Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold271
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: 858520
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 36313 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:200 original size:29 final size:30
Alignment explanation
Indices: 157--224 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
147 TTAAAATTTT
* * *
157 CAAAAAAGTATTTAA-CTTTTAAAAAATTG
1 CAAAAAAGAAATTAATCTTTTAAAAAATTA
* *
186 CAAAAAAGAAATTAATTTTTTTAAAAATTA
1 CAAAAAAGAAATTAATCTTTTAAAAAATTA
*
216 CAAGAAAGA
1 CAAAAAAGA
225 TGCCACATAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (30 bp):
CAAAAAAGAAATTAATCTTTTAAAAAATTA
Found at i:212 original size:30 final size:29
Alignment explanation
Indices: 147--224 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
137 GAAAACTTAA
* * * *
147 TTAAAATTTTCAAAAAAGTATTTAACTTT
1 TTAAAAATTACAAAAAAGAAATTAACTTT
* * *
176 TAAAAAATTGCAAAAAAGAAATTAATTTTT
1 TTAAAAATTACAAAAAAGAAATTAA-CTTT
*
206 TTAAAAATTACAAGAAAGA
1 TTAAAAATTACAAAAAAGA
225 TGCCACATAG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 20 0.51
30 19 0.49
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (29 bp):
TTAAAAATTACAAAAAAGAAATTAACTTT
Found at i:2001 original size:20 final size:21
Alignment explanation
Indices: 1976--2014 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1966 ACTAGTTAAT
1976 CTAAACCCT-AAACCATAAAC
1 CTAAACCCTAAAACCATAAAC
1996 CTAAACCCTAAAACCATAA
1 CTAAACCCTAAAACCATAA
2015 TTAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAAACCCTAAAACCATAAAC
Found at i:2056 original size:14 final size:14
Alignment explanation
Indices: 2039--2082 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
2029 ATAAACCCTA
2039 AACCCCTAACACTT
1 AACCCCTAACACTT
* *
2053 AACCCCTAACTCCT
1 AACCCCTAACACTT
*
2067 AACCCCTAACCCTT
1 AACCCCTAACACTT
2081 AA
1 AA
2083 ACCATAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:2056 original size:21 final size:21
Alignment explanation
Indices: 2032--2085 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
2022 ATAAATAATA
*
2032 AACCCTAAACCCCTAACACTT
1 AACCCTAAACCCCTAACACCT
* *
2053 AACCCCT-AACTCCTAACCCCT
1 AA-CCCTAAACCCCTAACACCT
2074 AACCCTTAAACC
1 AACCC-TAAACC
2086 ATAAATCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 7 0.27
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTAAACCCCTAACACCT
Found at i:2076 original size:28 final size:28
Alignment explanation
Indices: 2039--2103 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2029 ATAAACCCTA
* * * *
2039 AACCCCTAACACTTAACCCCTAACTCCT
1 AACCCCTAACACTTAAACCATAAATCAT
*
2067 AACCCCTAACCCTTAAACCATAAATCAT
1 AACCCCTAACACTTAAACCATAAATCAT
2095 AACCCCTAA
1 AACCCCTAA
2104 ACCCATAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (28 bp):
AACCCCTAACACTTAAACCATAAATCAT
Found at i:2097 original size:21 final size:22
Alignment explanation
Indices: 2073--2126 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2063 TCCTAACCCC
2073 TAACCCTTAAA-CCATAAAT-CA
1 TAACCCTTAAACCCAT-AATCCA
*
2094 TAACCCCTAAACCCATAATCCA
1 TAACCCTTAAACCCATAATCCA
*
2116 TAAACCTTAAA
1 TAACCCTTAAA
2127 ATGGTAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TAACCCTTAAACCCATAATCCA
Found at i:2532 original size:73 final size:73
Alignment explanation
Indices: 2371--2541 Score: 216
Period size: 73 Copynumber: 2.3 Consensus size: 73
2361 AGCATTAGCA
* * ** **
2371 GCGCTTTCCTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGCCGTTTTGGCTTAGGT
1 GCGCTTTCTTAAAAACGCCACTAAATCCCCCAAAGCTCACAAAACAACGCCGTTTTGGCTTAGGT
*
2436 TTTTTGCG
66 TCTTTGCG
* * * * *
2444 GCGCCTCCTCAAAAACGCCCCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAGGT
1 GCGCTTTCTTAAAAACGCCACTAAATCCCCCAAAGCTCACAAAACAACGCCGTTTTGGCTTAGGT
2509 TCTTTGCG
66 TCTTTGCG
* *
2517 GGGCTTTCTTGAAAACGCCACTAAA
1 GCGCTTTCTTAAAAACGCCACTAAA
2542 GCCCTGAGCA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (73 bp):
GCGCTTTCTTAAAAACGCCACTAAATCCCCCAAAGCTCACAAAACAACGCCGTTTTGGCTTAGGT
TCTTTGCG
Found at i:2735 original size:114 final size:114
Alignment explanation
Indices: 2441--2768 Score: 498
Period size: 113 Copynumber: 2.9 Consensus size: 114
2431 TAGGTTTTTT
* * * **
2441 GCGGCGC-CTCCTCAAAAACGCCCCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTT
1 GCGGCGCTTTCCT-AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTT
* * * ** *
2505 AGGTTCTTTGCGGGGCTTTCTTGAAAACGCCACTAAAGCCCTGAGCATTA
65 AGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
2555 GCGGCGCTTT-CTTAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
*
2619 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGTCCTGAGCATTA
66 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
2668 GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
1 GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
*
2733 GGTTTTTTGCGGCGCTTCCTCAAAAATGCCGCTAAA
66 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
2769 TCCCCCAAAG
Statistics
Matches: 195, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
113 98 0.50
114 96 0.49
115 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:2758 original size:73 final size:72
Alignment explanation
Indices: 2668--2841 Score: 240
Period size: 73 Copynumber: 2.4 Consensus size: 72
2658 CTGAGCATTA
* * *
2668 GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
1 GCGGCGC-TTCCTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTTGGCTTA
*
2733 GGTTTTTT
65 GGTTCTTT
*
2741 GCGGCGCTTCCTCAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTTGGCTTA
1 GCGGCGCTTCCT-AAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTTGGCTTA
2806 GGTTCTTT
65 GGTTCTTT
* * * *
2814 GCAGCGCTTTCTTGAAAACACCGCTAAA
1 GCGGCGC-TTCCTAAAAACGCCGCTAAA
2842 GCCCTGAGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 5 0.06
73 80 0.90
74 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (72 bp):
GCGGCGCTTCCTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTTGGCTTAG
GTTCTTT
Found at i:2888 original size:187 final size:187
Alignment explanation
Indices: 2555--3029 Score: 720
Period size: 187 Copynumber: 2.5 Consensus size: 187
2545 CTGAGCATTA
* * * * *
2555 GCGGCGCTTTCT-TAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
* * * * *
2619 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCCTAAA
66 GGTTCTTTGC-GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCCTAAA
*
2684 AACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAG-GTTTTTT
130 AACGCCACTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGAGTTTTTT
* *
2741 GCGGCGCTTCCTCAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
* * * *
2806 GGTTCTTTGCAGCGCTTTCTTGAAAACACCGCTAAAGCCCTGAGCATTTGCAGCGCTTTCTTAAA
66 GGTTCTTTGC-GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCCTAAA
* * *
2871 AACGCCACTAAATCCCCGAAAGCTCACAAAACGGTGTTGTTTTGGCTTAGATTTTTTT
130 AACGCCACTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGAGTTTTTT
*
2929 GCGGCGCTTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
2994 GGTTCTTTGCGACGCTTTCTTAAAAACGCCGCTAAA
66 GGTTCTTTGCG-CGCTTTCTTAAAAACGCCGCTAAA
3030 TCCTCGAAAG
Statistics
Matches: 260, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
186 11 0.04
187 149 0.57
188 100 0.38
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (187 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
GGTTCTTTGCGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCCTAAAA
ACGCCACTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGAGTTTTTT
Found at i:3040 original size:73 final size:73
Alignment explanation
Indices: 2852--3247 Score: 535
Period size: 73 Copynumber: 5.4 Consensus size: 73
2842 GCCCTGAGCA
* * ** *
2852 TTTGCAGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACGGTGTTGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTTTGGC
* *
2917 TTAGATTTT
66 TTAG-GTTC
* * * *
2926 TTTGCGGCGCTTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTTTGGC
2991 TTAGGTTC
66 TTAGGTTC
* * * *
2999 TTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCACAAAACGGCGTTGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTTTGGC
*
3064 TTAGGTTT
66 TTAGGTTC
*
3072 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAAC-AGCGTCGTTTTGG
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGA-CGTCGTTTTGG
3136 CTTAGGTT-
65 CTTAGGTTC
* * * * * * * *
3144 TTTTCGGTGCCTCCTCAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGA
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTTTGGC
3209 TTAGGTTC
66 TTAGGTTC
3217 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
3248 GCTTATTGTT
Statistics
Matches: 279, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
72 61 0.22
73 158 0.57
74 60 0.22
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (73 bp):
TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTTTGGC
TTAGGTTC
Found at i:3229 original size:145 final size:146
Alignment explanation
Indices: 2868--3247 Score: 539
Period size: 145 Copynumber: 2.6 Consensus size: 146
2858 GCGCTTTCTT
* * *
2868 AAAAACGCCACTAAATCCCCGAAAGCTCACAAAACGGTGTTGTTTTGGCTTAGATTTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAG-GTTTTTTGCGG
* * *
2933 CGCTTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTT
65 CGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTT
* * *
2998 CTTTGCGACGCTTTCTT
130 CTTTGCGACGCCTCCTC
*
3015 AAAAACGCCGCTAAATCCTCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGGC
* *
3080 GCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAAC-AGCGTCGTTTTGGCTTAGGTT
66 GCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGA-CGTCGTTTTGGCTTAGGTT
* **
3144 -TTTTCGGTGCCTCCTC
130 CTTTGCGACGCCTCCTC
* * * * * *
3160 AAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGATTAGGTTCTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGGC
3225 GCTTTCTTAAAAACGCCGCTAAA
66 GCTTTCTTAAAAACGCCGCTAAA
3248 GCTTATTGTT
Statistics
Matches: 210, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
145 92 0.44
146 68 0.32
147 50 0.24
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (146 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGGC
GCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTC
TTTGCGACGCCTCCTC
Found at i:3238 original size:218 final size:220
Alignment explanation
Indices: 2852--3247 Score: 661
Period size: 218 Copynumber: 1.8 Consensus size: 220
2842 GCCCTGAGCA
* * *
2852 TTTGCAGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACGGTGTTGTTTTGGC
1 TTTGCAGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACAGCGTCGTTTTGGC
* *
2917 TTAGATTTTTTTGCGGCGCTTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGT
66 TTAGAGTTTTTTGCGGCGCCTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGT
*
2982 CGTTTTGGCTTAGGTTCTTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCACAA
131 CGTTTTGGATTAGGTTCTTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCACAA
3047 AACGGCGTTGTTTTGGCTTAGGTTT
196 AACGGCGTTGTTTTGGCTTAGGTTT
* * *
3072 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACAGCGTCGTTTTGGC
1 TTTGCAGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACAGCGTCGTTTTGGC
* * *
3137 TTAG-GTTTTTT-CGGTGCCTCCTCAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGACGT
66 TTAGAGTTTTTTGCGGCGCCTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGT
*
3200 CGTTTTGGATTAGGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
131 CGTTTTGGATTAGGTTCTTTGCGACGCTTTCTTAAAAACGCCGCTAAA
3248 GCTTATTGTT
Statistics
Matches: 163, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
218 94 0.58
219 6 0.04
220 63 0.39
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (220 bp):
TTTGCAGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACAGCGTCGTTTTGGC
TTAGAGTTTTTTGCGGCGCCTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGT
CGTTTTGGATTAGGTTCTTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCACAA
AACGGCGTTGTTTTGGCTTAGGTTT
Found at i:6808 original size:14 final size:14
Alignment explanation
Indices: 6789--6827 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
6779 TTGTTTCACT
6789 GAAAATGACTTCCG
1 GAAAATGACTTCCG
* *
6803 GAAAATGATTTCTG
1 GAAAATGACTTCCG
6817 GAAAATGACTT
1 GAAAATGACTT
6828 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:7674 original size:21 final size:24
Alignment explanation
Indices: 7629--7674 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7619 TATGATATGC
*
7629 AATCTTAGAAGATATTGATTTTGT
1 AATCTTAGAAGATATTGAATTTGT
7653 AATCTTAG-AGAT-TT-AATTTGT
1 AATCTTAGAAGATATTGAATTTGT
7674 A
1 A
7675 GATACCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 4 0.19
24 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (24 bp):
AATCTTAGAAGATATTGAATTTGT
Found at i:14487 original size:28 final size:26
Alignment explanation
Indices: 14449--14516 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 26
14439 AATAAACACC
14449 AAAAAATTATTTTAAAAATAAAAAAATA
1 AAAAAATTATTTTAAAAAT--AAAAATA
14477 AAAAAATTATTTTAAAAATAAAAATA
1 AAAAAATTATTTTAAAAATAAAAATA
14503 AAAAATATATATTT
1 AAAAA-AT-TATTT
14517 ATTATATTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 12 0.32
27 2 0.05
28 24 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAAAATTATTTTAAAAATAAAAATA
Found at i:14517 original size:27 final size:28
Alignment explanation
Indices: 14449--14517 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
14439 AATAAACACC
14449 AAAAAAT-TAT-TTTAAAAATAAAAAAAT
1 AAAAAATATATATTTAAAAAT-AAAAAAT
14476 AAAAAA-AT-TATTTTAAAAAT-AAAAAT
1 AAAAAATATATA-TTTAAAAATAAAAAAT
14502 AAAAAATATATATTTA
1 AAAAAATATATATTTA
14518 TTATATTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
26 13 0.35
27 13 0.35
28 11 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAAAATATATATTTAAAAATAAAAAAT
Found at i:14987 original size:24 final size:24
Alignment explanation
Indices: 14955--15004 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14945 CCAAAAAGTG
14955 CAATGGATTGAACCTTGAAGATTA
1 CAATGGATTGAACCTTGAAGATTA
14979 CAATGGATTGAACCTTGAAGATTA
1 CAATGGATTGAACCTTGAAGATTA
15003 CA
1 CA
15005 GCGGGGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (24 bp):
CAATGGATTGAACCTTGAAGATTA
Found at i:15356 original size:44 final size:44
Alignment explanation
Indices: 15288--15561 Score: 213
Period size: 44 Copynumber: 6.2 Consensus size: 44
15278 TGAAACCACA
* * *
15288 AATCCTATCTCTCTAAGGTTGCAGTGGAGCGA-ATTAAAGTTAC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCGAGATTAAAGTTAC
* * **
15331 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGC-AGACTGAAGAAAGC
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCGAGATTAAAGTTA-C
* * * * *
15376 AAGTCTTATC-CCCTTGAAGTTGTAGTGG-G-GTAGACTGAAGATGAC
1 AA-TCTTATCTCCC-TAAAGTTGCAGTGGAGCG-AGATTAAAG-TTAC
* * * ** *
15421 GAATCTAATCTCCCTGAAGTTGCAGTGGAGC-AAATTAAAGCCAGT
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGCGAGATTAAAGTTA-C
* *
15466 AATCCTATCTCCCTAAAGTTACAGTGGAGC-AGATTAAAGTTAC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCGAGATTAAAGTTAC
*
15509 ATATCTTATCTCCCTGAAGTTGCAGTGGAGCGA-ATTAAAGTTAC
1 A-ATCTTATCTCCCTAAAGTTGCAGTGGAGCGAGATTAAAGTTAC
15553 AAGTCTTAT
1 AA-TCTTAT
15562 TGAAGAAAGC
Statistics
Matches: 186, Mismatches: 30, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.03
44 115 0.62
45 59 0.32
46 7 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCGAGATTAAAGTTAC
Found at i:15995 original size:44 final size:44
Alignment explanation
Indices: 15900--16018 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
15890 AAACCTTATC
* * * * *
15900 TCTCTGAAGTTACAGAGGAGCAGGTTGAAAATACCAATCTTATC
1 TCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACCAATCCTATA
* ** * *
15944 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAGTCCTATA
1 TCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACCAATCCTATA
*
15988 TCTCTGAAGTTGCAGTGGAGCGGATT-AAAAT
1 TCTCTGAAGTTGCAGTGGAGCAGATTGAAAAT
16019 GATGATACCT
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
43 3 0.05
44 58 0.95
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACCAATCCTATA
Found at i:16006 original size:181 final size:179
Alignment explanation
Indices: 15575--15973 Score: 468
Period size: 181 Copynumber: 2.2 Consensus size: 179
15565 AGAAAGCAAG
* * * * ** * *
15575 TCTTATCCCCCTGAAGTTGCAGTGCG-GCAAACTGAAGATAACGAATCTTATTTTCCTGAAGCTG
1 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACTGAAGATATCAAATCTCGTTTCCCTGAAGTTG
* * * * * * *
15639 CAGTGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATC
65 CAGTGGAAAAGATCAAAGCTATAAATCAAAAATATTATCTCTCTAAAGTTGCAGTAGAGCAGATC
* * * * * *
15704 ATCACAAATCTTATCTCTTTGAAGTTGCAGCGGAATGGATTGAAGTGAAG
130 ATCACAAACCTTATCTCTCTGAAGTTACAGAGGAATGGATTGAAATGAAA
15754 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAATCTCGTTTCCCTGAAGATTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAATCTCGTTTCCCTGAAG-TTG
15819 CAGTGGAAAAGATCAAAGCTATAAATCATAAAATATTATCTCTCTAAAGTTGCAGTAGAGCA-AT
65 CAGTGGAAAAGATCAAAGCTATAAATCA-AAAATATTATCTCTCTAAAGTTGCAGTAGAGCAGA-
15883 TCA-CATCAAACCTTATCTCTCTGAAGTTACAGAGGAGCA-GG-TTGAAAAT-ACCAA
128 TCATCA-CAAACCTTATCTCTCTGAAGTTACAGAGGA--ATGGATTG-AAATGA--AA
*
15937 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
15974 CTACTAGTCC
Statistics
Matches: 188, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
178 1 0.01
179 52 0.28
180 31 0.16
181 61 0.32
182 5 0.03
183 38 0.20
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (179 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAATCTCGTTTCCCTGAAGTTGC
AGTGGAAAAGATCAAAGCTATAAATCAAAAATATTATCTCTCTAAAGTTGCAGTAGAGCAGATCA
TCACAAACCTTATCTCTCTGAAGTTACAGAGGAATGGATTGAAATGAAA
Found at i:16262 original size:89 final size:89
Alignment explanation
Indices: 16111--16356 Score: 375
Period size: 89 Copynumber: 2.8 Consensus size: 89
16101 ACAATAGCAA
* * * *
16111 ATCTTATCTTCCTGTATTGGCAGCGAAGCAAATCAAAGACACCAGCCTTGCCTCCTTGAGTTTGC
1 ATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGC
* *
16176 AGTAGAGCAGACTGAAGATAACAG
66 AGTAGAGCAGACTAAAAATAACAG
*
16200 ATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGC
1 ATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGC
* *
16265 AGCAGAGCAGACTAAAAATAGCAG
66 AGTAGAGCAGACTAAAAATAACAG
* * * *
16289 ATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTGCCTCTCTGAGTTTGC
1 ATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGC
16354 AGT
66 AGT
16357 GGAGTAGGTT
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 142 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (89 bp):
ATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGC
AGTAGAGCAGACTAAAAATAACAG
Found at i:16274 original size:44 final size:44
Alignment explanation
Indices: 16137--16275 Score: 138
Period size: 44 Copynumber: 3.1 Consensus size: 44
16127 TTGGCAGCGA
* * * *
16137 AGCAAATCAAAGACACCAGCCTTGCCTCCTTGAGTTTGCAGTAG
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
* * * * * * *
16181 AGCAGA-CTGAAGATAACAGATCTTGTCTTCCTGTA-TTGGCAGCAA
1 AGCAGATC-GAAGACACCAG-CCTTGCCTCCCTG-AGTTTGCAGCAG
16226 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
16270 AGCAGA
1 AGCAGA
16276 CTAAAAATAG
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
43 2 0.03
44 37 0.51
45 31 0.43
46 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (44 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
Found at i:16357 original size:44 final size:44
Alignment explanation
Indices: 16225--16357 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 44
16215 ATTGGCAGCA
* * *
16225 AAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAG-C
1 AAGCAGATCGAAAACACCAGCCTTGCCTCTCTGAGTTTGCAGTG
* * * * * * *
16268 AGAGCAGA-CTAAAAATAGCAGATCTTGTCT-TCCTGTA-CTGGCAGTG
1 A-AGCAGATC-GAAAACACCAG-CCTTGCCTCT-CTG-AGTTTGCAGTG
16314 AAGCAGATCGAAAACACCAGCCTTGCCTCTCTGAGTTTGCAGTG
1 AAGCAGATCGAAAACACCAGCCTTGCCTCTCTGAGTTTGCAGTG
16358 GAGTAGGTTG
Statistics
Matches: 64, Mismatches: 17, Indels: 17
0.65 0.17 0.17
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 29 0.45
46 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (44 bp):
AAGCAGATCGAAAACACCAGCCTTGCCTCTCTGAGTTTGCAGTG
Found at i:16380 original size:89 final size:88
Alignment explanation
Indices: 16104--16390 Score: 369
Period size: 89 Copynumber: 3.2 Consensus size: 88
16094 CAGGCTGACA
* * *
16104 ATAGCAAATCTTATCTTCCTGTATTGGCAGCGAAGCAAATC-AAAGACACCAGCCTTGCCTCCTT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAA-ACACCAGCCTTGCCTCC-T
16168 GAGTTTGCAGTAGAGCAGACTGAAG
64 GAGTTTGCAGTAGAGCAGACTGAAG
* * *
16193 ATAACAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTTGCCT-CCTG
* * *
16258 AGTTTGCAGCAGAGCAGACTAAAA
65 AGTTTGCAGTAGAGCAGACTGAAG
* *
16282 ATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTGCCTCTCTG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTTGCCTC-CTG
* * **
16347 AGTTTGCAGTGGAGTAGGTTGAAG
65 AGTTTGCAGTAGAGCAGACTGAAG
* * *
16371 ATTGTAGATCCTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCT
16391 AAGCAGTAGT
Statistics
Matches: 171, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 166 0.97
90 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (88 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCTGA
GTTTGCAGTAGAGCAGACTGAAG
Found at i:16525 original size:44 final size:44
Alignment explanation
Indices: 16468--16667 Score: 153
Period size: 44 Copynumber: 4.6 Consensus size: 44
16458 AGCCACCAGC
16468 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAAAT
1 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAAAT
* * * *
16512 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TG-ACGAAT
1 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTA--AAT
* * * * ***** *
16556 CTTATCTTCCC-GAG-A-TAGTAGGAAG-CGGATTTAAG-CCACCAGT
1 CCTATC-TCCCTAAGCAGTAGT-GG-AGTAGG-TTGAAGATTGTAAAT
*
16599 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATAT
1 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAAAT
*
16643 CCTGTCTCCCTAAGCAGTAGTGGAG
1 CCTATCTCCCTAAGCAGTAGTGGAG
16668 CAGATCAAAG
Statistics
Matches: 118, Mismatches: 25, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
42 9 0.08
43 22 0.19
44 79 0.67
45 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAAAT
Found at i:16649 original size:131 final size:130
Alignment explanation
Indices: 16354--16743 Score: 573
Period size: 131 Copynumber: 3.0 Consensus size: 130
16344 CTGAGTTTGC
* * * * *
16354 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTTCCTAAGCAGTAGTGAAGTATATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* *
16419 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACCAGCCCTATCTCCCTAAGCA
66 CGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCCACCAG-CCTATCTCCCTAAGCA
16484 GT
129 GT
* ** * *
16486 AGTGGAGTAGGTTGAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGA
1 AGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* *
16551 CGAATCTTATCTTCCCGAGATAGTAGGAAGCGGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
66 CGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAG-CCTATCTCCCTAAGCAG
16616 T
130 T
*
16617 AGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * *
16682 CGAGTCTTATCTTCTCGAGGTAGTAGTGAAGCAAATTTAAGCCACCAGCCTTATCTCCCTAA
66 CGAATCTTATCTTCCCGAGGTAGTAG-GAAGCAGATTTAAGCCACCAGCC-TATCTCCCTAA
16744 AGTTGCAGTA
Statistics
Matches: 230, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
131 122 0.53
132 108 0.47
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (130 bp):
AGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
CGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTATCTCCCTAAGCAGT
Found at i:17196 original size:17 final size:17
Alignment explanation
Indices: 17174--17216 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
17164 ATGGAAACAT
17174 AATCTTCAAG-GATATGC
1 AATCTT-AAGTGATATGC
17191 AATCTTAAGTATGATATGC
1 AATCTTAAG--TGATATGC
17210 AATCTTA
1 AATCTTA
17217 GAAGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 6 0.26
19 14 0.61
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (17 bp):
AATCTTAAGTGATATGC
Found at i:17225 original size:17 final size:19
Alignment explanation
Indices: 17184--17225 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
17174 AATCTTCAAG
*
17184 GATATGCAATCTTAAGTAT
1 GATATGCAATCTTAAGTAA
17203 GATATGCAATCTT-AG-AA
1 GATATGCAATCTTAAGTAA
17220 GATATG
1 GATATG
17226 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAAGTAA
Found at i:20352 original size:21 final size:18
Alignment explanation
Indices: 20322--20361 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
20312 ATGATTTTTG
20322 GAAAATTGATTAATTTTCTA
1 GAAAATTGA-T-ATTTTCTA
20342 GAAAACTTGATATTTTCTA
1 GAAAA-TTGATATTTTCTA
20361 G
1 G
20362 TGTTTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (18 bp):
GAAAATTGATATTTTCTA
Found at i:21304 original size:17 final size:16
Alignment explanation
Indices: 21266--21300 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21256 ACAAGTACTC
21266 ATATTTATATTATAAA
1 ATATTTATATTATAAA
21282 ATATTTATTATTA-AAA
1 ATATTTA-TATTATAAA
21298 ATA
1 ATA
21301 ATTTCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTATATTATAAA
Found at i:25999 original size:110 final size:110
Alignment explanation
Indices: 25823--26042 Score: 334
Period size: 110 Copynumber: 2.0 Consensus size: 110
25813 GGGCACGCGG
* * *
25823 TCGTGTCTCAGCCAGTGTCTATACCTGTGTAACTCTCTGGCTTGGATCACACAGCCGAACCACAC
1 TCGTGTCCCAGCCAGTGTCTATACCTGTGTAACTCTCTGACTTGGATCACACAGCCAAACCACAC
* * *
25888 GCCCGTGTGCTAGATCGTATGCCCTTTCGAAATGGCCTCACACGC
66 GCCCATGTGCCAGACCGTATGCCCTTTCGAAATGGCCTCACACGC
* * *
25933 TCGTGTCCCAGCC-GATGTTTATACCTGTGTAACTCTCTGACTTGGGTCACACGGCCAAACCACA
1 TCGTGTCCCAGCCAG-TGTCTATACCTGTGTAACTCTCTGACTTGGATCACACAGCCAAACCACA
*
25997 CGCCCATGTGCCAGACCGTGTGCCCTTTCGAAATGGCCTCACACGC
65 CGCCCATGTGCCAGACCGTATGCCCTTTCGAAATGGCCTCACACGC
26043 CCGTATGCTA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.01
110 98 0.99
ACGTcount: A:0.20, C:0.34, G:0.22, T:0.25
Consensus pattern (110 bp):
TCGTGTCCCAGCCAGTGTCTATACCTGTGTAACTCTCTGACTTGGATCACACAGCCAAACCACAC
GCCCATGTGCCAGACCGTATGCCCTTTCGAAATGGCCTCACACGC
Found at i:27085 original size:41 final size:40
Alignment explanation
Indices: 26987--27098 Score: 142
Period size: 37 Copynumber: 2.8 Consensus size: 40
26977 TCGGATACTT
*
26987 CGAAGTAGTAAATTGACACCCAGTGTCTCATC-AGTTAAAC
1 CGAAGTA-TAAATTGACACCCAGTGTCTCATCGAGATAAAC
*
27027 CGAAG--TAAATTGACACCCAGTGCCTCATCGA-ATAAATC
1 CGAAGTATAAATTGACACCCAGTGTCTCATCGAGATAAA-C
*
27065 TGAAGTAATAAATTGACACCCAGTGTCTCATCGA
1 CGAAGT-ATAAATTGACACCCAGTGTCTCATCGA
27099 CTCGAAGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
37 27 0.43
38 6 0.10
40 5 0.08
41 25 0.40
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (40 bp):
CGAAGTATAAATTGACACCCAGTGTCTCATCGAGATAAAC
Found at i:27548 original size:19 final size:20
Alignment explanation
Indices: 27511--27551 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27501 TACAACACAA
*
27511 TTCAATTTCATACTGAATAT
1 TTCAATTTCATACTCAATAT
*
27531 TTCAATTT-TTACTCAATAT
1 TTCAATTTCATACTCAATAT
27550 TT
1 TT
27552 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCAATTTCATACTCAATAT
Found at i:30830 original size:22 final size:22
Alignment explanation
Indices: 30802--30853 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
30792 TTGTACAGGT
30802 TTAGCACTTCAGTGCTCTCTAC
1 TTAGCACTTCAGTGCTCTCTAC
* **
30824 TTAGCACTTCAGTGTTCTCTGT
1 TTAGCACTTCAGTGCTCTCTAC
30846 TTAGCACT
1 TTAGCACT
30854 ACGATGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.27, G:0.15, T:0.40
Consensus pattern (22 bp):
TTAGCACTTCAGTGCTCTCTAC
Found at i:34211 original size:3 final size:3
Alignment explanation
Indices: 34145--34196 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
34135 AAAATAAAAC
* * *
34145 TAA TAA TAA TAAA TAG TAA TAA TAG TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34191 TAA TAA
1 TAA TAA
34197 ATGTAATGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:35812 original size:25 final size:25
Alignment explanation
Indices: 35732--35848 Score: 78
Period size: 25 Copynumber: 4.7 Consensus size: 25
35722 GTGACACACC
* *
35732 ACAGCTCTCTTGAGCTTCCCGATAT
1 ACAGCTCTCATGAGCTTCCCAATAT
*** * *
35757 TTGGCTCGCAAGAGCTTCCCAATAT
1 ACAGCTCTCATGAGCTTCCCAATAT
35782 ACAGCTCAT-ATGAGCTTCCCAAGTA-
1 ACAGCTC-TCATGAGCTTCCCAA-TAT
* * *
35807 ATAGCTCTCTTGAGCTTCCCGATACT
1 ACAGCTCTCATGAGCTTCCCAATA-T
**
35833 -TGGCTCTCATGAGCTT
1 ACAGCTCTCATGAGCTT
35849 TCTGATTAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
24 3 0.04
25 65 0.93
26 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (25 bp):
ACAGCTCTCATGAGCTTCCCAATAT
Found at i:35822 original size:50 final size:50
Alignment explanation
Indices: 35791--36054 Score: 350
Period size: 50 Copynumber: 5.3 Consensus size: 50
35781 TACAGCTCAT
* *
35791 ATGAGCTTCCCAAGTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
1 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* * * * * *
35841 ATGAGCTTTCTGATTAATAGCTCTTTTGAGCTTCCCTATACTTTGCTTTC
1 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* *
35891 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCTCGATACTTTGCTCTC
1 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* * * *
35941 ATGAGCTTCGCAATTAATAACTCTTTTGAGCTTCCCGATACTTGGCTCTC
1 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* * **
35991 ATGAGCTTCCCGATTAATATCTCTCTTAAGCTTCCCGATAAATGGCT-TGC
1 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCT-C
36041 ATGAGCTTCCCGAT
1 ATGAGCTTCCCGAT
36055 ATACAACTCA
Statistics
Matches: 186, Mismatches: 27, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
49 1 0.01
50 185 0.99
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (50 bp):
ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
Found at i:35863 original size:25 final size:25
Alignment explanation
Indices: 35807--36055 Score: 109
Period size: 25 Copynumber: 10.0 Consensus size: 25
35797 TTCCCAAGTA
* *
35807 ATAGCTCTCTTGAGCTTCCCGATAC
1 ATAGCTCTCATGAGCTTCCTGATAC
* * *
35832 TTGGCTCTCATGAGCTTTCTGATTA-
1 ATAGCTCTCATGAGCTTCCTGA-TAC
**
35857 ATAGCTCTTTTGAGCTTCCCT-ATAC
1 ATAGCTCTCATGAGCTT-CCTGATAC
* * * *
35882 TTTGCTTTCATGAGCTTCCCGATTA-
1 ATAGCTCTCATGAGCTTCCTGA-TAC
*
35907 ATAGCTCTCTTGAGCTT-CTCGATAC
1 ATAGCTCTCATGAGCTTCCT-GATAC
* * *
35932 TTTGCTCTCATGAGCTTCGC-AATTA-
1 ATAGCTCTCATGAGCTTC-CTGA-TAC
* ** *
35957 ATAACTCTTTTGAGCTTCCCGATAC
1 ATAGCTCTCATGAGCTTCCTGATAC
* * *
35982 TTGGCTCTCATGAGCTTCCCGATTA-
1 ATAGCTCTCATGAGCTTCCTGA-TAC
* * * * *
36007 ATATCTCTCTTAAGCTTCCCGATAA
1 ATAGCTCTCATGAGCTTCCTGATAC
* *
36032 ATGGCT-TGCATGAGCTTCCCGATA
1 ATAGCTCT-CATGAGCTTCCTGATA
36056 TACAACTCAC
Statistics
Matches: 164, Mismatches: 45, Indels: 30
0.69 0.19 0.13
Matches are distributed among these distances:
24 13 0.08
25 140 0.85
26 10 0.06
27 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (25 bp):
ATAGCTCTCATGAGCTTCCTGATAC
Found at i:39712 original size:51 final size:51
Alignment explanation
Indices: 39643--39819 Score: 171
Period size: 51 Copynumber: 3.5 Consensus size: 51
39633 TGTGGCATGG
* * * *
39643 ACTATGTGTAGGCCACTATGTGAAATTGAAAGTGATGGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAATGGATAGTGATGGTCACGTGTGTAGT
* ** * *
39694 ACTATGTGCAGGCTACTATGCT-TACCGGATAGCT-TTGATCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATG-TGAAATGGATAG-TGATGGTCACGTGTGTAGT
* * * * * *
39745 ACTATGTGTAGGCTACTACGTG-TATCGGTTAGTGATGGTCACATTTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAT-GGATAGTGATGGTCACGTGTGTAGT
39796 ACTATGTGCAGGCTACTATGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
39820 CCGGTATCAT
Statistics
Matches: 98, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
50 2 0.02
51 94 0.96
52 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
ACTATGTGCAGGCTACTATGTGAAATGGATAGTGATGGTCACGTGTGTAGT
Found at i:42268 original size:11 final size:11
Alignment explanation
Indices: 42252--42290 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
42242 TATATAAATA
42252 TATAAATTAAT
1 TATAAATTAAT
*
42263 TATAAAGTATAT
1 TATAAATTA-AT
42275 TATTAAATTAAT
1 TA-TAAATTAAT
42287 TATA
1 TATA
42291 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:42302 original size:14 final size:17
Alignment explanation
Indices: 42270--42307 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
42260 AATTATAAAG
42270 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
42287 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
42301 TATATTA
1 TATATTA
42308 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:42449 original size:5 final size:6
Alignment explanation
Indices: 42432--42456 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42422 AGGGGAAAGG
42432 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
42457 CTAGAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:51589 original size:19 final size:20
Alignment explanation
Indices: 51562--51599 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
51552 TAGAATTATA
51562 TTTACATAAGATAA-TAAAAT
1 TTTACATAA-ATAATTAAAAT
51582 TTTA-ATAAATAATTAAAA
1 TTTACATAAATAATTAAAA
51600 ATACCTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
TTTACATAAATAATTAAAAT
Found at i:62767 original size:20 final size:20
Alignment explanation
Indices: 62729--62767 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62719 CTGAATTTAA
* *
62729 CAAAAAAAATTTAATATATG
1 CAAAAAAAATGTAAAATATG
*
62749 CAAAAACAATGTAAAATAT
1 CAAAAAAAATGTAAAATAT
62768 AAAATTTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (20 bp):
CAAAAAAAATGTAAAATATG
Found at i:63178 original size:16 final size:16
Alignment explanation
Indices: 63159--63212 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
63149 GCTGTAATAA
63159 AATAGAGTTATAATGG
1 AATAGAGTTATAATGG
63175 AATAGAGTTGA-AATGG
1 AATAGAGTT-ATAATGG
**
63191 AATAGAACTATAATGG
1 AATAGAGTTATAATGG
63207 AATAGA
1 AATAGA
63213 ACTGTAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (16 bp):
AATAGAGTTATAATGG
Found at i:63213 original size:16 final size:16
Alignment explanation
Indices: 63167--63220 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
63157 AAAATAGAGT
**
63167 TATAATGGAATAGAGT
1 TATAATGGAATAGAAC
63183 TGA-AATGGAATAGAAC
1 T-ATAATGGAATAGAAC
63199 TATAATGGAATAGAAC
1 TATAATGGAATAGAAC
*
63215 TGTAAT
1 TATAAT
63221 CAGTAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (16 bp):
TATAATGGAATAGAAC
Found at i:65706 original size:34 final size:34
Alignment explanation
Indices: 65663--65765 Score: 206
Period size: 34 Copynumber: 3.0 Consensus size: 34
65653 AAGAAAAGAA
65663 GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
1 GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
65697 GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
1 GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
65731 GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
1 GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
65765 G
1 G
65766 TTTTATTGAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.50, C:0.17, G:0.21, T:0.12
Consensus pattern (34 bp):
GAAAAAAAAAAGGTTGCAACTCTGCAACCAAAGG
Found at i:66436 original size:23 final size:22
Alignment explanation
Indices: 66404--66465 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
66394 CCCGGCCCAT
*
66404 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
66428 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
66450 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
66466 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:66460 original size:16 final size:16
Alignment explanation
Indices: 66439--66495 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
66429 TTTTATTAAA
*
66439 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
66455 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
* *
66471 ATCAAAATTAATTATT
1 ATTAAAATTAATTGTT
66487 ATTAAAATT
1 ATTAAAATT
66496 GTATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:79342 original size:24 final size:27
Alignment explanation
Indices: 79306--79358 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
79296 TTTCACACAC
79306 TTTTATTAGATTTTTT-AGGGTTAGGG
1 TTTTATTAGATTTTTTAAGGGTTAGGG
79332 TTTT-TTA-ATTTTTTAAGGGTTAGGG
1 TTTTATTAGATTTTTTAAGGGTTAGGG
79357 TT
1 TT
79359 AAAGTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.27
25 15 0.58
26 4 0.15
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.57
Consensus pattern (27 bp):
TTTTATTAGATTTTTTAAGGGTTAGGG
Found at i:91022 original size:12 final size:11
Alignment explanation
Indices: 90996--91044 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
90986 TTTTTACAAG
*
90996 AATAAATAAAA
1 AATATATAAAA
*
91007 AATATATTATAA
1 AATATA-TAAAA
91019 AATATGATAAAA
1 AATAT-ATAAAA
*
91031 AATATAGAAAA
1 AATATATAAAA
91042 AAT
1 AAT
91045 TAGTCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 13 0.41
12 18 0.56
13 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (11 bp):
AATATATAAAA
Found at i:91180 original size:12 final size:11
Alignment explanation
Indices: 91159--91202 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
91149 TACAAGAAAA
91159 ATAAAAAATAT
1 ATAAAAAATAT
*
91170 ATTATAAAATAT
1 A-TAAAAAATAT
91182 GATAAAAAATAT
1 -ATAAAAAATAT
*
91194 AGAAAAAAT
1 ATAAAAAAT
91203 TAGTCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 9 0.32
12 18 0.64
13 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:91277 original size:158 final size:159
Alignment explanation
Indices: 90988--91304 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 159
90978 CATATTAATT
90988 TTTACAAGAATAAATAAAAAATATATTATAAAATATGATAAAAAATATAGAAAAAATTAGTCAAA
1 TTTACAAGAATAAATAAAAAATATATTATAAAATATGATAAAAAATATAGAAAAAATTAGTCAAA
91053 ATATTAGAAAGTTTTAAAAATGTTAAAAATGACAATAACTTATATTAGGATCATCCTAAAAAACA
66 ATATTAGAAAGTTTTAAAAATGTTAAAAATGACAATAACTTATATTAGGATCATCCTAAAAAACA
91118 TAATTTTTAGGCACCAATAAAATAGTGCC
131 TAATTTTTAGGCACCAATAAAATAGTGCC
91147 TTTACAAGAA-AAATAAAAAATATATTATAAAATATGATAAAAAATATAGAAAAAATTAGTCAAA
1 TTTACAAGAATAAATAAAAAATATATTATAAAATATGATAAAAAATATAGAAAAAATTAGTCAAA
91211 ATATTAGAAAGTTTTAAAAATGTTAAAAATGACAATAACTTATATTAGGATCATCCTAAAAAACA
66 ATATTAGAAAGTTTTAAAAATGTTAAAAATGACAATAACTTATATTAGGATCATCCTAAAAAACA
91276 TAATTTTTAGGCACCAATAAAATAGTGCC
131 TAATTTTTAGGCACCAATAAAATAGTGCC
91305 ACATCATTAA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 148 0.94
159 10 0.06
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (159 bp):
TTTACAAGAATAAATAAAAAATATATTATAAAATATGATAAAAAATATAGAAAAAATTAGTCAAA
ATATTAGAAAGTTTTAAAAATGTTAAAAATGACAATAACTTATATTAGGATCATCCTAAAAAACA
TAATTTTTAGGCACCAATAAAATAGTGCC
Found at i:91359 original size:103 final size:103
Alignment explanation
Indices: 91244--91442 Score: 317
Period size: 103 Copynumber: 1.9 Consensus size: 103
91234 TAAAAATGAC
* * **
91244 AATAACTTATATTAGGATCATCCTAAAAAACATAATTTTTAGGCACCAATAAAATAGTGCCACAT
1 AATAACTTATATTAGGATCATCCAAAAAAACATAATTTTTAGACACCAATAAAATAAAGCCACAT
* *
91309 CATTAAATTTTAAAGGTAACAAAGTATTATTATACGAG
66 CAGTAAATTTTAAAGATAACAAAGTATTATTATACGAG
* * *
91347 AATAACTTATATTAGGATCATCCAAAAAAACATAATTTTTAGACACTAATAAAATAAAGTCGCAT
1 AATAACTTATATTAGGATCATCCAAAAAAACATAATTTTTAGACACCAATAAAATAAAGCCACAT
91412 CAGTAAATTTTAAAGATAACAAAGTATTATT
66 CAGTAAATTTTAAAGATAACAAAGTATTATT
91443 GTACACCCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 87 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.31
Consensus pattern (103 bp):
AATAACTTATATTAGGATCATCCAAAAAAACATAATTTTTAGACACCAATAAAATAAAGCCACAT
CAGTAAATTTTAAAGATAACAAAGTATTATTATACGAG
Found at i:92636 original size:28 final size:28
Alignment explanation
Indices: 92587--92641 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
92577 CAAGTTAAAC
92587 ATATTGGGCCATTTACATAAAAATAAAAA
1 ATATTGGGCCATTTACATAAAAA-AAAAA
* *
92616 ATATTGGGTCATTTA-TTAAAAAAAAA
1 ATATTGGGCCATTTACATAAAAAAAAA
92642 GGACGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 6 0.25
29 14 0.58
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (28 bp):
ATATTGGGCCATTTACATAAAAAAAAAA
Found at i:93459 original size:35 final size:35
Alignment explanation
Indices: 93413--93483 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
93403 CAGCTATTTA
*
93413 CATAATTTTTTAGAGGTGGGCGTGATTTCAAGTTG
1 CATAACTTTTTAGAGGTGGGCGTGATTTCAAGTTG
93448 CATAACTTTTTAGAGGTGGGCGTGATTTCAAGTTG
1 CATAACTTTTTAGAGGTGGGCGTGATTTCAAGTTG
93483 C
1 C
93484 CAACTTAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (35 bp):
CATAACTTTTTAGAGGTGGGCGTGATTTCAAGTTG
Found at i:95949 original size:33 final size:33
Alignment explanation
Indices: 95907--95973 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
95897 TCAACTTAAG
* *
95907 CTCTTTTGTCTTCTTAAATTTCACTCCATAATT
1 CTCTTTTGTCTTCTCAAAATTCACTCCATAATT
95940 CTCTTTTGTCTTCTCAAAATTCACTCCATAATT
1 CTCTTTTGTCTTCTCAAAATTCACTCCATAATT
95973 C
1 C
95974 AAAGTCCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.03, T:0.48
Consensus pattern (33 bp):
CTCTTTTGTCTTCTCAAAATTCACTCCATAATT
Found at i:104517 original size:5 final size:5
Alignment explanation
Indices: 104504--104546 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
104494 GGTTCTTTAC
* *
104504 TATTG TATTT TATTT TATTT TATTT TAGTTT GATTGT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TA-TTT TATT-T TATTT T
104547 TCTTTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 25 0.76
6 8 0.24
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:106527 original size:29 final size:30
Alignment explanation
Indices: 106468--106525 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
106458 TCCGAGCCTT
*
106468 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
*
106498 GGGGC-AAAATCGTAATTTTGAAAAAGTT
1 GGGGCAAAAAT-GTAATTATGAAAAAGTT
106526 AGAGTCGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:119107 original size:89 final size:88
Alignment explanation
Indices: 118992--119566 Score: 290
Period size: 89 Copynumber: 6.5 Consensus size: 88
118982 CATTATGACG
* * * * * *
118992 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCTGAAGTTA
*
119057 CAGTAGAGCAGACT-AAATATAGCA
66 CAGCAGAGCAGACTGAAAT-TA-CA
* * *
119081 AATCTTATCTCCCTG-AGATTGCAGTGGAGTAGATTGAAGACACAAATCTCATCTC-CTTGAAGT
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTC-TGAAGT
* * * *
119144 TACAGCGGAGTAGATTGAAGTTACA
64 TACAGCAGAGCAGACTGAAATTACA
* * * * * *
119169 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGATAGTAAATCTTATCTCTCTGAGGTC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCTCTGAAGTT
* * * *
119234 GCAGCGGAGCAGATTGAAGA-CACA
65 ACAGCAGAGCAGACTGAA-ATTACA
* * * * ** * * * *
119258 AATGTCATCTCCTTAAAGTTGCAGCAGAGTAGATTGAAGTTACAAGTCTTATCTC-CTCAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCT-GAAGTT
** ** *
119322 GTAGTGGAGCAG-CTTGAAGGTTACA
65 ACAGCAGAGCAGAC-TGAA-ATTACA
* * ** * * * * * *
119347 AATATTGTCTCCCTGAAGTTTTAGTGGGGCGGATTGAAGTTATAGATCTTATCT-TCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCTGAAGTTA
** * * * *
119411 CAGTGGAGTAGATTGGAGA-TAGTA
66 CAGCAGAGCAGACT-GAAATTA-CA
* * * *
119435 AATCTTATCTCTCC-GAAGTTGCAGTAGAGCAGATT-AAAACTATAAACCTTATCTCAT-TGAAG
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAATCTTATCTC-TCTGAAG
** ** ** *
119497 TTGTAGTGGAGCAGGTTGAAAATAAACA
63 TTACAGCAGAGCAGACTG-AAAT-TACA
* * * * *
119525 AATCTTATTTCCCTAAAGTTACAGTGGAGTAAATTGAAGATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
119567 GGCTCCAAAT
Statistics
Matches: 371, Mismatches: 92, Indels: 45
0.73 0.18 0.09
Matches are distributed among these distances:
87 6 0.02
88 123 0.33
89 204 0.55
90 34 0.09
91 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCTGAAGTTA
CAGCAGAGCAGACTGAAATTACA
Found at i:119244 original size:45 final size:44
Alignment explanation
Indices: 118992--119876 Score: 445
Period size: 44 Copynumber: 19.6 Consensus size: 44
118982 CATTATGACG
* * * *
118992 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
119036 AGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAATATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* *
119081 AATCTTATCTCCCTG-AGATTGCAGTGGAGTAGATTGAAGACACA
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
119125 AATCTCATCTCCTTGAAGTTACAGCGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
119169 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGATAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
119214 AATCTTATCTCTCTGAGGTCGCAGCGGAGCAGATTGAAGACACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * ** * *
119258 AATGTCATCTCCTTAAAGTTGCAGCAGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
119302 AGTCTTATCT-CCTCAAAGTTGTAGTGGAGCAGCTTGAAGGTTACA
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAA-GATACA
* * ** * * * *
119347 AATATTGTCTCCCTGAAGTTTTAGTGGGGCGGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
119391 GATCTTATCT-TCTGAAGTTGCAGTGGAGTAGATTGGAGATAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * *
119435 AATCTTATCTCTCC-GAAGTTGCAGTAGAGCAGATT-AAAACTATA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* ** * * *
119479 AACCTTATCTCATTGAAGTTGTAGTGGAGCAGGTTGAAAATAAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--ACA
* * * * *
119525 AATCTTATTTCCCTAAAGTTACAGTGGAGTAAATTGAAGATAGGCTCCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-----CA
* * * * ***
119574 AATCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTAAAAGCCGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGATACA
* * * * * * * *
119619 AACCTTATCTCCCTAAAATTTCAATGGAGCAGTGTAGCAGGTTAAAAATAAAAA
1 AATCTTATCTCCCT-GAA-GT---T---GCAGTGGAGCAGATTGAAGAT--ACA
*** * *** * *
119673 AATCTTATCTTTTTGAAGTTACAACAGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *** * *
119717 CA-CTTTATCTCCCTGAGGTCATAGTGGAGTC-GATTGAAGACATA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGATACA
* * * *
119761 AAT-TGCATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCTATA
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *** * *
119805 AGTCTTATCTCCCTTAAGTTACAGTGGAATGGATCGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
119849 AGTCTTATCTCCCTGAAGTTGTAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
119877 TTCAATCGAA
Statistics
Matches: 623, Mismatches: 181, Indels: 74
0.71 0.21 0.08
Matches are distributed among these distances:
43 28 0.04
44 336 0.54
45 143 0.23
46 51 0.08
47 1 0.00
49 30 0.05
50 4 0.01
52 4 0.01
53 15 0.02
54 11 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:119339 original size:133 final size:134
Alignment explanation
Indices: 118992--119362 Score: 455
Period size: 133 Copynumber: 2.8 Consensus size: 134
118982 CATTATGACG
* * * * * *
118992 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT-CTCTGAAGTT
1 AATCTCATCTCCTTAAAGTTGCAGCGGAGTAGATTGAAGTTACAAGTCTTATCTCCTCTGAAGTT
* * * * *
119056 GCAGTAGAGCAGAC-TAAATATAGCAAATCTTATCTCCCTGAGATTGCAGTGGAGTAGATTGAAG
66 GCAGTAGAGCAG-CTTGAAGATAGCAAATCTTATCTCCCTGAGATCGCAGCGGAGCAGATTGAAG
119120 ACACA
130 ACACA
* *
119125 AATCTCATCTCCTTGAAGTTACAGCGGAGTAGATTGAAGTTACAAGTCTTATCTCC-CTGAAGTT
1 AATCTCATCTCCTTAAAGTTGCAGCGGAGTAGATTGAAGTTACAAGTCTTATCTCCTCTGAAGTT
** * * *
119189 GCAGTAGAGCAAATTGAAGATAGTAAATCTTATCTCTCTGAGGTCGCAGCGGAGCAGATTGAAGA
66 GCAGTAGAGCAGCTTGAAGATAGCAAATCTTATCTCCCTGAGATCGCAGCGGAGCAGATTGAAGA
119254 CACA
131 CACA
* * *
119258 AATGTCATCTCCTTAAAGTTGCAGCAGAGTAGATTGAAGTTACAAGTCTTATCTCCTC-AAAGTT
1 AATCTCATCTCCTTAAAGTTGCAGCGGAGTAGATTGAAGTTACAAGTCTTATCTCCTCTGAAGTT
* * * * *
119322 GTAGTGGAGCAGCTTGAAGGTTA-CAAATATTGTCTCCCTGA
66 GCAGTAGAGCAGCTTGAA-GATAGCAAATCTTATCTCCCTGA
119363 AGTTTTAGTG
Statistics
Matches: 202, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
133 197 0.98
134 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (134 bp):
AATCTCATCTCCTTAAAGTTGCAGCGGAGTAGATTGAAGTTACAAGTCTTATCTCCTCTGAAGTT
GCAGTAGAGCAGCTTGAAGATAGCAAATCTTATCTCCCTGAGATCGCAGCGGAGCAGATTGAAGA
CACA
Found at i:119875 original size:44 final size:44
Alignment explanation
Indices: 119767--119910 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
119757 CATAAATTGC
* * * *
119767 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCTATAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGCTACAAGTCTT
* * **
119811 ATCTCCCTTAAGTTACAGTGGAATGGATCGAAGCTACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGCTACAAGTCTT
* * * * *
119855 ATCTCCCTGAAGTTGTAGTGGATTCA-ATCGAAGCGACAATTCTG
1 ATCTCCCTGAAGTTGCAGTGGA-ACAGATCGAAGCTACAAGTCTT
119899 ATAC-CCCTGAAG
1 AT-CTCCCTGAAG
119911 ATACAGTGAG
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 80 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGCTACAAGTCTT
Found at i:123722 original size:20 final size:20
Alignment explanation
Indices: 123675--123722 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
123665 GAGCTAGAGA
* *
123675 TATCGATACTAAAGAAAAAT
1 TATCGATACCAAAGAAAAAG
* * *
123695 TATTGATACCAAATAAAAGG
1 TATCGATACCAAAGAAAAAG
123715 TATCGATA
1 TATCGATA
123723 TTGGATTGAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.27
Consensus pattern (20 bp):
TATCGATACCAAAGAAAAAG
Found at i:128492 original size:23 final size:24
Alignment explanation
Indices: 128452--128497 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
128442 GTGTTCATAG
*
128452 AGAAAAGAAAACAGAG-AACTAAA
1 AGAAAAGAAAACAAAGAAACTAAA
128475 AGAAAAGAACAA-AAAGAAACTAA
1 AGAAAAGAA-AACAAAGAAACTAA
128498 TGCAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.72, C:0.09, G:0.15, T:0.04
Consensus pattern (24 bp):
AGAAAAGAAAACAAAGAAACTAAA
Found at i:130949 original size:49 final size:49
Alignment explanation
Indices: 130894--130993 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
130884 TGTATGATTA
130894 AAAAAAAATTATGTACAAAATTAAACATAAACCAAACCCTTCACTCTCC
1 AAAAAAAATTATGTACAAAATTAAACATAAACCAAACCCTTCACTCTCC
*
130943 AAAAAAAATTATGTACAAAATTAAACATAAATCAAACCCTTCACTCTCC
1 AAAAAAAATTATGTACAAAATTAAACATAAACCAAACCCTTCACTCTCC
130992 AA
1 AA
130994 GTTATATCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.52, C:0.23, G:0.02, T:0.23
Consensus pattern (49 bp):
AAAAAAAATTATGTACAAAATTAAACATAAACCAAACCCTTCACTCTCC
Found at i:132451 original size:32 final size:32
Alignment explanation
Indices: 132414--132474 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
132404 ATTTAGCTTT
*
132414 AACTTTCAAATTTTAATTAAATTATTTTAGCC
1 AACTTTCAAAATTTAATTAAATTATTTTAGCC
*
132446 AACTTTTAAAATTTAATTAAATTATTTTA
1 AACTTTCAAAATTTAATTAAATTATTTTA
132475 TTTTGAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (32 bp):
AACTTTCAAAATTTAATTAAATTATTTTAGCC
Found at i:132611 original size:19 final size:20
Alignment explanation
Indices: 132577--132615 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
132567 AAAATTTGTC
132577 AAAATTTTAAGTATTTTTATT
1 AAAATTTTAAG-ATTTTTATT
132598 AAAATTTTAA-ATTTTTAT
1 AAAATTTTAAGATTTTTAT
132616 GNNNNNNNNN
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
AAAATTTTAAGATTTTTATT
Found at i:136523 original size:22 final size:21
Alignment explanation
Indices: 136490--136530 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
136480 AAATTAAATA
136490 TTATTTAAATA-CATATTTTT
1 TTATTTAAATACCATATTTTT
136510 TTATTGTACAATACCATATTT
1 TTATT-TA-AATACCATATTT
136531 AAAATAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 4 0.22
23 7 0.39
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATTTAAATACCATATTTTT
Found at i:137625 original size:31 final size:30
Alignment explanation
Indices: 137583--137640 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
137573 TACACTAATG
* *
137583 GTCACTCAACTTCGATTAAAATAACAAAATA
1 GTCACTAAACTT-GAGTAAAATAACAAAATA
*
137614 GTCACTAAACTTTAGTAAAATAACAAA
1 GTCACTAAACTTGAGTAAAATAACAAA
137641 CCAGTCACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (30 bp):
GTCACTAAACTTGAGTAAAATAACAAAATA
Found at i:141395 original size:35 final size:35
Alignment explanation
Indices: 141349--141422 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
141339 AATGGCAGAC
* * *
141349 AATAACGAAAGAAATCTAAACCTGCCATACACTTT
1 AATAACCAAAGAAATCCAAACATGCCATACACTTT
* *
141384 AATAACCAAAGAAATCCAAATATGTCATACACTTT
1 AATAACCAAAGAAATCCAAACATGCCATACACTTT
141419 AATA
1 AATA
141423 CAAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (35 bp):
AATAACCAAAGAAATCCAAACATGCCATACACTTT
Found at i:144093 original size:20 final size:20
Alignment explanation
Indices: 144068--144105 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
144058 CATCAATGTC
144068 TCTTATTTCTTTTTTTTCTT
1 TCTTATTTCTTTTTTTTCTT
144088 TCTTATTTCTTTTTTTTC
1 TCTTATTTCTTTTTTTTC
144106 AAGAGTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTATTTCTTTTTTTTCTT
Found at i:153309 original size:7 final size:7
Alignment explanation
Indices: 153299--153391 Score: 59
Period size: 7 Copynumber: 13.7 Consensus size: 7
153289 CTGAATCTTG
153299 AGGTTTA
1 AGGTTTA
*
153306 AGGTTTG
1 AGGTTTA
* *
153313 GGGTTTG
1 AGGTTTA
*
153320 A-GTTTT
1 AGGTTTA
*
153326 AGGTTTG
1 AGGTTTA
153333 A-GTTTA
1 AGGTTTA
153339 AGGTTT-
1 AGGTTTA
*
153345 ATGTTTA
1 AGGTTTA
*
153352 GGGTTTA
1 AGGTTTA
153359 AGGGTTTA
1 A-GGTTTA
*
153367 AGATTTA
1 AGGTTTA
*
153374 AAGTTT-
1 AGGTTTA
*
153380 GGGTTTA
1 AGGTTTA
153387 AGGTT
1 AGGTT
153392 CAAATGTTTG
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
6 19 0.29
7 39 0.60
8 7 0.11
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (7 bp):
AGGTTTA
Found at i:153330 original size:13 final size:13
Alignment explanation
Indices: 153314--153357 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
153304 TAAGGTTTGG
*
153314 GGTTTGAGTTTTA
1 GGTTTGAGTTTAA
153327 GGTTTGAGTTTAA
1 GGTTTGAGTTTAA
*
153340 GGTTT-ATGTTTAG
1 GGTTTGA-GTTTAA
153353 GGTTT
1 GGTTT
153358 AAGGGTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (13 bp):
GGTTTGAGTTTAA
Found at i:153344 original size:20 final size:21
Alignment explanation
Indices: 153299--153366 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 21
153289 CTGAATCTTG
* * *
153299 AGGTTTAAGGTTTGGGGTTTG
1 AGGTTTTAGGTTTAGGGTTTA
*
153320 A-GTTTTAGGTTT-GAGTTTA
1 AGGTTTTAGGTTTAGGGTTTA
*
153339 AGG-TTTATGTTTAGGGTTTA
1 AGGTTTTAGGTTTAGGGTTTA
*
153359 AGGGTTTA
1 AGGTTTTA
153367 AGATTTAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 14 0.36
20 20 0.51
21 5 0.13
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (21 bp):
AGGTTTTAGGTTTAGGGTTTA
Found at i:153373 original size:28 final size:28
Alignment explanation
Indices: 153334--153389 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
153324 TTAGGTTTGA
* *
153334 GTTTAAGGTTT-ATGTTTAGGGTTTAAGG
1 GTTTAAGATTTAAAGTTT-GGGTTTAAGG
153362 GTTTAAGATTTAAAGTTTGGGTTTAAGG
1 GTTTAAGATTTAAAGTTTGGGTTTAAGG
153390 TTCAAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (28 bp):
GTTTAAGATTTAAAGTTTGGGTTTAAGG
Found at i:153385 original size:20 final size:21
Alignment explanation
Indices: 153360--153403 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
153350 TAGGGTTTAA
*
153360 GGGTTTAAGATTTAAA-GTTT
1 GGGTTTAAGATTCAAATGTTT
*
153380 GGGTTTAAGGTTCAAATGTTT
1 GGGTTTAAGATTCAAATGTTT
153401 GGG
1 GGG
153404 GTAATGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (21 bp):
GGGTTTAAGATTCAAATGTTT
Found at i:153635 original size:21 final size:20
Alignment explanation
Indices: 153552--153636 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 20
153542 TTTGAGTTTG
* * *
153552 GGGTTTGGGATTTTAGGTTTT
1 GGGTTTGAG-TTTTAGATTTA
*
153573 GGGTTTGAGTTTCTAGAGTTA
1 GGGTTTGAGTTT-TAGATTTA
** *
153594 AAGTTT-AGTGTTTAGTGTTTA
1 GGGTTTGAGT-TTTAG-ATTTA
153615 GGGTTTGAGATTTTAGATTTA
1 GGGTTTGAG-TTTTAGATTTA
153636 G
1 G
153637 TTTTTCTGGT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
20 9 0.19
21 31 0.65
22 7 0.15
23 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (20 bp):
GGGTTTGAGTTTTAGATTTA
Found at i:153772 original size:20 final size:20
Alignment explanation
Indices: 153736--153792 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
153726 ATTCTATAAT
153736 TTTAGGTTTAATGTTT-AGGG
1 TTTAGG-TTAATGTTTAAGGG
*
153756 TTTAGGTTCATGATTTAAGGG
1 TTTAGGTTAATG-TTTAAGGG
*
153777 TTAAGGTTATATGTTT
1 TTTAGGTTA-ATGTTT
153793 GAGTTTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 5 0.16
20 9 0.29
21 14 0.45
22 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTAGGTTAATGTTTAAGGG
Found at i:154419 original size:21 final size:21
Alignment explanation
Indices: 154394--154444 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
154384 TTCATACCTC
154394 AACCCTAAATCATAAAACCAA
1 AACCCTAAATCATAAAACCAA
154415 AACCCTAAATCATAAAACCAA
1 AACCCTAAATCATAAAACCAA
154436 AACCCTAAA
1 AACCCTAAA
154445 ACACAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (21 bp):
AACCCTAAATCATAAAACCAA
Found at i:154486 original size:7 final size:7
Alignment explanation
Indices: 154394--154513 Score: 50
Period size: 7 Copynumber: 17.4 Consensus size: 7
154384 TTCATACCTC
154394 AACCCTA
1 AACCCTA
* *
154401 AATCATA
1 AACCCTA
* *
154408 AAACCAA
1 AACCCTA
154415 AACCCTA
1 AACCCTA
* *
154422 AATCATA
1 AACCCTA
* *
154429 AAACCAA
1 AACCCTA
154436 AACCCTAA
1 AACCCT-A
*
154444 AACAC-A
1 AACCCTA
* *
154450 AACCATTG
1 AACC-CTA
154458 AACCCTA
1 AACCCTA
154465 AA-CCTA
1 AACCCTA
**
154471 AACAATA
1 AACCCTA
154478 AACCCTA
1 AACCCTA
* *
154485 AACTCAA
1 AACCCTA
154492 AACCC-A
1 AACCCTA
*
154498 AACTC-A
1 AACCCTA
154504 AACCCTA
1 AACCCTA
154511 AAC
1 AAC
154514 TTTAAATCCC
Statistics
Matches: 79, Mismatches: 29, Indels: 10
0.67 0.25 0.08
Matches are distributed among these distances:
6 20 0.25
7 50 0.63
8 9 0.11
ACGTcount: A:0.53, C:0.33, G:0.01, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:154500 original size:13 final size:13
Alignment explanation
Indices: 154477--154514 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
154467 CCTAAACAAT
154477 AAACCCTAAACTC
1 AAACCCTAAACTC
154490 AAAACCC-AAACTC
1 -AAACCCTAAACTC
154503 AAACCCTAAACT
1 AAACCCTAAACT
154515 TTAAATCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 11 0.48
14 6 0.26
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (13 bp):
AAACCCTAAACTC
Found at i:154553 original size:21 final size:20
Alignment explanation
Indices: 154529--154570 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
154519 ATCCCAAACC
154529 TTAAACTTTGAGGTTCAGGGT
1 TTAAACTTT-AGGTTCAGGGT
* *
154550 TTAAAGTTTATGTTCAGGGT
1 TTAAACTTTAGGTTCAGGGT
154570 T
1 T
154571 CGAGTTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (20 bp):
TTAAACTTTAGGTTCAGGGT
Found at i:157989 original size:5 final size:5
Alignment explanation
Indices: 157974--158009 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
157964 ATTATTTTAA
157974 AATTAT AATTT AATTT AATTT AATTT AATTT AATTT
1 AATT-T AATTT AATTT AATTT AATTT AATTT AATTT
158010 TTCTTTTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:158970 original size:76 final size:77
Alignment explanation
Indices: 158858--159008 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 77
158848 ATCATCAATC
158858 AACTACATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAATACTTGACTAAGGATCT
1 AACTACATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAATACTTGACTAAGGATCT
158923 TTTAAGAATAAT
66 TTTAAGAATAAT
*
158935 AACTACATG-TAGTCTTAATGCGTTATTGTTGTCCTATCCAACAATAATACTTGACTAAGGATCT
1 AACTACATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAATACTTGACTAAGGATCT
158999 TTTAAGAATA
66 TTTAAGAATA
159009 CTCATATTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 64 0.88
77 9 0.12
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (77 bp):
AACTACATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAATACTTGACTAAGGATCT
TTTAAGAATAAT
Found at i:160620 original size:43 final size:43
Alignment explanation
Indices: 160530--160757 Score: 289
Period size: 43 Copynumber: 5.3 Consensus size: 43
160520 TTATGTGAAA
* *
160530 AAACGCTGCTAAAGATCATGGCCTTTAGC-GCGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* ** *
160572 AAACGCTGCTAAAGATCATGACCTTTAATGGCGCTTCTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* *
160615 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTTGTCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTATCAC
* * *
160659 AAACGCCGCTAAA-AGTCATGCCCTTTAGCGACGCTTTTGTCAC
1 AAACGCCGCTAAAGA-TCATGACCTTTAGCGGCGCTTTTATCAC
* * *
160702 AAATGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
*
160745 AAAGGCCGCTAAA
1 AAACGCCGCTAAA
160758 AAACAAATCT
Statistics
Matches: 161, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
42 26 0.16
43 98 0.61
44 37 0.23
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:160694 original size:87 final size:87
Alignment explanation
Indices: 160530--160758 Score: 302
Period size: 87 Copynumber: 2.7 Consensus size: 87
160520 TTATGTGAAA
* *
160530 AAACGCTGCTAAAGATCATGGCCTTTAGC-GCGCTTTTATCACAAACGCTGCT-AAAGATCATGA
1 AAACGCTGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGATCATGA
* *
160593 CCTTTAATGGCGCTTCTATCAC
66 CCTTTAACGACGCTTCTATCAC
* * *
160615 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTTGTCACAAACGCCGCTAAAAG-TCATG
1 AAACGCTGCTAAAGATCATGACCTTTAGCGGCGC-TTTTATCACAAACGCCGCTAAAAGATCATG
* * * *
160679 CCCTTTAGCGACGCTTTTGTCAC
65 ACCTTTAACGACGCTTCTATCAC
* * *
160702 AAATGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAGGCCGCTAAAA
1 AAACGCTGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAA
160759 AACAAATCTT
Statistics
Matches: 124, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
85 27 0.22
86 24 0.19
87 69 0.56
88 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (87 bp):
AAACGCTGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGATCATGA
CCTTTAACGACGCTTCTATCAC
Found at i:164183 original size:98 final size:99
Alignment explanation
Indices: 164071--164273 Score: 399
Period size: 98 Copynumber: 2.1 Consensus size: 99
164061 AATGTAGCAA
164071 TTAAAAAATGGTAAAATAATTTTGTAATCTTTAATGTTTGTAATTTATATTAATTTGGTCTTTTC
1 TTAAAAAATGGTAAAATAATTTTGTAATCTTTAATGTTTGTAATTTATATTAATTTGGTCTTTTC
164136 TTTAAAAGTATATAAATATTATAAAAATAAAAGT
66 TTTAAAAGTATATAAATATTATAAAAATAAAAGT
164170 TTAAAAAAT-GTAAAATAATTTTGTAATCTTTAATGTTTGTAATTTATATTAATTTGGTCTTTTC
1 TTAAAAAATGGTAAAATAATTTTGTAATCTTTAATGTTTGTAATTTATATTAATTTGGTCTTTTC
164234 TTTAAAAGTATATAAATATTATAAAAATAAAAGT
66 TTTAAAAGTATATAAATATTATAAAAATAAAAGT
164268 TTAAAA
1 TTAAAA
164274 TCTTTTTAAG
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 95 0.91
99 9 0.09
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (99 bp):
TTAAAAAATGGTAAAATAATTTTGTAATCTTTAATGTTTGTAATTTATATTAATTTGGTCTTTTC
TTTAAAAGTATATAAATATTATAAAAATAAAAGT
Found at i:164323 original size:12 final size:12
Alignment explanation
Indices: 164306--164340 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
164296 AATTAAAATC
164306 TTTTAAAATTTA
1 TTTTAAAATTTA
164318 TTTTAAAATTTA
1 TTTTAAAATTTA
164330 TTTTAAAATTT
1 TTTTAAAATTT
164341 TAAATCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATTTA
Found at i:165686 original size:123 final size:124
Alignment explanation
Indices: 165467--165761 Score: 387
Period size: 123 Copynumber: 2.4 Consensus size: 124
165457 TAAATTATTT
* * * *
165467 TAAATCCCTGAGCATTAGCGGCGCTTTTTAGAAAACGTCGCTAAA-GCCTCGAGCATTAGCAGTG
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTAAAAAACGTCGCTAAATCCCTCGAGCATTAGCAGCG
* * *
165531 CTTTATCAAAAACGCCACTAAAGCCCCGAGCATTAGCGGCACTTTCTTAAAAATGCTAC
66 CTTTATCAAAAACGCCACTAAAGCCCCAAGCATTAGCGGCACTTTCTCAAAAATGCCAC
* * *
165590 TAAATCCCTGAGAATTAGCGGCGCTTTCTCAAAAACGTCGCTAAATCCCT-GAGCATTAGCGGCG
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTAAAAAACGTCGCTAAATCCCTCGAGCATTAGCAGCG
* * ** * *
165654 CTTTCTCAAAAACGCCGCTAAAGCCTTAAGCATTAGCGGCGCTTTCTCAAAAATGCCGC
66 CTTTATCAAAAACGCCACTAAAGCCCCAAGCATTAGCGGCACTTTCTCAAAAATGCCAC
* ** * *
165713 TAAATCCATGAGCATTAGTAGTGCTTTCTAAAAAATGTCGCTAAATCCC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTAAAAAACGTCGCTAAATCCC
165762 CGAAAGCTCA
Statistics
Matches: 148, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
123 145 0.98
124 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (124 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTAAAAAACGTCGCTAAATCCCTCGAGCATTAGCAGCG
CTTTATCAAAAACGCCACTAAAGCCCCAAGCATTAGCGGCACTTTCTCAAAAATGCCAC
Found at i:165758 original size:41 final size:41
Alignment explanation
Indices: 165467--165761 Score: 315
Period size: 41 Copynumber: 7.2 Consensus size: 41
165457 TAAATTATTT
* *
165467 TAAATCCCTGAGCATTAGCGGCGCTTT-TTAGAAAACGTCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGC
* * * * *
165508 TAAA-GCCTCGAGCATTAGCAGTGCTTTATCAAAAACGCCAC
1 TAAATCCCT-GAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * * * **
165549 TAAAGCCCCGAGCATTAGCGGCACTTTCTTAAAAATGCTAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
165590 TAAATCCCTGAGAATTAGCGGCGCTTTCTCAAAAACGTCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
165631 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
165672 TAAAGCCTTAAGCATTAGCGGCGCTTTCTCAAAAATGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* ** * * * *
165713 TAAATCCATGAGCATTAGTAGTGCTTTCTAAAAAATGTCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
165754 TAAATCCC
1 TAAATCCC
165762 CGAAAGCTCA
Statistics
Matches: 212, Mismatches: 39, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
40 3 0.01
41 205 0.97
42 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:169446 original size:192 final size:191
Alignment explanation
Indices: 169119--169502 Score: 696
Period size: 192 Copynumber: 2.0 Consensus size: 191
169109 AGGATGAAAT
*
169119 TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTATATGATTCACTGAGTGTATCCATAT
1 TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
*
169184 GGAGTAGTGGAATTGCATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
66 GGAGTAGTGGAATTACATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
*
169249 CTATTGAAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGTATCCATGAGTG
131 CTATTG-AAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
*
169311 TATTTCTTAGAAAACTTATGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
1 TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
* * *
169376 GGAGTAGTTGAATTACATAATGGACAATGAAGAACTTTTAAGGTAAATGGTCAGCGTCTTAAACA
66 GGAGTAGTGGAATTACATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
169441 CTATTGAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
131 CTATTGAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
169502 T
1 T
169503 TACTTTAAAT
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
191 55 0.30
192 130 0.70
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (191 bp):
TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
GGAGTAGTGGAATTACATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
CTATTGAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
Found at i:189117 original size:164 final size:165
Alignment explanation
Indices: 188933--189262 Score: 653
Period size: 164 Copynumber: 2.0 Consensus size: 165
188923 AATAATATAA
188933 TTATTTTTTCCTATATAACATTATTTGAAATTTAAAACTAAAAAAATTAAAAAAATTATTTTAAA
1 TTATTTTTTCCTATATAACATTATTTGAAATTTAAAACTAAAAAAATTAAAAAAATTATTTTAAA
188998 AAATTATTAAATTATTAAAAAAGACATAAGACATATTTGGTCCACCCACTTAAAAAAATCATTTT
66 AAATTATTAAATTATTAAAAAAGACATAAGACATATTTGGTCCACCCACTTAAAAAAATCATTTT
189063 AGCATTCTATTTAATTTTTCACCATTTTTACCCTT
131 AGCATTCTATTTAATTTTTCACCATTTTTACCCTT
189098 TTATTTTTT-CTATATAACATTATTTGAAATTTAAAACTAAAAAAATTAAAAAAATTATTTTAAA
1 TTATTTTTTCCTATATAACATTATTTGAAATTTAAAACTAAAAAAATTAAAAAAATTATTTTAAA
189162 AAATTATTAAATTATTAAAAAAGACATAAGACATATTTGGTCCACCCACTTAAAAAAATCATTTT
66 AAATTATTAAATTATTAAAAAAGACATAAGACATATTTGGTCCACCCACTTAAAAAAATCATTTT
189227 AGCATTCTATTTAATTTTTCACCATTTTTACCCTT
131 AGCATTCTATTTAATTTTTCACCATTTTTACCCTT
189262 T
1 T
189263 AAAATTATTT
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 156 0.95
165 9 0.05
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (165 bp):
TTATTTTTTCCTATATAACATTATTTGAAATTTAAAACTAAAAAAATTAAAAAAATTATTTTAAA
AAATTATTAAATTATTAAAAAAGACATAAGACATATTTGGTCCACCCACTTAAAAAAATCATTTT
AGCATTCTATTTAATTTTTCACCATTTTTACCCTT
Found at i:189439 original size:29 final size:30
Alignment explanation
Indices: 189377--189433 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
189367 ATTTTTTAAA
189377 ATTTTTAAAATTCAAAAATATATAAAAATG
1 ATTTTTAAAATTCAAAAATATATAAAAATG
189407 ATTTTTAAAAATT-AAAAATCAT-TAAAA
1 ATTTTT-AAAATTCAAAAAT-ATATAAAA
189434 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (30 bp):
ATTTTTAAAATTCAAAAATATATAAAAATG
Found at i:189441 original size:20 final size:19
Alignment explanation
Indices: 189418--189479 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
189408 TTTTTAAAAA
189418 TTAAAAATCATTAAAATTAT
1 TTAAAAAT-ATTAAAATTAT
*
189438 TTAAAAAGTATAAAAATTA-
1 TTAAAAA-TATTAAAATTAT
*
189457 -TAAAAATATTAATATT-T
1 TTAAAAATATTAAAATTAT
189474 TTAAAA
1 TTAAAA
189480 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.22
18 11 0.31
20 16 0.44
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAAAAATATTAAAATTAT
Found at i:189460 original size:28 final size:27
Alignment explanation
Indices: 189374--189466 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 27
189364 TTAATTTTTT
*
189374 AAAAT-TTTTAAAATTCAAAAAT-ATATA
1 AAAATATTTAAAAATT-AAAAATCAT-TA
189401 AAAATGATTTTTAAAAATTAAAAATCATTA
1 AAAAT-A--TTTAAAAATTAAAAATCATTA
* *
189431 AAATTATTTAAAAAGTATAAAAATTA-TA
1 AAAATATTTAAAAA-T-TAAAAATCATTA
189459 AAAATATT
1 AAAATATT
189467 AATATTTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
27 13 0.24
28 10 0.18
29 9 0.16
30 12 0.22
31 11 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATATTTAAAAATTAAAAATCATTA
Found at i:189489 original size:36 final size:38
Alignment explanation
Indices: 189407--189492 Score: 92
Period size: 36 Copynumber: 2.4 Consensus size: 38
189397 TATAAAAATG
*
189407 ATTTTTAAAAA-T-TAAAAATCATTAAAATTATTTAAA
1 ATTTTAAAAAATTATAAAAATCATTAAAATTATTTAAA
** *
189443 A-AGTATAAAAATTATAAAAAT-ATTAATATT-TTTAAA
1 ATTTTA-AAAAATTATAAAAATCATTAAAATTATTTAAA
189479 ATTTTAAAAAATTA
1 ATTTTAAAAAATTA
189493 ACTTAATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
35 1 0.03
36 21 0.52
37 11 0.28
38 7 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (38 bp):
ATTTTAAAAAATTATAAAAATCATTAAAATTATTTAAA
Found at i:191796 original size:174 final size:174
Alignment explanation
Indices: 191506--191856 Score: 693
Period size: 174 Copynumber: 2.0 Consensus size: 174
191496 AGTTACCCGT
191506 CTAGGCTAAACCTATGTTACATATAACCCGAGAATCTGCAACAAATGCTAGATCTCGTTATAACA
1 CTAGGCTAAACCTATGTTACATATAACCCGAGAATCTGCAACAAATGCTAGATCTCGTTATAACA
191571 TATAAAATCTCTGATCAAGCACATGTATAACCTTATTGACAAGCCAATTGTATCTTAAGCTTATA
66 TATAAAATCTCTGATCAAGCACATGTATAACCTTATTGACAAGCCAATTGTATCTTAAGCTTATA
191636 CTAAGTTCACATGGGCATTGATTACATATATTTTAATATCATAC
131 CTAAGTTCACATGGGCATTGATTACATATATTTTAATATCATAC
191680 CTAGGCTAAACCTATGTTACATATAACCCGAGAATCTGCAACAAATGCTAGATCTCGTTATAACA
1 CTAGGCTAAACCTATGTTACATATAACCCGAGAATCTGCAACAAATGCTAGATCTCGTTATAACA
*
191745 TATAAAATCTCTGATCAAGCACATGTATAACCTTATTGACAAGCCAATTGTATCTTAAGCTTTTA
66 TATAAAATCTCTGATCAAGCACATGTATAACCTTATTGACAAGCCAATTGTATCTTAAGCTTATA
191810 CTAAGTTCACATGGGCATTGATTACATATATTTTAATATCATAC
131 CTAAGTTCACATGGGCATTGATTACATATATTTTAATATCATAC
191854 CTA
1 CTA
191857 CAATCGATCA
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 176 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (174 bp):
CTAGGCTAAACCTATGTTACATATAACCCGAGAATCTGCAACAAATGCTAGATCTCGTTATAACA
TATAAAATCTCTGATCAAGCACATGTATAACCTTATTGACAAGCCAATTGTATCTTAAGCTTATA
CTAAGTTCACATGGGCATTGATTACATATATTTTAATATCATAC
Found at i:193817 original size:23 final size:23
Alignment explanation
Indices: 193780--193824 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
193770 GGTTCCTTAA
193780 TGTAATATCCCGAAAATTACTAT
1 TGTAATATCCCGAAAATTACTAT
193803 TGTAATA-CCCTGAAAATTACTA
1 TGTAATATCCC-GAAAATTACTA
193825 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAT
Found at i:193830 original size:23 final size:23
Alignment explanation
Indices: 193781--193830 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
193771 GTTCCTTAAT
**
193781 GTAATATCCCGAAAATTACTATT
1 GTAATATCCCGAAAATTACTACA
193804 GTAATA-CCCTGAAAATTACTACA
1 GTAATATCCC-GAAAATTACTACA
193827 GTAA
1 GTAA
193831 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (23 bp):
GTAATATCCCGAAAATTACTACA
Found at i:195564 original size:21 final size:21
Alignment explanation
Indices: 195514--195565 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
195504 GTTGCTAACT
*
195514 TGATTTTCCAGGTTTCTATTA
1 TGATTTTCTAGGTTTCTATTA
*
195535 TCATTTTCTAGGTTTCCT-TTA
1 TGATTTTCTAGGTTT-CTATTA
195556 TGATTTTCTA
1 TGATTTTCTA
195566 AGTTCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (21 bp):
TGATTTTCTAGGTTTCTATTA
Found at i:196322 original size:22 final size:22
Alignment explanation
Indices: 196292--196334 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
196282 ACACCAAAAC
*
196292 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
196314 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
196335 AGCGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:196482 original size:43 final size:43
Alignment explanation
Indices: 196428--196756 Score: 408
Period size: 43 Copynumber: 7.6 Consensus size: 43
196418 TTTTAGAAAA
*
196428 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * **
196471 AAACGCCGCTAAAGACCAATATCTTTAGCGGCGCTACTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
196514 AAATGCCGCTAAAGACTAATATCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
196557 AAACACCGCTAAAGACCAAGACATTTAGCGGCGCTTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCCAC
* *
196601 AAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
196644 AAACGCTGCTAAAGTCCATGACCTTTAGCGGAGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
196687 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCACAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
196730 AAACGCCGCTAAAAACCATA-ACCTTTA
1 AAACGCCGCTAAAGACCA-AGACCTTTA
196757 AATATATATA
Statistics
Matches: 248, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
43 210 0.85
44 38 0.15
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:196717 original size:173 final size:173
Alignment explanation
Indices: 196428--196747 Score: 446
Period size: 173 Copynumber: 1.8 Consensus size: 173
196418 TTTTAGAAAA
*
196428 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATAT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATAC
* * * * * *
196493 CTTTAGCGGCGCTACTCCCACAAATGCCGCTAAAGACTAATATCTTTAGCGGCGCTTTTCCCAAA
66 CTTTAGCGGAGCTACTACCACAAACGCCGCTAAAGACTAATACCTTTAGCGGCGCTTCTCACAAA
*
196558 AACACCGCTAAAGACCAAGACATTTAGCGGCGCTTTTTCCCAC
131 AACACCGCTAAAAACCAAGACATTTAGCGGCGCTTTTTCCCAC
* * * * *
196601 AAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCCACAAACGCTGCTAAAGTCC-ATGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAT-A
** * *
196665 CCTTTAGCGGAGCTTTTATCACAAACGCCGCTAAAGAC-CATGACCTTTAGCGGCGCTTCTCACA
65 CCTTTAGCGGAGCTACTACCACAAACGCCGCTAAAGACTAAT-ACCTTTAGCGGCGCTTCTCACA
*
196729 AAAACGCCGCTAAAAACCA
129 AAAACACCGCTAAAAACCA
196748 TAACCTTTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
172 4 0.03
173 123 0.97
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (173 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATAC
CTTTAGCGGAGCTACTACCACAAACGCCGCTAAAGACTAATACCTTTAGCGGCGCTTCTCACAAA
AACACCGCTAAAAACCAAGACATTTAGCGGCGCTTTTTCCCAC
Found at i:199028 original size:24 final size:24
Alignment explanation
Indices: 198996--199055 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
198986 CGTTGAAGGC
198996 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
199020 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
199044 AG-AATAGATAAC
1 AGAAATAGATAAC
199056 AGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Found at i:200169 original size:22 final size:22
Alignment explanation
Indices: 200114--200175 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
200104 GTATGTTTGT
* *
200114 AAAGTTGGGGGTTTCAAGG-GGG
1 AAAGTTGGGGATTT-TAGGAGGG
*
200136 AAA-TTAGGGATTTTAGGAGGG
1 AAAGTTGGGGATTTTAGGAGGG
200157 AAAGTTGGGGATTTT-GGAG
1 AAAGTTGGGGATTTTAGGAG
200176 AGGGGGAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 13 0.38
ACGTcount: A:0.27, C:0.02, G:0.44, T:0.27
Consensus pattern (22 bp):
AAAGTTGGGGATTTTAGGAGGG
Found at i:200282 original size:21 final size:21
Alignment explanation
Indices: 200258--200304 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
200248 CCGCTAAATG
*
200258 TTTTGTT-ATGTAAAATGATT
1 TTTTGTTAAAGTAAAATGATT
*
200278 ATTTT-TTAAAGTAAAATTATT
1 -TTTTGTTAAAGTAAAATGATT
200299 TTTTGT
1 TTTTGT
200305 GGCATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTGTTAAAGTAAAATGATT
Found at i:200333 original size:61 final size:61
Alignment explanation
Indices: 200252--200374 Score: 183
Period size: 61 Copynumber: 2.0 Consensus size: 61
200242 AAAACGCCGC
* * * * * *
200252 TAAATGTTTTGTTATGTAAAATGATTATTTTTTAAAGTAAAATTATTTTTTGTGGCATTTT
1 TAAAGGTTTTGCTATATAAAATAACTATTTTTTAAAGTAAAATTAATTTTTGTGGCATTTT
*
200313 TAAAGGTTTTGCTATATAAAATAACTATTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTT
1 TAAAGGTTTTGCTATATAAAATAACTATTTTTTAAAGTAAAATTAATTTTTGTGGCATTTT
200374 T
1 T
200375 TATAAAAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (61 bp):
TAAAGGTTTTGCTATATAAAATAACTATTTTTTAAAGTAAAATTAATTTTTGTGGCATTTT
Found at i:200406 original size:75 final size:76
Alignment explanation
Indices: 200313--200541 Score: 304
Period size: 75 Copynumber: 3.0 Consensus size: 76
200303 GTGGCATTTT
* *
200313 TAAAGGTTTTGCTATATAAAATAACTATTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTAT
1 TAAAGGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTAT
*
200378 AAAAATGCC-C
66 AAAAACGCCGC
* * ***
200388 TAAAGGTTTTGCTATATAAAATGATTATTTTTTAAAATAAAATTATTTTTTGTGAAATTTTTTAC
1 TAAAGGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTA-
200453 T-AAAACGCCGC
65 TAAAAACGCCGC
* *
200464 TAAATGTTTTGCTATATAAAATGGCTA-TTTTTAAAGTAAAATTATTTTTTTTGTGGCG-TTTTT
1 TAAAGGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTA--TTTTTTGTGGCGTTTTTT
*
200527 ATAAAAACGCGGC
64 ATAAAAACGCCGC
200540 TA
1 TA
200542 TTCTTACCTT
Statistics
Matches: 133, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
75 81 0.61
76 43 0.32
77 9 0.07
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.45
Consensus pattern (76 bp):
TAAAGGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTAT
AAAAACGCCGC
Found at i:200582 original size:114 final size:113
Alignment explanation
Indices: 200446--200654 Score: 359
Period size: 114 Copynumber: 1.8 Consensus size: 113
200436 TTTGTGAAAT
200446 TTTTTACTAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTA-TTTTTAAAGTAAAATTATT
1 TTTTTACTAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTA--
*
200510 TTTTTTGTGGCGTTTTTATAAAAACGCGGCTATTCTTACCTTTTGCGGCG
64 TTTTTTGTGGCGTTTTTATAAAAACGCCGCTATTCTTACCTTTTGCGGCG
*
200560 TTTTTA-TAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAAGTAAAATTAT
1 TTTTTACT-AAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTAT
200624 TTTTTGTGGCGTTTTTATAAAAACGCCGCTA
65 TTTTTGTGGCGTTTTTATAAAAACGCCGCTA
200655 AATGTTTTGC
Statistics
Matches: 91, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
113 32 0.35
114 42 0.46
115 17 0.19
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (113 bp):
TTTTTACTAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATT
TTTTGTGGCGTTTTTATAAAAACGCCGCTATTCTTACCTTTTGCGGCG
Found at i:200590 original size:190 final size:188
Alignment explanation
Indices: 200360--200715 Score: 547
Period size: 190 Copynumber: 1.9 Consensus size: 188
200350 TAAAATTAAT
* * *
200360 TTTTGTGGCGTTTTTTATAAAAATGCCCTAAAGGTTTTGCTATATAAAATGATTATTTTTTAAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCCTAAAGGTTTTGCTATATAAAATGACTATTTTTTAAAA
*
200425 TAAAATTATTTTTTGTGAAATTTTT-TACTAAAACGCCGCTAAATGTTTTGCTATATAAAATGGC
66 TAAAATTATTTTTTGTGAAGTTTTTATA--AAAACGCCGCTAAATGTTTTGCTATATAAAATGGC
200489 TA-TTTTTAAAGTAAAATTATTTTTTTTGTGGCGTTTTTATAAAAACGCGGCTATTCTTACC
129 TATTTTTTAAAGTAAAATTA--TTTTTTGTGGCGTTTTTATAAAAACGCGGCTATTCTTACC
* * *
200550 TTTTGCGGCG-TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCC-CTAAAGGTTTTGCTATATAAAATGACTATTTTTTAAA
* ** *
200614 GTAAAATTATTTTTTGTGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCT
65 ATAAAATTATTTTTTGTGAAGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCT
200679 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTA
130 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTA
200716 ATGTTTTGCT
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
188 18 0.12
189 51 0.34
190 81 0.53
191 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (188 bp):
TTTTGCGGCGTTTTTTATAAAAACGCCCTAAAGGTTTTGCTATATAAAATGACTATTTTTTAAAA
TAAAATTATTTTTTGTGAAGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTA
TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAAAACGCGGCTATTCTTACC
Found at i:200673 original size:75 final size:75
Alignment explanation
Indices: 200550--200715 Score: 323
Period size: 75 Copynumber: 2.2 Consensus size: 75
200540 TATTCTTACC
*
200550 TTTTGCGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAAG
1 TTTTGTGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAAG
200615 TAAAATTATT
66 TAAAATTATT
200625 TTTTGTGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAAG
1 TTTTGTGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAAG
200690 TAAAATTATT
66 TAAAATTATT
200700 TTTTGTGGCGTTTTTA
1 TTTTGTGGCGTTTTTA
200716 ATGTTTTGCT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (75 bp):
TTTTGTGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAGAATGGCTATTTTTTAAAG
TAAAATTATT
Found at i:200773 original size:59 final size:60
Alignment explanation
Indices: 200655--200773 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 60
200645 AACGCCGCTA
*
200655 AATGTTTTGCTATATAGAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
200715 AATGTTTTGCTATATAAAATGGCTA-TTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
200774 NNNNNNNNNN
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 34 0.59
60 24 0.41
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (60 bp):
AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
Found at i:202179 original size:21 final size:21
Alignment explanation
Indices: 202129--202190 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
202119 CTAACTCGAC
202129 CCCAAATCTCTAAACCCTAAAT
1 CCCAAA-CTCTAAACCCTAAAT
* *
202151 CTCTAACTCTAAACCTCT-AAT
1 CCCAAACTCTAAACC-CTAAAT
202172 CCCAAACTC-ATAACCCTAA
1 CCCAAACTCTA-AACCCTAA
202191 TTACCCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.09
21 24 0.73
22 6 0.18
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCAAACTCTAAACCCTAAAT
Found at i:202309 original size:7 final size:7
Alignment explanation
Indices: 202299--202334 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
202289 GACCCTTAAC
202299 CCCTAAA
1 CCCTAAA
202306 CCCTAAA
1 CCCTAAA
*
202313 TCCTAAA
1 CCCTAAA
202320 CCCTAAA
1 CCCTAAA
*
202327 CCTTAAA
1 CCCTAAA
202334 C
1 C
202335 TTGACACCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:202396 original size:14 final size:14
Alignment explanation
Indices: 202379--202430 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
202369 TCTTGACCTC
*
202379 TAACCCTTAACCCT
1 TAACCCTTAACCCA
*
202393 TAACCCCTAACCCA
1 TAACCCTTAACCCA
* **
202407 TAAACCTTAAATCA
1 TAACCCTTAACCCA
*
202421 CAACCCTTAA
1 TAACCCTTAA
202431 ATCAAAATCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (14 bp):
TAACCCTTAACCCA
Found at i:204562 original size:18 final size:18
Alignment explanation
Indices: 204539--204573 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
204529 TTTAAATAGC
204539 TGAAATGGAAAAGATAAA
1 TGAAATGGAAAAGATAAA
204557 TGAAATGGAAAAGATAA
1 TGAAATGGAAAAGATAA
204574 CTCAACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
TGAAATGGAAAAGATAAA
Found at i:205383 original size:44 final size:43
Alignment explanation
Indices: 205200--205439 Score: 143
Period size: 44 Copynumber: 5.6 Consensus size: 43
205190 ATCTACTCTG
* *
205200 CTGCAACTTCAGAGAGATGAGATATGTGGTTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGAT-TGTGGTTTTAATCCGCTCCA
* * * ** *
205244 TTGCAACTTCA-AGGAGATAGGATTG-GTTTCTTCTGTCTGCTCCA
1 CTGCAACTTCAGA-GAGATAAGATTGTGGTT-TT-AATCCGCTCCA
* * * * *** *
205288 CTGCAACTGCAGGGAGATAAGA--CTGGATGCGATCCGC-CCT
1 CTGCAACTTCAGAGAGATAAGATTGTGGTTTTAATCCGCTCCA
* * *
205328 TTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGAT-TGTGGTTTTAATCCGCTCCA
* * * * *
205372 CTGCAACTTCAGGGAGATAGGATTATTAGCTTTAA-CCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATT-GTGGTTTTAATCC-GCTCCA
205416 CTGCAACTTCA-AGGAGATAAGATT
1 CTGCAACTTCAGA-GAGATAAGATT
205440 CGCCATCTTC
Statistics
Matches: 142, Mismatches: 42, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
40 20 0.14
41 4 0.03
42 3 0.02
43 19 0.13
44 96 0.68
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
CTGCAACTTCAGAGAGATAAGATTGTGGTTTTAATCCGCTCCA
Done.