765 TTCACTTGCA
12849775 AGAGAGAGAGCCT
1 AGAGAGAGAGCCT
12849788 AGAGAGAGAGCC
1 AGAGAGAGAGCC
12849800 CTTATCTCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.04
Consensus pattern (13 bp):
AGAGAGAGAGCCT
Found at i:12852357 original size:4 final size:4
Alignment explanation
Indices: 12852348--12852373 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
12852338 TGGATTTGAA
12852348 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
12852374 TAGGAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:12865326 original size:44 final size:44
Alignment explanation
Indices: 12864804--12865325 Score: 794
Period size: 44 Copynumber: 11.9 Consensus size: 44
12864794 ATCACAAAGC
* * *
12864804 CCTATCTCCCTGACTAGTAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
12864848 CCTAGCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
12864892 CCTATCTCCCTGACCAGCAGTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
12864936 CTTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
12864980 CATATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAG-
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
12865023 CCTGATCTCCCTGACAAGCATTGGAATAGGTTGAAGATTGCAAGT
1 CCT-ATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
12865068 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGC
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* **
12865112 CCTATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTGTGAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
12865156 CCTATCTCCTTGACCAGCATTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
12865200 CCTATCTCCTTGACCAGCATTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
12865244 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
12865288 CCTATCTCCCTAACCAACAGTGGAATAGGTGGAAGATT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
12865326 AGTTTCTATG
Statistics
Matches: 440, Mismatches: 36, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
43 2 0.00
44 435 0.99
45 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:12865869 original size:20 final size:19
Alignment explanation
Indices: 12865841--12865878 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12865831 AGACAGGGGG
12865841 TTTTCTTTGGTTTTATTTTA
1 TTTTCTTTGGTTTT-TTTTA
*
12865861 TTTTTTTTGGTTTTTTTT
1 TTTTCTTTGGTTTTTTTT
12865879 CACACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.82
Consensus pattern (19 bp):
TTTTCTTTGGTTTTTTTTA
Found at i:12875203 original size:29 final size:30
Alignment explanation
Indices: 12875168--12875225 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
12875158 TTTTGAAGAA
**
12875168 AAATTTTAGAATTTTTTACTTAT-ATTTTG
1 AAATTTTAGAAAATTTTACTTATAATTTTG
*
12875197 AAATTTTAGAAAATTTTATTTATAATTTT
1 AAATTTTAGAAAATTTTACTTATAATTTT
12875226 TATTTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (30 bp):
AAATTTTAGAAAATTTTACTTATAATTTTG
Found at i:12883880 original size:19 final size:19
Alignment explanation
Indices: 12883853--12883890 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12883843 TTTAAAGTTG
*
12883853 TTTAGGTAGATAAATCTTA
1 TTTAAGTAGATAAATCTTA
12883872 TTTAAGTAGATAAATCTTA
1 TTTAAGTAGATAAATCTTA
12883891 AAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TTTAAGTAGATAAATCTTA
Found at i:12884006 original size:41 final size:41
Alignment explanation
Indices: 12883914--12883993 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
12883904 GAGATATTCT
* *
12883914 AAGAA-TATTTT-ATTATATTTTAGTAGTTTATTAGAATAA
1 AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
*
12883953 AAGAATTATTTTCCTTATCTTTCAGTAGTTTATTAGAATAA
1 AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
12883994 GGGAATTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 5 0.14
40 6 0.17
41 25 0.69
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (41 bp):
AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
Found at i:12887705 original size:19 final size:19
Alignment explanation
Indices: 12887681--12887719 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
12887671 TATTTTAAAA
*
12887681 TTATTTAGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
12887700 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
12887719 T
1 T
12887720 AAGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:12898495 original size:24 final size:24
Alignment explanation
Indices: 12898463--12898513 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
12898453 GTGAGTTTTA
12898463 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
12898487 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
12898511 AAT
1 AAT
12898514 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:12899985 original size:12 final size:12
Alignment explanation
Indices: 12899968--12899995 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12899958 TTGGTTATTG
12899968 CTGTAGCAGCTT
1 CTGTAGCAGCTT
12899980 CTGTAGCAGCTT
1 CTGTAGCAGCTT
12899992 CTGT
1 CTGT
12899996 TTTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (12 bp):
CTGTAGCAGCTT
Found at i:12902558 original size:93 final size:91
Alignment explanation
Indices: 12902403--12902596 Score: 275
Period size: 93 Copynumber: 2.1 Consensus size: 91
12902393 TTGATTTTAG
* *
12902403 TAAATTCATATAAGAACATTTTTTATTAAGAATTTTATGAAATTATATATCACTATATAATTATA
1 TAAATTCATATAAGAAAATTTTTTATCAAGAATTTTATGAAATTATATATCACTATATAATTATA
* *
12902468 TTTAAT-ATTAATTATTTTAAATTGTA
66 TGTAATAATT-ATTATTTTAAATTATA
* *
12902494 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTAT-TAAATT
1 TAAATTCATATAAGAAAA-TTTT-TTATCAAGAATTTTATGAAATTATATATCACTATAT-AATT
12902558 ATATGTAATAATTATTATTTTAAATTATA
63 ATATGTAATAATTATTATTTTAAATTATA
*
12902587 CAAATTCATA
1 TAAATTCATA
12902597 AACTATAATC
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
91 17 0.18
92 5 0.05
93 67 0.73
94 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTTTTATCAAGAATTTTATGAAATTATATATCACTATATAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:12902654 original size:17 final size:17
Alignment explanation
Indices: 12902629--12902662 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12902619 ATAATTTTAA
*
12902629 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
12902646 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
12902663 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:12902664 original size:15 final size:16
Alignment explanation
Indices: 12902629--12902667 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12902619 ATAATTTTAA
*
12902629 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
12902646 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
12902661 ATTTAAT
1 ATTTAAT
12902668 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:12902671 original size:17 final size:18
Alignment explanation
Indices: 12902633--12902672 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
12902623 TTTTAAATTT
*
12902633 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
12902651 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
12902667 TATTAA
1 TATTAA
12902673 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:12902787 original size:15 final size:15
Alignment explanation
Indices: 12902752--12902803 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12902742 TTAAGAATTT
*
12902752 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12902766 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12902780 TATTTAATAATAAT-
1 TATTTAATTATAATA
12902794 TATGTTAATT
1 TAT-TTAATT
12902804 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12902794 original size:120 final size:120
Alignment explanation
Indices: 12902628--12902919 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
12902618 AATAATTTTA
* * *
12902628 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
12902689 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
12902747 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
12902812 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
12902867 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
12902920 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:12902884 original size:59 final size:59
Alignment explanation
Indices: 12902701--12902884 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
12902691 TATAGTATCA
* *
12902701 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
12902760 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
12902819 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
12902880 TATAT
1 TATAT
12902885 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:12902902 original size:16 final size:16
Alignment explanation
Indices: 12902881--12902922 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12902871 TTATTAAATT
*
12902881 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12902897 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12902912 AT-TATGTTTAA
1 ATATAT-TTTAA
12902923 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12902907 original size:15 final size:15
Alignment explanation
Indices: 12902872--12902913 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12902862 TTAAGAATTT
*
12902872 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12902886 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12902900 TATTTAATAATAAT
1 TATTTAATTATAAT
12902914 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12903033 original size:154 final size:156
Alignment explanation
Indices: 12902856--12903169 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
12902846 ATAAGAATAT
* *
12902856 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
12902921 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
12902984 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
12903010 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
12903075 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
12903140 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
12903167 TAA
1 TAA
12903170 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 91 0.59
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:12903050 original size:18 final size:17
Alignment explanation
Indices: 12903022--12903056 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12903012 ATTATTAAGA
*
12903022 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12903039 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12903057 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12903090 original size:75 final size:75
Alignment explanation
Indices: 12902857--12903092 Score: 203
Period size: 75 Copynumber: 3.1 Consensus size: 75
12902847 TAAGAATATT
* *
12902857 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
12902922 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
12902932 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
12902993 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
12903007 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
12903072 TTTAAATATGATTA
62 TTTAAATATGATTA
12903086 AATTATT
1 AATTATT
12903093 TATTATTGAT
Statistics
Matches: 115, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.25
76 28 0.24
77 6 0.05
78 27 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:12903310 original size:16 final size:16
Alignment explanation
Indices: 12903289--12903327 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12903279 TTGATTTGCT
*
12903289 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
12903305 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
12903321 ATTACAC
1 ATTACAC
12903328 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:12903328 original size:16 final size:16
Alignment explanation
Indices: 12903302--12903358 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
12903292 ACACAGCTTT
* *
12903302 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
12903318 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
12903334 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
12903350 TCCAATACA
1 TCCAATACA
12903359 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:12903558 original size:26 final size:26
Alignment explanation
Indices: 12903529--12903580 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
12903519 ATTATACATA
12903529 CACCAACAATGTTTTTTAGGGTAAAT
1 CACCAACAATGTTTTTTAGGGTAAAT
12903555 CACCAACAATGTTTTTTAGGGTAAAT
1 CACCAACAATGTTTTTTAGGGTAAAT
12903581 AACATTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (26 bp):
CACCAACAATGTTTTTTAGGGTAAAT
Found at i:12903565 original size:77 final size:77
Alignment explanation
Indices: 12903478--12903626 Score: 298
Period size: 77 Copynumber: 1.9 Consensus size: 77
12903468 ATTATACATA
12903478 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
1 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
12903543 TTTAGGGTAAAT
66 TTTAGGGTAAAT
12903555 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
1 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
12903620 TTTAGGG
66 TTTAGGG
12903627 ACAATAACAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (77 bp):
CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
TTTAGGGTAAAT
Found at i:12903700 original size:33 final size:33
Alignment explanation
Indices: 12903594--12903703 Score: 93
Period size: 33 Copynumber: 3.3 Consensus size: 33
12903584 ATTAAACCAA
* *
12903594 CAATTATACATACACCAACAATGT-TTTTTAGGGA
1 CAATTATACATACACCAACAAT-TAATTTTA-GGT
* * *
12903628 CAA-TA-ACATTAAACCAACTAGTAATTTTA-GT
1 CAATTATACA-TACACCAACAATTAATTTTAGGT
* *
12903659 TAGGTTATACATACACCAACAATTAATTTTAGGT
1 CA-ATTATACATACACCAACAATTAATTTTAGGT
12903693 CAATTATACAT
1 CAATTATACAT
12903704 GCTTTATAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
31 2 0.03
32 4 0.07
33 43 0.74
34 9 0.16
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:12906787 original size:29 final size:28
Alignment explanation
Indices: 12906754--12906840 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
12906744 TCATAAGAAC
12906754 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
12906783 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
12906807 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
12906837 ATTT
1 ATTT
12906841 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:12907057 original size:137 final size:138
Alignment explanation
Indices: 12906897--12907296 Score: 420
Period size: 137 Copynumber: 2.9 Consensus size: 138
12906887 TAAGAATATG
* * ** *
12906897 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTTTGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATCATATTTA
* * * *
12906962 AATATGATTAAATTATTTATTATTGATATTAGTAATCTTATTAAAATTTAAATAACAATATGTAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATATGTAA
12907027 TTTCTGCT
131 TTTCTGCT
****
12907035 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATATTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATCATATTTA
* **
12907099 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTA-ACAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATATGTAA
*
12907163 TAATCAT-CT
131 T-TTC-TGCT
** * * * * * * *
12907172 -ACCA-AAACAATTTTCTGCT-AATTATA-AGCATTTTAATTAAAATATATTTAATTA-AATTAT
1 AATTATTAAGAATTTTAT--TAAATTATATACCA---AAATTAAAATATATTTAATAATAATCAT
* * *
12907232 GTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTTTTAAAATTTAAATAACAATA
61 ATTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATA
12907297 ACAATAATCA
Statistics
Matches: 224, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
136 15 0.07
137 116 0.52
138 73 0.33
139 20 0.09
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATCATATTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATATGTAA
TTTCTGCT
Found at i:12907073 original size:18 final size:17
Alignment explanation
Indices: 12907045--12907079 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12907035 AATTATAAGA
*
12907045 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12907062 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12907080 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12907095 original size:16 final size:15
Alignment explanation
Indices: 12907058--12907099 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
12907048 TTATTAAATT
12907058 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
12907074 ATATATTTAA-TAATA
1 ATATATTTAATTAA-A
12907089 ATCATATTTAA
1 AT-ATATTTAA
12907100 ATATGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:12907221 original size:15 final size:15
Alignment explanation
Indices: 12907203--12907237 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12907193 TTATAAGCAT
12907203 TTTAATTAAAATATA
1 TTTAATTAAAATATA
* *
12907218 TTTAATTAAATTATG
1 TTTAATTAAAATATA
12907233 TTTAA
1 TTTAA
12907238 ATATAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTAATTAAAATATA
Found at i:12907265 original size:138 final size:137
Alignment explanation
Indices: 12906930--12907330 Score: 506
Period size: 138 Copynumber: 2.9 Consensus size: 137
12906920 TATATACCAA
* * * * * * *
12906930 AATTATAATGTATTTAATAATAATTTTGTTTAAATATGATTAAATTATTTATTATTGATATTAGT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
** * ** * *
12906995 AATCTTATTAAAATTTAAATAACAATATGTAAT-TTC-TGCTAATTATAAGAATTTTAT--TAAA
66 AATCTTATTAAAATTTAAATAACAATA-ACAATAATCAT-CT-ACCAAAACAATTTTATGCT-AA
*
12907056 TTATATATTTT
127 TTATACATTTT
* *
12907067 AATTAAAATATATTTAATAATAATCATATTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* *
12907132 AATCTTATTAAAATTTAAATAACATTAACAATAATCATCTACCAAAACAATTTTCTGCTAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATCTACCAAAACAATTTTATGCTAATTAT
12907197 AAGCATTTT
131 -A-CATTTT
* *
12907206 AATTAAAATATATTTAATTA-AATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* *
12907270 AATCTTTTTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATCTACCAAAACAATTTTATGCTAA
12907331 GGGTATTCTA
Statistics
Matches: 231, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
136 14 0.06
137 92 0.40
138 101 0.44
139 24 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (137 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAATAATCATCTACCAAAACAATTTTATGCTAATTAT
ACATTTT
Found at i:12907474 original size:16 final size:16
Alignment explanation
Indices: 12907453--12907488 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
12907443 GATTGGCTAT
12907453 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12907469 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12907485 TACA
1 TACA
12907489 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12908849 original size:29 final size:25
Alignment explanation
Indices: 12908799--12908850 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
12908789 AGATTACTTG
12908799 TTTGAATTTAATTACAAACAATTAA
1 TTTGAATTTAATTACAAACAATTAA
*
12908824 TTTGAATTTAATTACAAACAATCAA
1 TTTGAATTTAATTACAAACAATTAA
12908849 TT
1 TT
12908851 CTTAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTGAATTTAATTACAAACAATTAA
Found at i:12910269 original size:14 final size:14
Alignment explanation
Indices: 12910252--12910288 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
12910242 GTGCAGGACC
12910252 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
12910266 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
12910280 GGAGGTGGA
1 GGAGGTGGA
12910289 GGTAGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.05, G:0.59, T:0.19
Consensus pattern (14 bp):
GGAGGTGGATCGGT
Found at i:12910695 original size:7 final size:7
Alignment explanation
Indices: 12910683--12910726 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
12910673 AAAGTAAAAC
*
12910683 AAAACTT
1 AAAAATT
*
12910690 AAAACTT
1 AAAAATT
12910697 -AAAATT
1 AAAAATT
12910703 AAAAATT
1 AAAAATT
12910710 AAAAATT
1 AAAAATT
*
12910717 AAAAACT
1 AAAAATT
12910724 AAA
1 AAA
12910727 TGTAGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:12910706 original size:13 final size:13
Alignment explanation
Indices: 12910671--12910720 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
12910661 AATAGGGCAG
*
12910671 TAAAAGTAAAAC-
1 TAAAATTAAAACT
12910683 -AAAACTTAAAACT
1 TAAAA-TTAAAACT
*
12910696 TAAAATTAAAAAT
1 TAAAATTAAAACT
12910709 TAAAAATTAAAA
1 T-AAAATTAAAA
12910721 ACTAAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 4 0.12
12 6 0.19
13 8 0.25
14 14 0.44
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAAATTAAAACT
Found at i:12910726 original size:14 final size:14
Alignment explanation
Indices: 12910678--12910726 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
12910668 CAGTAAAAGT
*
12910678 AAAAC-AAAACTT-
1 AAAACTAAAAATTA
*
12910690 AAAACTTAAAATTA
1 AAAACTAAAAATTA
*
12910704 AAAATTAAAAATTA
1 AAAACTAAAAATTA
12910718 AAAACTAAA
1 AAAACTAAA
12910727 TGTAGTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 20 0.67
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAACTAAAAATTA
Found at i:12912703 original size:113 final size:115
Alignment explanation
Indices: 12912363--12912803 Score: 554
Period size: 114 Copynumber: 3.9 Consensus size: 115
12912353 AACATAAGCA
** * * ** *
12912363 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAATGATGCTATTTTCTGAG-CA
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTAA
* * **
12912426 TTCTGGAATTTAGCGGCATTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* ** * * *
12912476 TTAGCGGCATTTTTGAGAAAGCGCCATAAAAAAACTTAAGCCCAACGATGCCGTTTTCTGAG-CA
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTAA
** * * * *
12912540 TTTTGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGTTTAGGGCT
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
12912590 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TGAGTAA
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTAA
12912654 TT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * *
12912703 TTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTTTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA-CCTAAGCCCAACGACGCCGTTTTCTGAG-T
* *
12912768 --TTCGGAGATTTAGCGGCATTTTTGAGAAAGCGCCGC
64 AATTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGC
12912804 AAAAAAATCT
Statistics
Matches: 289, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
113 101 0.35
114 152 0.53
115 35 0.12
116 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (115 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTAA
TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:12912804 original size:187 final size:187
Alignment explanation
Indices: 12912589--12912990 Score: 619
Period size: 187 Copynumber: 2.1 Consensus size: 187
12912579 TGTTTAGGGC
12912589 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TGAGTA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG-A
* *
12912653 ATT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
65 ATTCGGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTT
* * * **
12912717 GAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTTTGAGCTTTCGGAGA
130 GAGAAAGCGCCGCAAAAAAA-CCTAAGCCCAACGACGCCATTTTCTGAGCAGTCGGAGA
* * * * *
12912776 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGAA
*
12912841 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
* *
12912906 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGA
131 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCAGTCGGAGA
* *
12912963 TTTAGCGGTGTTTTTAAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
12912991 TAATGCTCAG
Statistics
Matches: 195, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
187 114 0.58
188 81 0.42
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGAA
TTCGGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCAGTCGGAGA
Found at i:12912851 original size:73 final size:74
Alignment explanation
Indices: 12912702--12912876 Score: 235
Period size: 73 Copynumber: 2.4 Consensus size: 74
12912692 TGCTCAGGGC
* * *
12912702 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTTTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
*
12912767 TTTCGGAGA
66 ATTCGGAGA
* * * * *
12912776 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAA-TCTAAGCTCAACGACGTCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
*
12912840 ATTCGGGGA
66 ATTCGGAGA
* *
12912849 TTTAGCGGCGTTTTTAAGAAAGCACCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
12912877 TAATGCTCAG
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 55 0.62
74 33 0.38
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (74 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
ATTCGGAGA
Found at i:12912917 original size:114 final size:114
Alignment explanation
Indices: 12912776--12913253 Score: 717
Period size: 114 Copynumber: 4.2 Consensus size: 114
12912766 CTTTCGGAGA
* * *
12912776 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
12912841 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGC
* *
12912890 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
* * * *
12912955 GTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGG-C
** * *
12913005 TTTAGCGGCGTTTTTGAGAAAGCGCC-TTAAAAAACCTAATC-CGAACGACGCCGTTTTCAGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTC-AACGACGCCGTTTTCTGAGC
* * *
12913068 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGC
65 ATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGC
* * *
12913118 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAAAACCTAAGCTCAACAACGCCGTTTTCTAAG
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC--AAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAG
* *
12913183 CTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
64 CATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGC
12913234 TTTAGCGGCGTTTTTGAGAA
1 TTTAGCGGCGTTTTTGAGAA
12913254 CGCACCGCTA
Statistics
Matches: 327, Mismatches: 31, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
113 26 0.08
114 181 0.55
115 25 0.08
116 94 0.29
117 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGC
Found at i:12913081 original size:301 final size:301
Alignment explanation
Indices: 12912475--12913085 Score: 915
Period size: 301 Copynumber: 2.0 Consensus size: 301
12912465 TGCTCAGGGC
* *
12912475 TTTAGCGGCATTTTTGAGAAAGCGCCATAAAAAAACTTAAGCCCAACGATGCCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCACAAAAAAACTTAAGCCCAACGACGCCGTTTTCTGAGCA
** * * * * *
12912540 TTTTGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGTTTAGGGCTTTAGCGGCGTTTTTG
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
* *
12912605 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTGAGTAATTGGGGATTTAGCGGC
131 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTGAGCAATCGGGGATTTAGCGGC
12912670 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAA
196 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAA
* ** *
12912735 AACCCTAAGCCCAACTACGCCATTTTTTGAGCTTTCGGAGA
261 AACCCTAAGCCCAACGACGCCATTTTCAGAGCATTCGGAGA
* * *
12912776 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAA-TCTAAGCTCAACGACGTCGTTTTCTGAGC
1 TTTAGCGGCATTTTTGAGAAAGCGCCACAAAAAAACT-TAAGCCCAACGACGCCGTTTTCTGAGC
12912840 ATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTT
65 ATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTT
*
12912905 GAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
130 GAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TGAGCAATCGGGGATTTAGCG
** * *
12912970 GTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTTTTTAGCGGCGTTTTTGAGAAAGCG-C-CTT
194 GCATTTTTAAGAAAGCGCCGCTAATGCTCAGGG-CTTTAGCGGCGTTTTTGAGAAAGCGTCGC-A
* * * *
12913033 AAAAAA-CCTAATCCGAACGACGCCGTTTTCAGAGCATTCGGGGA
257 AAAAAACCCTAAGCCCAACGACGCCATTTTCAGAGCATTCGGAGA
12913077 TTTAGCGGC
1 TTTAGCGGC
12913086 GCTTTTAAGA
Statistics
Matches: 279, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
300 1 0.00
301 198 0.71
302 56 0.20
303 24 0.09
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (301 bp):
TTTAGCGGCATTTTTGAGAAAGCGCCACAAAAAAACTTAAGCCCAACGACGCCGTTTTCTGAGCA
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTGAGCAATCGGGGATTTAGCGGC
ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAA
AACCCTAAGCCCAACGACGCCATTTTCAGAGCATTCGGAGA
Found at i:12913262 original size:41 final size:41
Alignment explanation
Indices: 12913193--12913319 Score: 218
Period size: 41 Copynumber: 3.1 Consensus size: 41
12913183 CTTTCGGGGA
*
12913193 TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
12913234 TTTAGCGGCGTTTTTGAGAACGCACCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
*
12913275 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
12913316 TTTA
1 TTTA
12913320 AAATAATTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:12913502 original size:15 final size:14
Alignment explanation
Indices: 12913484--12913527 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
12913474 TTATGTGTTA
12913484 AGGGTTTATGGGTTT
1 AGGGTTTA-GGGTTT
*
12913499 AGGGTTTA-AGTTT
1 AGGGTTTAGGGTTT
*
12913512 ATGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
12913526 AG
1 AG
12913528 ATTAACTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.46
14 5 0.21
15 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:12913505 original size:7 final size:7
Alignment explanation
Indices: 12913484--12913527 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
12913474 TTATGTGTTA
12913484 AGGGTTT
1 AGGGTTT
12913491 ATGGGTTT
1 A-GGGTTT
12913499 AGGGTTT
1 AGGGTTT
*
12913506 A-AGTTT
1 AGGGTTT
*
12913512 ATGGTTT
1 AGGGTTT
12913519 AGGGTTT
1 AGGGTTT
12913526 AG
1 AG
12913528 ATTAACTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 5 0.16
7 20 0.62
8 7 0.22
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:12913519 original size:20 final size:21
Alignment explanation
Indices: 12913487--12913526 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
12913477 TGTGTTAAGG
12913487 GTTTATGGGTTTAGGGTTTAA
1 GTTTATGGGTTTAGGGTTTAA
12913508 GTTTAT-GGTTTAGGGTTTA
1 GTTTATGGGTTTAGGGTTTA
12913527 GATTAACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (21 bp):
GTTTATGGGTTTAGGGTTTAA
Found at i:12913818 original size:21 final size:20
Alignment explanation
Indices: 12913784--12913824 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
12913774 TATGGATTTA
*
12913784 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
12913804 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
12913825 AGTAGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:12913855 original size:22 final size:22
Alignment explanation
Indices: 12913830--12913876 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12913820 GGGTTAGTAG
*
12913830 TTAGAGGTTAAGAGTTAGGGAT
1 TTAGAGGTTAAGAGTTAAGGAT
* * *
12913852 TTAGGGGTTAGGATTTAAGGAT
1 TTAGAGGTTAAGAGTTAAGGAT
12913874 TTA
1 TTA
12913877 AGGATTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (22 bp):
TTAGAGGTTAAGAGTTAAGGAT
Found at i:12917052 original size:4 final size:4
Alignment explanation
Indices: 12917045--12917087 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
12917035 AATATAGATA
*
12917045 TATG TATG TATG TATG TATG TATG TATG TATT TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
12917088 CTAATATACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:12917858 original size:43 final size:43
Alignment explanation
Indices: 12917790--12917979 Score: 308
Period size: 43 Copynumber: 4.4 Consensus size: 43
12917780 AAAAGTCATA
*
12917790 TTCTTTAGCAGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* *
12917833 TTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* *
12917876 TTCTTTAGCGGCGTTTATGGAAAAAACGCCGCTAAAAGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* * *
12917919 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
12917962 TTCTTTAGCGGCGTTTAT
1 TTCTTTAGCGGCGTTTAT
12917980 TTCTAAAAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 133 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
Found at i:12917935 original size:86 final size:86
Alignment explanation
Indices: 12917790--12917979 Score: 344
Period size: 86 Copynumber: 2.2 Consensus size: 86
12917780 AAAAGTCATA
* * * *
12917790 TTCTTTAGCAGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGA
1 TTCTTTAGCGGCGTTTATGGAAAAAACGCCGCTAAAAGTCTTGTTCTATAGCGGCGTTTGTGGGA
12917855 AAAGCGCCGCTAAAGGTCTTG
66 AAAGCGCCGCTAAAGGTCTTG
12917876 TTCTTTAGCGGCGTTTATGGAAAAAACGCCGCTAAAAGTCTTGTTCTATAGCGGCGTTTGTGGGA
1 TTCTTTAGCGGCGTTTATGGAAAAAACGCCGCTAAAAGTCTTGTTCTATAGCGGCGTTTGTGGGA
12917941 AAAGCGCCGCTAAAGGTCTTG
66 AAAGCGCCGCTAAAGGTCTTG
12917962 TTCTTTAGCGGCGTTTAT
1 TTCTTTAGCGGCGTTTAT
12917980 TTCTAAAAAT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 100 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (86 bp):
TTCTTTAGCGGCGTTTATGGAAAAAACGCCGCTAAAAGTCTTGTTCTATAGCGGCGTTTGTGGGA
AAAGCGCCGCTAAAGGTCTTG
Found at i:12924658 original size:20 final size:20
Alignment explanation
Indices: 12924629--12924681 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
12924619 ACTAAAGGGA
* *
12924629 AATATTGATACTTGGATATC
1 AATATCGATACCTGGATATC
*
12924649 AATATCGATACCTGGATGTC
1 AATATCGATACCTGGATATC
12924669 AATATCGATACCT
1 AATATCGATACCT
12924682 ACGGACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (20 bp):
AATATCGATACCTGGATATC
Found at i:12926234 original size:15 final size:15
Alignment explanation
Indices: 12926214--12926245 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12926204 GGTTTATTTT
12926214 TGATTGATAACATGG
1 TGATTGATAACATGG
*
12926229 TGATTGATAACGTGG
1 TGATTGATAACATGG
12926244 TG
1 TG
12926246 TGTGAGGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (15 bp):
TGATTGATAACATGG
Found at i:12929774 original size:25 final size:25
Alignment explanation
Indices: 12929746--12929828 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
12929736 TCATGTACAT
* *
12929746 GTATCCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGTAAATCG
*
12929771 GTATGCTCACT-CGAGCTGCAAATCG
1 GTATGCTCA-TACGAGCTGTAAATCG
* * * *
12929796 ATATGCTCTTATGAGCTATAAATCG
1 GTATGCTCATACGAGCTGTAAATCG
12929821 GTATGCTC
1 GTATGCTC
12929829 TCACTAGCTG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAAATCG
Found at i:12929837 original size:25 final size:25
Alignment explanation
Indices: 12929766--12929837 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
12929756 ACGAGCTGTG
* * * *
12929766 AATCGGTATGCTCACTCGAGCTGCA
1 AATCGGTATGCTCTCACTAGCTACA
* * *
12929791 AATCGATATGCTCTTA-TGAGCTATA
1 AATCGGTATGCTCTCACT-AGCTACA
12929816 AATCGGTATGCTCTCACTAGCT
1 AATCGGTATGCTCTCACTAGCT
12929838 GTGGAGTGTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
AATCGGTATGCTCTCACTAGCTACA
Found at i:12954976 original size:21 final size:21
Alignment explanation
Indices: 12954927--12954978 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
12954917 TTGCTACTGC
*
12954927 AGAAGAGAAA-ATTGTTGCTGA
1 AGAAGAGAAAGA-AGTTGCTGA
12954948 AG-A-A-AAAGAAGTTGCTGA
1 AGAAGAGAAAGAAGTTGCTGA
12954966 AGAAGAGAAAGAA
1 AGAAGAGAAAGAA
12954979 AGAAAAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 13 0.50
19 3 0.12
20 2 0.08
21 8 0.31
ACGTcount: A:0.52, C:0.04, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAAGAGAAAGAAGTTGCTGA
Found at i:12965429 original size:44 final size:43
Alignment explanation
Indices: 12965361--12965473 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 43
12965351 CTGATATGTG
** * *
12965361 TTATCGTGTAAGACCGCGTCTGGGACGTTGACATCGAT-TTGAGAT
1 TTAT-GTGTAAGACCATGTCTGGGACATCGACATC-ATATT-AGAT
* *
12965406 TTATGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGAT
1 TTATGTGTAAGACCATGTCTGGGACATCGACATCATATTAGAT
* *
12965449 TT-CGTGTAAGACCCTGTCTGGGACA
1 TTATGTGTAAGACCATGTCTGGGACA
12965474 GTGGCATTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 21 0.36
43 7 0.12
44 27 0.46
45 4 0.07
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACATCGACATCATATTAGAT
Found at i:12965524 original size:42 final size:43
Alignment explanation
Indices: 12965367--12965524 Score: 126
Period size: 42 Copynumber: 3.7 Consensus size: 43
12965357 TGTGTTATCG
** * * * **
12965367 TGTAAGACCGCGTCTGGGACGTTGACATCGAT-TTGAGATTTATG
1 TGTAAGACCATGTCTGGGACGTTGGCATTGATATT-TGA-TTACA
* * * * *
12965411 TGTAAGACCATGTCTGGGACATCGGCA-TCATATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATTGATATTTGATTACA
*
12965453 TGTAAGACCCTGTCTGGGACAG-TGGCATTGATA-TTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATTGATATTTGATTACA
* *
12965495 TGTAAGACCATGCCTGAGACGTTGGCATTG
1 TGTAAGACCATGTCTGGGACGTTGGCATTG
12965525 TACGAGGTTT
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 58 0.64
43 8 0.09
44 24 0.26
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATTGATATTTGATTACA
Found at i:12972509 original size:26 final size:26
Alignment explanation
Indices: 12972476--12972528 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12972466 ATTCGTTATC
12972476 TAATTTATATGTAAATAAATGAGATG
1 TAATTTATATGTAAATAAATGAGATG
12972502 TAATTTATATGTAAATAAATGAGATG
1 TAATTTATATGTAAATAAATGAGATG
12972528 T
1 T
12972529 TAATGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (26 bp):
TAATTTATATGTAAATAAATGAGATG
Found at i:12972537 original size:26 final size:26
Alignment explanation
Indices: 12972476--12972538 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
12972466 ATTCGTTATC
*
12972476 TAATTTATATGTAAATAAATGAGATG
1 TAATTGATATGTAAATAAATGAGATG
*
12972502 TAATTTATATGTAAATAAATGAGATG
1 TAATTGATATGTAAATAAATGAGATG
12972528 TTAA-TGATATG
1 -TAATTGATATG
12972539 GGTTGGAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 32 0.91
27 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (26 bp):
TAATTGATATGTAAATAAATGAGATG
Found at i:12979793 original size:9 final size:9
Alignment explanation
Indices: 12979754--12979813 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
12979744 GCCCAGAGCT
12979754 ACTTCTTTC
1 ACTTCTTTC
**
12979763 TTTTCTTTC
1 ACTTCTTTC
* *
12979772 TCTTGTTTC
1 ACTTCTTTC
*
12979781 ACTTCTTTT
1 ACTTCTTTC
*
12979790 ACTTCCTTC
1 ACTTCTTTC
12979799 ACTTCTTTC
1 ACTTCTTTC
*
12979808 TCTTCT
1 ACTTCT
12979814 GCTGGAATTG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.07, C:0.30, G:0.02, T:0.62
Consensus pattern (9 bp):
ACTTCTTTC
Found at i:12980266 original size:48 final size:48
Alignment explanation
Indices: 12980212--12980393 Score: 267
Period size: 48 Copynumber: 3.8 Consensus size: 48
12980202 TTCCTTCCTT
* *
12980212 TGCAGATTTCGGAACAGAACTTACTGCTCTAGGTTCATTGGCTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
* *
12980260 TGCAGATTTCGGAACAGAACTTACCGCTTTCGGTTCATTGACTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
*
12980308 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTT-TCTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCT-TC
* * * *
12980356 TACAGATTTTGGAACAGAACTTATTGCTTTCGATTCAT
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCAT
12980394 CAGCCATGGC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 1 0.01
48 121 0.99
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (48 bp):
TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
Found at i:12988458 original size:198 final size:199
Alignment explanation
Indices: 12988120--12988503 Score: 626
Period size: 198 Copynumber: 1.9 Consensus size: 199
12988110 CGATGCCAAA
* ** * *
12988120 CCCATGCCAGGACAGACGCCAAGGTATGCACCGTCACTGATGGCGGTACCGCTGCAGATACTTGT
1 CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATACTTGT
12988185 GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
66 GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
* *
12988250 ATGGTTACACGCCTATAGTGACCTAAACACCGCACACATCACTTTTTCATG-GGTTTCTGATACC
131 ATGGTTACACGCCTATAGTAACCCAAACACCGCACACATCACTTTTTCATGAGGTTTCTGATACC
12988314 GAAC
196 GAAC
* *
12988318 CCCATGCTAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATGCTTGT
1 CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATACTTGT
* * * * * *
12988383 GTAGCAATTGATGATGATGACGATGCCCGACAGGGTTTTGATGTACCCAATATTTGGGGCACCTT
66 GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
12988448 ATGGTTACACGCCTATAGTAACCCAAACACCGCACACATCACTTTTTCATGAGGTT
131 ATGGTTACACGCCTATAGTAACCCAAACACCGCACACATCACTTTTTCATGAGGTT
12988504 GGCTCATCAT
Statistics
Matches: 170, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
198 166 0.98
199 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (199 bp):
CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATACTTGT
GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
ATGGTTACACGCCTATAGTAACCCAAACACCGCACACATCACTTTTTCATGAGGTTTCTGATACC
GAAC
Found at i:12991395 original size:12 final size:12
Alignment explanation
Indices: 12991378--12991415 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
12991368 GTTGATAAAG
12991378 AAAATAAAATAA
1 AAAATAAAATAA
12991390 AAAAT-AAATAA
1 AAAATAAAATAA
12991401 GAAAATAAAATAA
1 -AAAATAAAATAA
12991414 AA
1 AA
12991416 TTAGAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.25
12 12 0.50
13 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Done.