Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 49 of 235
Found at i:16259030 original size:13 final size:12
Alignment explanation
Indices: 16259012--16259042 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
16259002 AGGAAATTCG
16259012 AAAAAAAATTGAA
1 AAAAAAAATT-AA
16259025 AAAAAAAATTAA
1 AAAAAAAATTAA
16259037 AAAAAA
1 AAAAAA
16259043 TTGAAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTAA
Found at i:16259926 original size:5 final size:5
Alignment explanation
Indices: 16259916--16259977 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
16259906 AAGAGAAAAT
* *
16259916 AAAGA AAAGA AAAGA AAAGA AAA-A GCAAGA GAAGAA AAAGA AAATGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAG-A AAAGA AAA-GA
16259963 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
16259978 GAGGCAAGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
4 2 0.04
5 36 0.75
6 9 0.19
7 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:16259956 original size:36 final size:37
Alignment explanation
Indices: 16259906--16259975 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
16259896 CATTCTTGTA
16259906 AAGAGAAAATAAAGAAAA-GAAA-AGAAAAGAAAAAGC
1 AAGAGAAAATAAAGAAAATGAAATA-AAAAGAAAAAGC
16259942 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AATAAAGAAAATGAAATAAAAAGAAAA
16259976 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 15 0.48
37 15 0.48
38 1 0.03
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (37 bp):
AAGAGAAAATAAAGAAAATGAAATAAAAAGAAAAAGC
Found at i:16260057 original size:11 final size:12
Alignment explanation
Indices: 16260025--16260055 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
16260015 TTGAGAGAAC
16260025 TTGAAAAAGCCT
1 TTGAAAAAGCCT
16260037 TTGAAAAAGCCT
1 TTGAAAAAGCCT
16260049 TTGAAAA
1 TTGAAAA
16260056 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:16260082 original size:30 final size:32
Alignment explanation
Indices: 16260048--16260114 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
16260038 TGAAAAAGCC
16260048 TTTGAAAAG-CAAAAAGAAAATG-AAAAGAAA
1 TTTGAAAAGTCAAAAAGAAAATGAAAAAGAAA
* * *
16260078 TTTG-AGAGTGAAAAAGAAGATGAAAAAGAAA
1 TTTGAAAAGTCAAAAAGAAAATGAAAAAGAAA
16260109 -TTGAAA
1 TTTGAAA
16260115 CAAAAGAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
29 3 0.10
30 18 0.60
31 9 0.30
ACGTcount: A:0.61, C:0.01, G:0.21, T:0.16
Consensus pattern (32 bp):
TTTGAAAAGTCAAAAAGAAAATGAAAAAGAAA
Found at i:16263917 original size:16 final size:15
Alignment explanation
Indices: 16263894--16263931 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
16263884 GAAAAAAAAT
16263894 AAAAAAAAAATCGAA
1 AAAAAAAAAATCGAA
* *
16263909 AAGAAAAAAATTGAA
1 AAAAAAAAAATCGAA
16263924 AAAAAAAA
1 AAAAAAAA
16263932 TATATTGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAATCGAA
Found at i:16265049 original size:35 final size:35
Alignment explanation
Indices: 16265003--16265072 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16264993 AAAGCGATTC
16265003 ATTCCTGCTTACTATCACCGGGAGTTGTATCAAAA
1 ATTCCTGCTTACTATCACCGGGAGTTGTATCAAAA
16265038 ATTCCTGCTTACTATCACCGGGAGTTGTATCAAAA
1 ATTCCTGCTTACTATCACCGGGAGTTGTATCAAAA
16265073 GCTCCAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (35 bp):
ATTCCTGCTTACTATCACCGGGAGTTGTATCAAAA
Found at i:16266817 original size:32 final size:32
Alignment explanation
Indices: 16266778--16266841 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
16266768 ATTGACCTTA
16266778 AGAGCGGTTATCACCAAATACGGATGCGTGAG
1 AGAGCGGTTATCACCAAATACGGATGCGTGAG
16266810 AGAGCGGTTATCACCAAATACGGATGCGTGAG
1 AGAGCGGTTATCACCAAATACGGATGCGTGAG
16266842 GGAGATGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (32 bp):
AGAGCGGTTATCACCAAATACGGATGCGTGAG
Found at i:16271941 original size:24 final size:21
Alignment explanation
Indices: 16271914--16271978 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
16271904 TTTCAATCTC
*
16271914 ATCACTCATTTCTTTTTCTTTT
1 ATCACTCATCTCTTTTT-TTTT
16271936 GAATCACTC-TCTCTTTTTTTTT
1 --ATCACTCATCTCTTTTTTTTT
*
16271958 ATCACTCAACT-TTTTGTTTTT
1 ATCACTCATCTCTTTT-TTTTT
16271979 CTTCTTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 11 0.30
21 7 0.19
22 4 0.11
23 8 0.22
24 7 0.19
ACGTcount: A:0.15, C:0.22, G:0.03, T:0.60
Consensus pattern (21 bp):
ATCACTCATCTCTTTTTTTTT
Found at i:16271961 original size:20 final size:23
Alignment explanation
Indices: 16271914--16271965 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
16271904 TTTCAATCTC
*
16271914 ATCACTCATTTCTTTTTCTTTTGA
1 ATCACTCATCTCTTTTTCTTTT-A
16271938 ATCACTC-TCTCTTTTT-TTTT-
1 ATCACTCATCTCTTTTTCTTTTA
16271958 ATCACTCA
1 ATCACTCA
16271966 ACTTTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
22 4 0.15
23 8 0.31
24 7 0.27
ACGTcount: A:0.17, C:0.25, G:0.02, T:0.56
Consensus pattern (23 bp):
ATCACTCATCTCTTTTTCTTTTA
Found at i:16273198 original size:10 final size:10
Alignment explanation
Indices: 16273182--16273239 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
16273172 CAACTCCGAC
16273182 CAGCTCAATT
1 CAGCTCAATT
* *
16273192 GAGCTCATTT
1 CAGCTCAATT
16273202 CAGCTCAA-T
1 CAGCTCAATT
16273211 CGAGCTCAATT
1 C-AGCTCAATT
*
16273222 TAGCTACAATT
1 CAGCT-CAATT
16273233 CAGCTCA
1 CAGCTCA
16273240 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:16273205 original size:20 final size:20
Alignment explanation
Indices: 16273182--16273242 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
16273172 CAACTCCGAC
16273182 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
16273202 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
16273223 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
16273243 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:16274058 original size:14 final size:13
Alignment explanation
Indices: 16274031--16274116 Score: 72
Period size: 12 Copynumber: 6.7 Consensus size: 13
16274021 TTGGAGTAAC
16274031 AAAAAAAAAT--A
1 AAAAAAAAATCGA
16274042 AAAAAAAAATCGA
1 AAAAAAAAATCGA
** *
16274055 AAAAAATTGATTGA
1 AAAAAA-AAATCGA
*
16274069 AAAAAAAATTC-A
1 AAAAAAAAATCGA
*
16274081 AAAAAAAAGT-GA
1 AAAAAAAAATCGA
16274093 AAAAAAAAATCGA
1 AAAAAAAAATCGA
16274106 GCAAAAAAAAA
1 --AAAAAAAAA
16274117 AGGTGAGCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
11 10 0.17
12 20 0.34
13 10 0.17
14 10 0.17
15 9 0.15
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATCGA
Found at i:16274111 original size:16 final size:16
Alignment explanation
Indices: 16274080--16274131 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
16274070 AAAAAAATTC
16274080 AAAAAAAAAGT--G-A
1 AAAAAAAAAGTGAGCA
16274093 AAAAAAAAA-TCGAGCA
1 AAAAAAAAAGT-GAGCA
16274109 AAAAAAAAAGGTGAGCA
1 AAAAAAAAA-GTGAGCA
16274126 AAAAAA
1 AAAAAA
16274132 TCAAGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.03
13 9 0.27
15 1 0.03
16 10 0.30
17 11 0.33
18 1 0.03
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAGTGAGCA
Found at i:16274143 original size:30 final size:29
Alignment explanation
Indices: 16274080--16274153 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
16274070 AAAAAAATTC
*
16274080 AAAAAAAAAGTGAAAAAAAAAATCGAGCA
1 AAAAAAAAAGTGAAAAAAAAAATCAAGCA
** *
16274109 AAAAAAAAAGGTGAGCAAAAAAATCAAG-T
1 AAAAAAAAA-GTGAAAAAAAAAATCAAGCA
*
16274138 TAAAAAAAAGTGAAAA
1 AAAAAAAAAGTGAAAA
16274154 GTCTTGCGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.14
29 17 0.46
30 15 0.41
ACGTcount: A:0.70, C:0.05, G:0.15, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAGTGAAAAAAAAAATCAAGCA
Found at i:16277128 original size:10 final size:10
Alignment explanation
Indices: 16277112--16277169 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
16277102 CAACTCCGAC
16277112 CAGCTCAATT
1 CAGCTCAATT
* *
16277122 GAGCTCATTT
1 CAGCTCAATT
16277132 CAGCTCAA-T
1 CAGCTCAATT
16277141 CGAGCTCAATT
1 C-AGCTCAATT
*
16277152 TAGCTACAATT
1 CAGCT-CAATT
16277163 CAGCTCA
1 CAGCTCA
16277170 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:16277135 original size:20 final size:20
Alignment explanation
Indices: 16277112--16277172 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
16277102 CAACTCCGAC
16277112 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
16277132 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
16277153 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
16277173 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:16287661 original size:10 final size:10
Alignment explanation
Indices: 16287646--16287687 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
16287636 TTTGCAAGTT
16287646 TTGAGCTAAA
1 TTGAGCTAAA
* *
16287656 TTGAGCTGAT
1 TTGAGCTAAA
*
16287666 TTGAGCT-CA
1 TTGAGCTAAA
16287675 TTGAGCTAAA
1 TTGAGCTAAA
16287685 TTG
1 TTG
16287688 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:16290748 original size:19 final size:19
Alignment explanation
Indices: 16290702--16290754 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
16290692 TCTCGCTCTC
* *
16290702 TTTTCATTCTCTTTTTTGAA
1 TTTTCTTTCT-TTTTTTCAA
* *
16290722 TTTACTTTCTTTTTTTCAT
1 TTTTCTTTCTTTTTTTCAA
16290741 TTTTCTTTTCTTTT
1 TTTTC-TTTCTTTT
16290755 GTATTTTCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTTCAA
Found at i:16293641 original size:20 final size:18
Alignment explanation
Indices: 16293604--16293654 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
16293594 CTATAGCAAC
16293604 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
16293621 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
16293641 TTACAACTTTACAA
1 TCACAA-TTTACAA
16293655 GATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:16294428 original size:25 final size:26
Alignment explanation
Indices: 16294331--16294428 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
16294321 GAGGAAATGC
**
16294331 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
16294357 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
16294383 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
16294409 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
16294429 ATTAAAAGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:16294654 original size:42 final size:42
Alignment explanation
Indices: 16294574--16294661 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
16294564 TAGTCTCCCA
** *** *
16294574 AAATGGGCTTGCATACATTTATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATATGATATTG
*
16294616 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATATGATATTG
16294658 AAAT
1 AAAT
16294662 AGGCCTATGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTAACATTACATATGATATTG
Found at i:16294727 original size:31 final size:31
Alignment explanation
Indices: 16294692--16294767 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
16294682 TTACAGTAAC
16294692 GGCTTCGGCCCAGTGAAATGATTTATGAAAA
1 GGCTTCGGCCCAGTGAAATGATTTATGAAAA
*
16294723 GGCTTCGGCCCAGTGATATGATTTATGAAAA
1 GGCTTCGGCCCAGTGAAATGATTTATGAAAA
16294754 GGCTTCGGCCCAGT
1 GGCTTCGGCCCAGT
16294768 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
GGCTTCGGCCCAGTGAAATGATTTATGAAAA
Found at i:16296216 original size:32 final size:32
Alignment explanation
Indices: 16296175--16296241 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
16296165 TATGTTAGAG
16296175 GGTGACCAAAGGCTTGGAAAATAACCTAACAT
1 GGTGACCAAAGGCTTGGAAAATAACCTAACAT
16296207 GGTGACCAAAGGCTTGGAAAATAACCTAACAT
1 GGTGACCAAAGGCTTGGAAAATAACCTAACAT
16296239 GGT
1 GGT
16296242 CCATACGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (32 bp):
GGTGACCAAAGGCTTGGAAAATAACCTAACAT
Found at i:16296656 original size:20 final size:20
Alignment explanation
Indices: 16296631--16296694 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
16296621 CGGGTAGAAG
16296631 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
16296651 ACACGGACGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
16296671 ACACGGGCGTGTCCTAAAGC
1 ACACGGGCGTGTCCCAAAGC
16296691 ACAC
1 ACAC
16296695 AGGAGTGTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.34, G:0.27, T:0.11
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:16296702 original size:20 final size:19
Alignment explanation
Indices: 16296639--16296702 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 19
16296629 AGACACGGGC
16296639 GTGTCCCAAAGCACACGGA
1 GTGTCCCAAAGCACACGGA
*
16296658 CGTGTCCCAAAGCACACGGGC
1 -GTGTCCCAAAGCACAC-GGA
*
16296679 GTGTCCTAAAGCACACAGGA
1 GTGTCCCAAAGCACAC-GGA
16296699 GTGT
1 GTGT
16296703 GCTATCTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 37 0.95
21 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (19 bp):
GTGTCCCAAAGCACACGGA
Found at i:16308121 original size:59 final size:59
Alignment explanation
Indices: 16308044--16308163 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
16308034 ATTTTGAGTT
*
16308044 AGAACAAGGAAAAGAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
1 AGAACAAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
*
16308103 AGAACGAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
1 AGAACAAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
16308162 AG
1 AG
16308164 GTAAGTTCGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (59 bp):
AGAACAAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
Found at i:16308630 original size:26 final size:25
Alignment explanation
Indices: 16308594--16308677 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 25
16308584 GGCTATCTGA
16308594 AGCTT-CTGATTAAAGGCTCTTCATG
1 AGCTTCCTGATTAAAGGCTCTT-ATG
* * *
16308619 AGCTTCCTGATTAAAAGTTCTTTGTG
1 AGCTTCCTGATTAAAGGCTC-TTATG
* *
16308645 AACTTCCTGATT-ATGGCTCTTATG
1 AGCTTCCTGATTAAAGGCTCTTATG
*
16308669 GGCTTCCTG
1 AGCTTCCTG
16308678 TTATATAGCC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
24 11 0.23
25 9 0.19
26 25 0.53
27 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (25 bp):
AGCTTCCTGATTAAAGGCTCTTATG
Found at i:16321273 original size:33 final size:33
Alignment explanation
Indices: 16321236--16321301 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
16321226 ACAAGAAAGG
16321236 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
1 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
16321269 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
1 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
16321302 TGATCACCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.21
Consensus pattern (33 bp):
AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
Found at i:16326600 original size:59 final size:59
Alignment explanation
Indices: 16326523--16326642 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
16326513 ATTTTGAGTT
*
16326523 AGAACAAGGAAAAGAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
1 AGAACAAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
*
16326582 AGAACGAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
1 AGAACAAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
16326641 AG
1 AG
16326643 GTAAGTTCGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (59 bp):
AGAACAAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
Found at i:16327109 original size:26 final size:25
Alignment explanation
Indices: 16327073--16327156 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 25
16327063 GGCTATCTGA
16327073 AGCTT-CTGATTAAAGGCTCTTCATG
1 AGCTTCCTGATTAAAGGCTCTT-ATG
* * *
16327098 AGCTTCCTGATTAAAAGTTCTTTGTG
1 AGCTTCCTGATTAAAGGCTC-TTATG
* *
16327124 AACTTCCTGATT-ATGGCTCTTATG
1 AGCTTCCTGATTAAAGGCTCTTATG
*
16327148 GGCTTCCTG
1 AGCTTCCTG
16327157 TTATATAGCC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
24 11 0.23
25 9 0.19
26 25 0.53
27 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (25 bp):
AGCTTCCTGATTAAAGGCTCTTATG
Found at i:16342983 original size:35 final size:34
Alignment explanation
Indices: 16342924--16343017 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 34
16342914 CGAATTGAGG
* * * *
16342924 GATAAGACCATGGTTGGACCATGGCAATGTTTAAAT
1 GATAAGACCATAGCTGGGCTATGGCAAT-TTT-AAT
*
16342960 G-TAAGACCATAGCTGGGCTATGGC-ATTTTAGT
1 GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
* * *
16342992 GAAAAGACCATAACTGGGTTATGGCA
1 GATAAGACCATAGCTGGGCTATGGCA
16343018 CCGTGAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 3 0.06
33 23 0.48
34 2 0.04
35 19 0.40
36 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (34 bp):
GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
Found at i:16346365 original size:33 final size:33
Alignment explanation
Indices: 16346284--16346368 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 33
16346274 ACATCATCAG
*
16346284 TCCAACCAAACACACCAGATGCTCACTCGAGCCAA
1 TCCAACC-AACACACCA-ATGCTCACTAGAGCCAA
* * * *
16346319 TCCATCTATCACACCAATGCTCA-TAAGAGCTAA
1 TCCAACCAACACACCAATGCTCACT-AGAGCCAA
*
16346352 TCCAACCAGCACACCAA
1 TCCAACCAACACACCAA
16346369 ATAGAGAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.02
33 27 0.66
34 8 0.20
35 5 0.12
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.15
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCACTAGAGCCAA
Found at i:16348532 original size:29 final size:29
Alignment explanation
Indices: 16348493--16348557 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
16348483 ATATCGGAGT
*
16348493 CACATATCGATGCCATGGTCTTACTCTCA
1 CACATATCGATGCCATGGTCTTACTCGCA
*
16348522 CACATATCGATGTCATGGTCTTACTCGCA
1 CACATATCGATGCCATGGTCTTACTCGCA
16348551 CACATAT
1 CACATAT
16348558 ATTGTAATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
CACATATCGATGCCATGGTCTTACTCGCA
Found at i:16363862 original size:20 final size:20
Alignment explanation
Indices: 16363816--16363862 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
16363806 AGCTCGTTTC
*
16363816 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
16363836 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
16363856 CAGCTCA
1 CAGCTCA
16363863 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:16366552 original size:48 final size:47
Alignment explanation
Indices: 16366473--16366578 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
16366463 GAGTGTCATG
*
16366473 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
16366521 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
16366569 GAAAAAGAAA
1 GAAAAAGAAA
16366579 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:16368295 original size:20 final size:20
Alignment explanation
Indices: 16368249--16368295 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
16368239 AGCTCGTTTC
*
16368249 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
16368269 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
16368289 CAGCTCA
1 CAGCTCA
16368296 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:16371726 original size:16 final size:16
Alignment explanation
Indices: 16371707--16371738 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16371697 AATTGTTTTA
16371707 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
16371723 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
16371739 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:16372013 original size:50 final size:50
Alignment explanation
Indices: 16371949--16372226 Score: 292
Period size: 50 Copynumber: 5.5 Consensus size: 50
16371939 CTGGCACGCA
*
16371949 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACG
* * * * * ***
16371999 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CATA-TCAATCTGGTACACG
**
16372050 TAGTAGCCTGCACTTAGTACTGTACATGCGACATATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACG
* * * ** * * * * *
16372100 TAGTAACCTACACTTAGTACTGTACACGTGATAGA-AGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTAC--TACACATGCGACATA-TCAATCTGGTACACG
*
16372151 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACG
16372201 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
16372227 CGTGACTCAT
Statistics
Matches: 178, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
49 14 0.08
50 90 0.51
51 61 0.34
52 13 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACG
Found at i:16372127 original size:101 final size:101
Alignment explanation
Indices: 16371944--16372231 Score: 488
Period size: 101 Copynumber: 2.9 Consensus size: 101
16371934 GCTCTCTGGC
16371944 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTG
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTG
16372009 CACTTAGTACTACACACGTGATCA-AAGTTAACGGGT
66 CACTTAGTACTACACACGTGAT-AGAAGTTAACGGGT
* ** * * *
16372045 ACGTATAGTAGCCTGCACTTAGTACTGTACATGCGACATATCAATCTGGTACACGTAGTAACCTA
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTG
**
16372110 CACTTAGTACTGTACACGTGATAGAAGTTAACGGGT
66 CACTTAGTACTACACACGTGATAGAAGTTAACGGGT
16372146 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTG
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTG
16372211 CACTTAGTACTACACACGTGA
66 CACTTAGTACTACACACGTGA
16372232 CTCATAACGA
Statistics
Matches: 170, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 1 0.01
101 169 0.99
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (101 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATAGAAGTTAACGGGT
Found at i:16374392 original size:26 final size:27
Alignment explanation
Indices: 16374363--16374425 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
16374353 TTTCGGTTTA
* *
16374363 TTTTCT-TTAAAAGTTAATTTTGGGTG
1 TTTTCTATTAAAAGTTAATTTCGGGAG
* **
16374389 TTTTGTATTATTAGTTAATTTCGGGAG
1 TTTTCTATTAAAAGTTAATTTCGGGAG
*
16374416 TTTTGTATTA
1 TTTTCTATTA
16374426 TTTGGACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (27 bp):
TTTTCTATTAAAAGTTAATTTCGGGAG
Found at i:16374404 original size:27 final size:27
Alignment explanation
Indices: 16374374--16374427 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16374364 TTTCTTTAAA
* *
16374374 AGTTAATTTTGGGTGTTTTGTATTATT
1 AGTTAATTTCGGGAGTTTTGTATTATT
16374401 AGTTAATTTCGGGAGTTTTGTATTATT
1 AGTTAATTTCGGGAGTTTTGTATTATT
16374428 TGGACTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (27 bp):
AGTTAATTTCGGGAGTTTTGTATTATT
Found at i:16374777 original size:25 final size:26
Alignment explanation
Indices: 16374744--16374794 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
16374734 TCACATAAAT
16374744 AATATATTAAAAATATATGTTATTAA
1 AATATATTAAAAATATATGTTATTAA
** *
16374770 AATA-ATTAACCATTTATGTTATTAA
1 AATATATTAAAAATATATGTTATTAA
16374795 TACTTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
AATATATTAAAAATATATGTTATTAA
Found at i:16376655 original size:40 final size:40
Alignment explanation
Indices: 16376600--16376789 Score: 335
Period size: 40 Copynumber: 4.8 Consensus size: 40
16376590 NNNNNNGAGT
16376600 TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGA
1 TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGA
*
16376640 TGATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGA
1 TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGA
*
16376680 TGATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGA
1 TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGA
*
16376720 TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGT
1 TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGA
* *
16376760 TGATATGTTCGGGCTAAGACCCGAAGGCAA
1 TGATATATCCGGGCTAAGACCCGAAGGCAA
16376790 ATGTGTTTGC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (40 bp):
TGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGA
Found at i:16377888 original size:71 final size:71
Alignment explanation
Indices: 16377772--16377913 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
16377762 ATAGTGAATA
* *
16377772 AATTATGTAATCAAACCTTGATGAATCTACTTTCATATGGAAGTAACGAAACAATTATAGGAACA
1 AATTATGTAATCAAACCTTGATGAACCTACTTTCATATGGAAGTAACGAAACAATCATAGGAACA
16377837 GTACAG
66 GTACAG
* * *
16377843 AATTATGTAATCGAACCTTGATGAACCTACTTTCATATGGAAGTAACGAAACAATCATATGAATA
1 AATTATGTAATCAAACCTTGATGAACCTACTTTCATATGGAAGTAACGAAACAATCATAGGAACA
16377908 GTACAG
66 GTACAG
16377914 TATGAGATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (71 bp):
AATTATGTAATCAAACCTTGATGAACCTACTTTCATATGGAAGTAACGAAACAATCATAGGAACA
GTACAG
Found at i:16385888 original size:19 final size:19
Alignment explanation
Indices: 16385864--16385902 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16385854 AAATCAAGTC
16385864 AATACAATATAGAAATCAT
1 AATACAATATAGAAATCAT
16385883 AATACAATATAGAAATCAT
1 AATACAATATAGAAATCAT
16385902 A
1 A
16385903 CTTCATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (19 bp):
AATACAATATAGAAATCAT
Found at i:16387013 original size:18 final size:18
Alignment explanation
Indices: 16386992--16387026 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16386982 AATAAAATTG
*
16386992 AAATGAAAAGAAAAAGAA
1 AAATAAAAAGAAAAAGAA
*
16387010 AAATAAAAATAAAAAGA
1 AAATAAAAAGAAAAAGA
16387027 TAGGAAGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
AAATAAAAAGAAAAAGAA
Found at i:16397047 original size:11 final size:11
Alignment explanation
Indices: 16397031--16397077 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
16397021 CGAGATAGAA
16397031 ATAATTATTTT
1 ATAATTATTTT
*
16397042 ATAATTATTTAGAA
1 ATAATTATTT---T
16397056 ATAATTATTTT
1 ATAATTATTTT
16397067 ATAATTATTTT
1 ATAATTATTTT
16397078 GGGGTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 21 0.68
14 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATAATTATTTT
Found at i:16397054 original size:25 final size:25
Alignment explanation
Indices: 16397026--16397076 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16397016 AAATTCGAGA
16397026 TAGAAATAATTATTTTATAATTATT
1 TAGAAATAATTATTTTATAATTATT
16397051 TAGAAATAATTATTTTATAATTATT
1 TAGAAATAATTATTTTATAATTATT
16397076 T
1 T
16397077 TGGGGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TAGAAATAATTATTTTATAATTATT
Found at i:16397061 original size:14 final size:14
Alignment explanation
Indices: 16397026--16397065 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
16397016 AAATTCGAGA
16397026 TAGAAATAATTATT
1 TAGAAATAATTATT
*
16397040 T---TATAATTATT
1 TAGAAATAATTATT
16397051 TAGAAATAATTATT
1 TAGAAATAATTATT
16397065 T
1 T
16397066 TATAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 6
0.72 0.07 0.21
Matches are distributed among these distances:
11 10 0.48
14 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
TAGAAATAATTATT
Found at i:16409066 original size:79 final size:81
Alignment explanation
Indices: 16408930--16409112 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
16408920 TCGAATGATG
* *
16408930 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16408994 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
16409009 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
16409071 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
16409089 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16409113 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:16409128 original size:40 final size:40
Alignment explanation
Indices: 16408931--16409114 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
16408921 CGAATGATGT
* * * *
16408931 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
16408971 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
16409011 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16409049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16409090 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16409115 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:16409136 original size:79 final size:79
Alignment explanation
Indices: 16408983--16409147 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
16408973 GGACTAAGAT
* **
16408983 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
16409048 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
16409062 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
16409125 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16409141 CCGAAGG
1 CCGAAGG
16409148 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16417285 original size:40 final size:40
Alignment explanation
Indices: 16417133--16417278 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
16417123 TCGAATGATG
* * * *
16417133 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
16417173 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16417213 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16417254 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16417279 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16417285 original size:80 final size:80
Alignment explanation
Indices: 16417133--16417311 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
16417123 TCGAATGATG
* *
16417133 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
16417198 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
16417213 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
16417276 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
16417293 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16417312 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:16418275 original size:200 final size:200
Alignment explanation
Indices: 16417932--16418333 Score: 795
Period size: 200 Copynumber: 2.0 Consensus size: 200
16417922 GGTTATTCAT
16417932 GATCATTTTTTGAATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAG
1 GATCATTTTTTGAATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAG
16417997 TTTACCTTAAAAATAGATGCTGGCAGCAGTAGTGATGTGGATGTGAAAAATCACTAAAAATATTA
66 TTTACCTTAAAAATAGATGCTGGCAGCAGTAGTGATGTGGATGTGAAAAATCACTAAAAATATTA
*
16418062 GGAATGGAATTAAATAGTGAATATATTATGTAATCGAACCTTGATGAATATATTTTCATAGGAAA
131 GGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATATATTTTCATAGGAAA
16418127 GTTAC
196 GTTAC
16418132 GATCATTTTTTGAATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAG
1 GATCATTTTTTGAATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAG
16418197 TTTACCTTAAAAATAGATGCTGGCAGCAGTAGTGATGTGGATGTGAAAAATCACTAAAAATATTA
66 TTTACCTTAAAAATAGATGCTGGCAGCAGTAGTGATGTGGATGTGAAAAATCACTAAAAATATTA
16418262 GGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATATATTTTCATAGGAAA
131 GGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATATATTTTCATAGGAAA
16418327 GTTAC
196 GTTAC
16418332 GA
1 GA
16418334 AACGTTCATA
Statistics
Matches: 201, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 201 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (200 bp):
GATCATTTTTTGAATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAG
TTTACCTTAAAAATAGATGCTGGCAGCAGTAGTGATGTGGATGTGAAAAATCACTAAAAATATTA
GGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATATATTTTCATAGGAAA
GTTAC
Found at i:16451406 original size:49 final size:49
Alignment explanation
Indices: 16451279--16451460 Score: 151
Period size: 49 Copynumber: 3.7 Consensus size: 49
16451269 TGGGATAAGA
* ** *
16451279 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTAGCATATCA-AAG
1 TGCCGATGTCATGTCCCAGACA-GGTCTTACACTGA-CTCTCATAT-ATAGG
* * *
16451329 T--CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATAGAG
1 TGCCGATGTCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAG-G
* ** * * *
16451377 -GCCGATTTTGTGTCCCAGATAGGTCTTACACT-AGCTCTCATCTATCGG
1 TGCCGATGTCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATAGG
*
16451425 TGTCGATGTCATGTCCCAGACAGGTCTTACACTGAC
1 TGCCGATGTCATGTCCCAGACAGGTCTTACACTGAC
16451461 ACACAACAAG
Statistics
Matches: 106, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
46 1 0.01
47 19 0.18
48 22 0.21
49 62 0.58
50 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
TGCCGATGTCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAGG
Found at i:16451655 original size:48 final size:49
Alignment explanation
Indices: 16451282--16451655 Score: 172
Period size: 48 Copynumber: 7.9 Consensus size: 49
16451272 GATAAGATGC
* *
16451282 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-GCATA--TCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTAGC-ACGCATATCTCGAGGT
* * * * *
16451330 CGATGCCATGTCCTAGACAGGTCTTACACT-G-ACTTTCATATATAGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCAC--GCATATCTCGAGGT
**** * * * * *
16451379 CGATTTTGTGTCCCAGATAGGTCTTACACTAGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACGCATATCTCGAG-GT
* * * *
16451428 CGATGTCATGTCCCAGACAGGTCTTACACT-GACACACA-A---CAAGCT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAG-CACGCATATCTCGAGGT
* * ** * *
16451473 -GACGCCATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGCCT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACGCATATCTCGAG-GT
* * * * * * * *
16451522 C-ATG-CATGTCCCAGAAATGTCTTACACTAGCTCTC--GTCTCAATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACGCATATCTCGAGGT
* * * ** * *
16451567 CGATG-CATGTCCCAGACATGTCTTACAATGGCTTGTATATCTTGAGGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACGCATATCTCGAGGT
* *
16451615 CGATG-CATGTCCCAGACATGTCTTACACTAGCACACATATC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACGCATATC
16451656 ACCCAATGTC
Statistics
Matches: 244, Mismatches: 62, Indels: 40
0.71 0.18 0.12
Matches are distributed among these distances:
44 29 0.12
45 5 0.02
46 35 0.14
47 15 0.06
48 88 0.36
49 70 0.29
50 1 0.00
51 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCACGCATATCTCGAGGT
Found at i:16457718 original size:46 final size:45
Alignment explanation
Indices: 16457665--16457840 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
16457655 TATTTGGGCA
*
16457665 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
16457711 TCCGAACTCGTTGAGTTGCGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
16457758 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
16457804 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16457841 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:16457820 original size:93 final size:93
Alignment explanation
Indices: 16457661--16457832 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16457651 AGGATATTTG
* * *
16457661 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
16457726 TTGCGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
16457754 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
16457819 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
16457833 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16467509 original size:40 final size:40
Alignment explanation
Indices: 16467359--16467510 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 40
16467349 TGGATGATAA
* * *
16467359 CCGGGCTAAGTCTCGAAGGCATCTGCGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
16467399 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
16467439 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
16467479 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
16467511 AGTTATATCC
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 100 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:16469612 original size:99 final size:99
Alignment explanation
Indices: 16469440--16469633 Score: 336
Period size: 99 Copynumber: 2.0 Consensus size: 99
16469430 TGTTTCTGCC
* *
16469440 TACTATTGGTGGAATACGTTGACTTCTGTTGTGCCCAGAGAGCAAGTAACTTGGGAGTTTTTCCA
1 TACTATTGGTGGAATACGTTGACTTCTGTTGTACCCAGAGAGCAAGTAACTTGGGAGTTCTTCCA
*
16469505 AACCGAGTTTTGGAAA-AAGTATATCAGTCAGAGG
66 AACCGAG-TTTCGAAAGAAGTATATCAGTCAGAGG
16469539 TACTATTGGTGGAATACGTTGACTTCTGTTGTACCCAGAGAGCAAGTAACTTGGGAGTTCTTCCA
1 TACTATTGGTGGAATACGTTGACTTCTGTTGTACCCAGAGAGCAAGTAACTTGGGAGTTCTTCCA
*
16469604 AACTGAGTTTCGAAAGAAGTATATCAGTCA
66 AACCGAGTTTCGAAAGAAGTATATCAGTCA
16469634 AAGATTCATT
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 7 0.08
99 83 0.92
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (99 bp):
TACTATTGGTGGAATACGTTGACTTCTGTTGTACCCAGAGAGCAAGTAACTTGGGAGTTCTTCCA
AACCGAGTTTCGAAAGAAGTATATCAGTCAGAGG
Found at i:16474772 original size:40 final size:39
Alignment explanation
Indices: 16474716--16474867 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 39
16474706 TGGATGATAA
* *
16474716 CCGGGCTAAGTCCCGAAGGCATCTGCGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAT-TGTGCGAGTTACTAAAT
*
16474756 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAAT
*
16474796 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACT-AAAT
* *
16474836 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGT
16474868 AGTTATATCC
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 1 0.01
40 96 0.95
41 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAT
Found at i:16474879 original size:80 final size:80
Alignment explanation
Indices: 16474716--16474867 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
16474706 TGGATGATAA
* *
16474716 CCGGGCTAAGTCCCGAAGGCATCTGCGTGAGTTACTAAATTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
16474781 TGCGAGTTACTAAAT
66 AGCGAGTTACTAAAT
* * *
16474796 CCGGGCTAAGTCCCGAAGGCAAT-TGTGCGAGTTACTCTAA-CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-ATCTGCGCGAGTTACT-AAATCCGGGCTAAGTCCCGAAGGCATT
16474859 TGAGCGAGT
64 TGAGCGAGT
16474868 AGTTATATCC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 60 0.94
81 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTAAAT
Found at i:16475433 original size:226 final size:226
Alignment explanation
Indices: 16475039--16475488 Score: 864
Period size: 226 Copynumber: 2.0 Consensus size: 226
16475029 ATGAGCTACC
*
16475039 GACCTTTGGCTATGTTGATCTTTTGTGTATGAATATAAGGGTTGGTAATGTGAAGTAAGTATGAT
1 GACCTTTGGCTATGTTGATCTTTTATGTATGAATATAAGGGTTGGTAATGTGAAGTAAGTATGAT
*
16475104 ATTGAGAATTTCTGCATGTCAAATTATCCATTTAGCCATATGAATGCTACATTTTAGTTGTGTCA
66 ATTGAGAATTTCGGCATGTCAAATTATCCATTTAGCCATATGAATGCTACATTTTAGTTGTGTCA
16475169 AATTTTATGGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGCTTCTGTAAATCTCTGTTTTA
131 AATTTTATGGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGCTTCTGTAAATCTCTGTTTTA
*
16475234 TAGATTTTGGTTCTTCAGCTATCGGACTCAG
196 TAGATTTTGGTTCTTCAGCTATAGGACTCAG
16475265 GACCTTTGGCTATGTTGATCTTTTATGTATGAATATAAGGGTTGGTAATGTGAAGTAAGTATGAT
1 GACCTTTGGCTATGTTGATCTTTTATGTATGAATATAAGGGTTGGTAATGTGAAGTAAGTATGAT
*
16475330 ATTGAGAATTTGGGCATGTCAAATTATCCATTTAGCCATATGAATGCTACATTTTAGTTGTGTCA
66 ATTGAGAATTTCGGCATGTCAAATTATCCATTTAGCCATATGAATGCTACATTTTAGTTGTGTCA
16475395 AATTTTATGGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGCTTCTGTAAATCTCTGTTTTA
131 AATTTTATGGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGCTTCTGTAAATCTCTGTTTTA
16475460 TAGATTTTGGTTCTTCAGCTATAGGACTC
196 TAGATTTTGGTTCTTCAGCTATAGGACTC
16475489 GGGATTTTTG
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
226 220 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (226 bp):
GACCTTTGGCTATGTTGATCTTTTATGTATGAATATAAGGGTTGGTAATGTGAAGTAAGTATGAT
ATTGAGAATTTCGGCATGTCAAATTATCCATTTAGCCATATGAATGCTACATTTTAGTTGTGTCA
AATTTTATGGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGCTTCTGTAAATCTCTGTTTTA
TAGATTTTGGTTCTTCAGCTATAGGACTCAG
Found at i:16478440 original size:46 final size:46
Alignment explanation
Indices: 16478390--16478591 Score: 168
Period size: 46 Copynumber: 4.3 Consensus size: 46
16478380 TCCTAGAAGG
* *
16478390 GTCTTACACTGGCTCATCCATCAA-CTCGATGCCATGTCCCAAACAT
1 GTCTTACACTGGCTCATCCATCAATGTCGATG-CATGTCCCAGACAT
** * *
16478436 GTCTTACACTGGCTTACAT-C-TTGAGGTCAATGCATGTCCCAGACAT
1 GTCTTACACTGGC-T-CATCCATCAATGTCGATGCATGTCCCAGACAT
* * *
16478482 GTCTCACACTAGCAC-TCGTC-TCAATGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCTCATC--CATCAATGTCGATG-CATGTCCCAGACAT
16478529 GGTCTTACACTGGCTC--CCAT-AATGTGGTCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTCATCCATCAA--T-GTCGATGCATGTCCCAGACAT
*
16478576 GTCTTACACTAGCTCA
1 GTCTTACACTGGCTCA
16478592 CACAAGTGAC
Statistics
Matches: 127, Mismatches: 16, Indels: 25
0.76 0.10 0.15
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 3 0.02
46 63 0.50
47 37 0.29
48 22 0.17
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCTTACACTGGCTCATCCATCAATGTCGATGCATGTCCCAGACAT
Found at i:16478565 original size:94 final size:93
Alignment explanation
Indices: 16478415--16478588 Score: 267
Period size: 94 Copynumber: 1.9 Consensus size: 93
16478405 ATCCATCAAC
* **
16478415 TCGATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTTGAGGTCAATGCATGTCCCAGAC
1 TCGATGCCATGTCCCAAACATGTCTTACACTGGCTCACATAATGAGGTCAATGCATGTCCCAGAC
16478480 ATGTCTCACACTAGCACTCGTCTCAATG
66 ATGTCTCACACTAGCACTCGTCTCAATG
* * * *
16478508 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATAATGTGGTCGATGCATGTCCCAGA
1 TCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTCACATAATGAGGTCAATGCATGTCCCAGA
*
16478573 CATGTCTTACACTAGC
65 CATGTCTCACACTAGC
16478589 TCACACAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 20 0.28
94 52 0.72
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
TCGATGCCATGTCCCAAACATGTCTTACACTGGCTCACATAATGAGGTCAATGCATGTCCCAGAC
ATGTCTCACACTAGCACTCGTCTCAATG
Found at i:16485716 original size:47 final size:47
Alignment explanation
Indices: 16485653--16485757 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
16485643 CCCTTCGGGA
* *
16485653 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
16485700 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
16485747 CTTATCACATA
1 CTTATCACATA
16485758 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:16486897 original size:44 final size:45
Alignment explanation
Indices: 16486808--16486897 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
16486798 AGCTACTTTC
16486808 TCTTTCCCTTATCCGAAATTTGTGCCCCCTTTTTGTCCTTGAGCT
1 TCTTTCCCTTATCCGAAATTTGTGCCCCCTTTTTGTCCTTGAGCT
*
16486853 TCTTTCCCTTATCCGAAATTTGTG-TCCCTTTTTGTCCTTGAGCT
1 TCTTTCCCTTATCCGAAATTTGTGCCCCCTTTTTGTCCTTGAGCT
16486897 T
1 T
16486898 AATTAAACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.11, C:0.29, G:0.13, T:0.47
Consensus pattern (45 bp):
TCTTTCCCTTATCCGAAATTTGTGCCCCCTTTTTGTCCTTGAGCT
Found at i:16488412 original size:53 final size:53
Alignment explanation
Indices: 16488332--16488437 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
16488322 TTCTTCTTTT
16488332 TTCCCTTCTTTCTCTTTTCTACTCACGGCAATGGAGAAGAAAAAAAGACCCAA
1 TTCCCTTCTTTCTCTTTTCTACTCACGGCAATGGAGAAGAAAAAAAGACCCAA
*
16488385 TTCCCTTCTTTCTCTTTTCTACTCACGGCAATGGAGAAGAAGAAAAGACCCAA
1 TTCCCTTCTTTCTCTTTTCTACTCACGGCAATGGAGAAGAAAAAAAGACCCAA
16488438 CTTTGTTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (53 bp):
TTCCCTTCTTTCTCTTTTCTACTCACGGCAATGGAGAAGAAAAAAAGACCCAA
Found at i:16490520 original size:40 final size:40
Alignment explanation
Indices: 16490476--16490628 Score: 236
Period size: 40 Copynumber: 3.8 Consensus size: 40
16490466 TACACATCAC
16490476 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAAT
1 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAAT
* * *
16490516 CGGCACGAATACCCTTCGGGATTTAGCCCGGATAT-AACT
1 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAAT
* * *
16490555 ACGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACAC
1 -CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAAT
16490596 CGGCACGAATGCCCTTCGGGACTTAGCCCGGAT
1 CGGCACGAATGCCCTTCGGGACTTAGCCCGGAT
16490629 CATCGTCGAG
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.03
40 99 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (40 bp):
CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAAT
Found at i:16490611 original size:80 final size:80
Alignment explanation
Indices: 16490476--16490628 Score: 261
Period size: 80 Copynumber: 1.9 Consensus size: 80
16490466 TACACATCAC
* *
16490476 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAATCGGCACGAATACCCTTCGGGATTTA
1 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAACCGGCACGAATACCCTTCGGGACTTA
16490541 GCCCGGATATAACTA
66 GCCCGGATATAACTA
* * *
16490556 CGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACCGGCACGAATGCCCTTCGGGACTTA
1 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAACCGGCACGAATACCCTTCGGGACTTA
16490621 GCCCGGAT
66 GCCCGGAT
16490629 CATCGTCGAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (80 bp):
CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAAAACCGGCACGAATACCCTTCGGGACTTA
GCCCGGATATAACTA
Found at i:16490755 original size:38 final size:38
Alignment explanation
Indices: 16490669--16490760 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
16490659 CTCTATGTGA
* * * **
16490669 AGCCAGTGGGTCTTAATCCGGACATAATCTATGTACAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTATACACAT
* * *
16490707 AGCCATCGGGTCTTTACCCGGACATAATCTCTACATAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTATACACAT
*
16490745 AGTCAGCGGGTCTTTA
1 AGCCAGCGGGTCTTTA
16490761 AACTCGGATT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (38 bp):
AGCCAGCGGGTCTTTACCCGGACATAATCTATACACAT
Found at i:16492754 original size:47 final size:47
Alignment explanation
Indices: 16492691--16492793 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
16492681 CCCTTCGGGA
** *
16492691 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACAAATATACACTTTCACATCCATCACATTGGCCATTCGGC
16492738 CTTATCACAAATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACAAATATACACTTTCACATCCATCACATTGGCCATTCGGC
16492785 CTTATCACA
1 CTTATCACA
16492794 TAATTAATAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACAAATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:16498372 original size:50 final size:49
Alignment explanation
Indices: 16498251--16498382 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
16498241 ATAGGGTGTA
* *
16498251 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACAGACTATCGAAATCC
* * * * * * *
16498300 AGGCTGACGCCATGTCCTAGACATTGTCTTACACCAG-CTCTC-ACATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACA-CAGACTATCGA-A-ATCC
16498350 ATGCCGATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACA
16498383 TTGGCATATC
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.02
49 33 0.50
50 32 0.48
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACAGACTATCGAAATCC
Found at i:16498440 original size:46 final size:46
Alignment explanation
Indices: 16498353--16498525 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
16498343 CATGTCCATG
* *
16498353 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCATATCTCGTAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCGTAA
* *
16498399 CCGATG-CATGTCCCAGATAT-GTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--ACATCTCGTA-A
* * *
16498445 CCGATG-CATGTCCCAGACA-CGTCTCACACTAGCAC-TCGTC-TCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATC-TCGT-AA
16498489 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 --CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
16498526 TCCCATAATG
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.02
44 16 0.15
45 15 0.14
46 48 0.46
47 13 0.12
48 11 0.10
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCGTAA
Found at i:16505049 original size:26 final size:26
Alignment explanation
Indices: 16505013--16505072 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
16505003 GAAAATCCTG
16505013 AGAGCCATTAATCAGGAAGATCACAA
1 AGAGCCATTAATCAGGAAGATCACAA
* * * *
16505039 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGATCACAA
16505065 AGAGCCAT
1 AGAGCCAT
16505073 ATAACAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGATCACAA
Found at i:16509757 original size:28 final size:27
Alignment explanation
Indices: 16509700--16509851 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
16509690 TAAATTGTGC
* *
16509700 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16509727 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
16509755 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16509782 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
16509810 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16509837 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16509852 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:16509765 original size:55 final size:55
Alignment explanation
Indices: 16509700--16509851 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
16509690 TAAATTGTGC
* *
16509700 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
16509755 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
16509810 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
16509852 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:16524439 original size:59 final size:57
Alignment explanation
Indices: 16524347--16524462 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 57
16524337 TGAGAAAACA
16524347 AAAGCATCCTCTTTTTGCAACACGTACGCCACATAATATTTTTAACCCCCCCCCCCCC
1 AAAGCATCCTCTTTTTGCAACACGTACGCCACATAATA-TTTTAACCCCCCCCCCCCC
*
16524405 NAAAGCATCCTCTTTTTGCAACACGTACGCCACATAATATTTTCACCCCCCCCCCCCC
1 -AAAGCATCCTCTTTTTGCAACACGTACGCCACATAATATTTTAACCCCCCCCCCCCC
16524463 TTTTAAGGCC
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 18 0.32
59 38 0.68
ACGTcount: A:0.25, C:0.42, G:0.07, T:0.25
Consensus pattern (57 bp):
AAAGCATCCTCTTTTTGCAACACGTACGCCACATAATATTTTAACCCCCCCCCCCCC
Found at i:16525848 original size:59 final size:60
Alignment explanation
Indices: 16525760--16525878 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 60
16525750 TTCAAACAGA
*
16525760 CCCCCCCCCCCTTTTTCTTTAATGCATT-AAAGTCAAGACTACTCTATCTCCATGTGACC
1 CCCCCCCCCCCTTTTTCTTTAATGCATTAAAAGTCAAGACTACGCTATCTCCATGTGACC
*
16525819 CCCCCCCCCCCTTTTT-TCTTAATTCATTAAAAAAGTCAAGACTACGCTATCTCCATGTGA
1 CCCCCCCCCCCTTTTTCT-TTAATGCATT--AAAAGTCAAGACTACGCTATCTCCATGTGA
16525879 ATGCACAGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
58 1 0.02
59 25 0.46
62 28 0.52
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.32
Consensus pattern (60 bp):
CCCCCCCCCCCTTTTTCTTTAATGCATTAAAAGTCAAGACTACGCTATCTCCATGTGACC
Found at i:16528673 original size:9 final size:9
Alignment explanation
Indices: 16528613--16528768 Score: 68
Period size: 9 Copynumber: 16.4 Consensus size: 9
16528603 GACATGTGCC
*
16528613 AAAAATGAT
1 AAAAATTAT
16528622 AAAAA--AT
1 AAAAATTAT
*
16528629 AAAAATAAT
1 AAAAATTAT
16528638 AAAAATTATT
1 AAAAATTA-T
**
16528648 AAATTTTAAT
1 AAAAATT-AT
16528658 AAAAAATTAT
1 -AAAAATTAT
*
16528668 AAAAATTGTAA
1 AAAAA-T-TAT
16528679 AAAATATATAT
1 AAAA-AT-TAT
*
16528690 AAAAAATTGT
1 -AAAAATTAT
**
16528700 AAAGTTTTAT
1 AAA-AATTAT
*
16528710 AAAAATCAT
1 AAAAATTAT
16528719 AAAAATTAT
1 AAAAATTAT
16528728 -AAAATATAT
1 AAAAAT-TAT
*
16528737 AGAAA-TAT
1 AAAAATTAT
* *
16528745 AGAAATATAGA
1 AAAAAT-TA-T
16528756 AAAAATTAT
1 AAAAATTAT
16528765 AAAA
1 AAAA
16528769 CTTTATAAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
7 7 0.06
8 13 0.12
9 40 0.36
10 25 0.22
11 22 0.20
12 5 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:16528673 original size:22 final size:22
Alignment explanation
Indices: 16528634--16528701 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
16528624 AAAATAAAAA
* *
16528634 TAAT-AAAAATTAT-TAAATTT
1 TAATAAAAAATTATAAAAATTG
16528654 TAATAAAAAATTATAAAAATTG
1 TAATAAAAAATTATAAAAATTG
*
16528676 TAA-AAAATATATATAAAAAATTG
1 TAATAAAAAAT-TAT-AAAAATTG
16528699 TAA
1 TAA
16528702 AGTTTTATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.10
21 15 0.37
22 11 0.27
23 11 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (22 bp):
TAATAAAAAATTATAAAAATTG
Found at i:16528744 original size:8 final size:8
Alignment explanation
Indices: 16528733--16528757 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16528723 ATTATAAAAT
16528733 ATATAGAA
1 ATATAGAA
16528741 ATATAGAA
1 ATATAGAA
16528749 ATATAGAA
1 ATATAGAA
16528757 A
1 A
16528758 AAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
ATATAGAA
Found at i:16529065 original size:9 final size:9
Alignment explanation
Indices: 16529041--16529162 Score: 52
Period size: 9 Copynumber: 12.8 Consensus size: 9
16529031 AAATTTTACC
16529041 ATTTTTATA
1 ATTTTTATA
* *
16529050 TTATTTTATG
1 AT-TTTTATA
16529060 ATTTTTATA
1 ATTTTTATA
*
16529069 ATTTTTTTTCTA
1 A---TTTTTATA
16529081 ATTTTTAATA
1 ATTTTT-ATA
*
16529091 TGTTTTTAT-
1 -ATTTTTATA
16529100 ATTTTTATTAA
1 ATTTTTA-T-A
* *
16529111 AATTTAATA
1 ATTTTTATA
16529120 ATTTTTATA
1 ATTTTTATA
** *
16529129 ACCTTTATTG
1 ATTTTTA-TA
16529139 ATTTTTAT-
1 ATTTTTATA
16529147 -TTTTTATAA
1 ATTTTTAT-A
16529156 ATTTTTA
1 ATTTTTA
16529163 CTACATGTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 28 0.34
10 24 0.29
11 10 0.12
12 8 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:16529075 original size:19 final size:19
Alignment explanation
Indices: 16528995--16529075 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
16528985 TTAAAGGGCA
*
16528995 TTTTTATGCA-TTTTATACT
1 TTTTTATG-ATTTTTATAAT
* *
16529014 TTTTTATGACTTTTATAAA
1 TTTTTATGATTTTTATAAT
* **
16529033 ATTTTACCATTTTTAT-AT
1 TTTTTATGATTTTTATAAT
16529051 TATTTTATGATTTTTATAAT
1 T-TTTTATGATTTTTATAAT
16529071 TTTTT
1 TTTTT
16529076 TTCTAATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
18 2 0.04
19 44 0.90
20 3 0.06
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTATGATTTTTATAAT
Found at i:16533933 original size:13 final size:13
Alignment explanation
Indices: 16533915--16533946 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16533905 AATCCACAAA
16533915 TTCACAACATATT
1 TTCACAACATATT
*
16533928 TTCACAATATATT
1 TTCACAACATATT
16533941 TTCACA
1 TTCACA
16533947 TATAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCACAACATATT
Found at i:16534242 original size:22 final size:21
Alignment explanation
Indices: 16534212--16534265 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
16534202 TGCAAGGCTC
* **
16534212 ACACACCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAA-GG
*
16534234 ACACGCCCGTGTGACCCTAGG
1 ACACGCCCGTGTGACCCAAGG
16534255 ACACGCCCGTG
1 ACACGCCCGTG
16534266 CTAGAGGCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.20, C:0.37, G:0.30, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCAAGG
Found at i:16536348 original size:24 final size:24
Alignment explanation
Indices: 16536321--16536369 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16536311 ACAAAGACAA
16536321 TTCATTATACTCATAATAATAATT
1 TTCATTATACTCATAATAATAATT
16536345 TTCATTATACTCATAATAATAATT
1 TTCATTATACTCATAATAATAATT
16536369 T
1 T
16536370 ATAAACTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (24 bp):
TTCATTATACTCATAATAATAATT
Found at i:16546015 original size:34 final size:33
Alignment explanation
Indices: 16545952--16546016 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
16545942 CATGACATAT
*
16545952 CCAATTCAATCAAATACATACTCATAAGCCTTA
1 CCAATTCAATCAAATACATACTCAAAAGCCTTA
* *
16545985 CCAATCTCTATCAAA-ACATAAGTCAAAAGCCT
1 CCAAT-TCAATCAAATACAT-ACTCAAAAGCCT
16546017 AACAAAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.43, C:0.28, G:0.05, T:0.25
Consensus pattern (33 bp):
CCAATTCAATCAAATACATACTCAAAAGCCTTA
Found at i:16549701 original size:29 final size:31
Alignment explanation
Indices: 16549669--16549727 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
16549659 TGAAGTTCAT
16549669 GTACCACATTGGACA-TTTTT-AAAGTACAA
1 GTACCACATTGGACATTTTTTGAAAGTACAA
16549698 GTACCACATTGGACATTTTTTGAAAGTACA
1 GTACCACATTGGACATTTTTTGAAAGTACA
16549728 CGTATCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 15 0.54
30 5 0.18
31 8 0.29
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (31 bp):
GTACCACATTGGACATTTTTTGAAAGTACAA
Found at i:16550227 original size:12 final size:12
Alignment explanation
Indices: 16550210--16550242 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
16550200 CGACCCGCCC
16550210 ATATTAATTTTT
1 ATATTAATTTTT
16550222 ATATT-ATTTTT
1 ATATTAATTTTT
16550233 ATA-TAATTTT
1 ATATTAATTTT
16550243 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:16550401 original size:30 final size:31
Alignment explanation
Indices: 16550365--16550428 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
16550355 ACTTAACAAG
*
16550365 CAAATGT-TTCTAAAATAATAACAA-AATTAA
1 CAAATGTCTT-TAAAAGAATAACAATAATTAA
*
16550395 CAAATGTCTTTAAAAGAATAATAATAATTAA
1 CAAATGTCTTTAAAAGAATAACAATAATTAA
16550426 CAA
1 CAA
16550429 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (31 bp):
CAAATGTCTTTAAAAGAATAACAATAATTAA
Found at i:16550483 original size:22 final size:22
Alignment explanation
Indices: 16550458--16550500 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16550448 TATCCAAACA
16550458 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* *
16550480 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
16550501 AATAGGGAGA
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:16550504 original size:11 final size:11
Alignment explanation
Indices: 16550466--16550505 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
16550456 CAATAACAAT
16550466 AAAATAGTAGC
1 AAAATAGTAGC
* * *
16550477 AACATAATAGT
1 AAAATAGTAGC
16550488 AAAATAGTAGC
1 AAAATAGTAGC
16550499 AAAATAG
1 AAAATAG
16550506 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:16550800 original size:25 final size:25
Alignment explanation
Indices: 16550772--16550837 Score: 62
Period size: 29 Copynumber: 2.5 Consensus size: 25
16550762 TACACTAAAA
*
16550772 TAAATTAAAATAAATGTTTCCCNAC
1 TAAATTAAAATAAATGTTTCCCAAC
*
16550797 TAAAAACATTAAAATAAATGTTTCTCAAC
1 T---AA-ATTAAAATAAATGTTTCCCAAC
16550826 -AAATTGAAAATA
1 TAAATT-AAAATA
16550838 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
24 3 0.09
25 9 0.26
28 2 0.06
29 20 0.59
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.30
Consensus pattern (25 bp):
TAAATTAAAATAAATGTTTCCCAAC
Found at i:16552507 original size:22 final size:22
Alignment explanation
Indices: 16552482--16552525 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16552472 TAGTCATACA
16552482 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
16552504 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
16552526 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:16552564 original size:19 final size:19
Alignment explanation
Indices: 16552542--16552580 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16552532 ATATTTCATT
*
16552542 TTTATTTTAATAATAAATA
1 TTTATTATAATAATAAATA
*
16552561 TTTATTATAATTATAAATA
1 TTTATTATAATAATAAATA
16552580 T
1 T
16552581 ATTAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTATAATAATAAATA
Found at i:16559809 original size:3 final size:3
Alignment explanation
Indices: 16559801--16559829 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16559791 ATCACATGTT
16559801 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16559830 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16564168 original size:3 final size:3
Alignment explanation
Indices: 16564160--16564209 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
16564150 ATCACATGTT
16564160 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16564208 TT
1 TT
16564210 TGGATGTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16564287 original size:72 final size:72
Alignment explanation
Indices: 16564210--16564393 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
16564200 TATTATTATT
*
16564210 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
16564275 TTTTAAG
66 TTTTAAG
16564282 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
16564347 TTTTAAG
66 TTTTAAG
16564354 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
16564394 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (72 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:16569720 original size:41 final size:40
Alignment explanation
Indices: 16569662--16569763 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 40
16569652 CGGCACTTTT
* * *
16569662 CCTAAAAACATGCCTTTAGCGGCGC-TTTCCCAAAAATGC
1 CCTAAAATCATGCCTTTAGCGGCACTTTTCCCAAAAACGC
*
16569701 CCTAAAGATCATGACCTTTAGCGGCACTTTTCCCACAAACGC
1 CCTAAA-ATCATG-CCTTTAGCGGCACTTTTCCCAAAAACGC
16569743 CGCTAAAAATCATGGCCTTTA
1 C-CT-AAAATCAT-GCCTTTA
16569764 AAAAAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 6 0.11
40 5 0.09
41 12 0.23
42 13 0.25
43 13 0.25
44 4 0.08
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (40 bp):
CCTAAAATCATGCCTTTAGCGGCACTTTTCCCAAAAACGC
Found at i:16569756 original size:43 final size:40
Alignment explanation
Indices: 16569662--16569763 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 40
16569652 CGGCACTTTT
* *
16569662 CCTAAAAA-CATGCCTTTAGCGGCGCTTTCCCAAAAATGC
1 CCTAAAAATCATGCCTTTAGCGGCACTTTCCCAAAAACGC
* *
16569701 CCTAAAGATCATGACCTTTAGCGGCACTTTTCCCACAAACGC
1 CCTAAAAATCATG-CCTTTAGCGGCAC-TTTCCCAAAAACGC
16569743 CGCTAAAAATCATGGCCTTTA
1 C-CTAAAAATCAT-GCCTTTA
16569764 AAAAAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
39 7 0.13
40 4 0.08
41 12 0.23
42 13 0.25
43 16 0.30
44 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (40 bp):
CCTAAAAATCATGCCTTTAGCGGCACTTTCCCAAAAACGC
Found at i:16569789 original size:19 final size:21
Alignment explanation
Indices: 16569767--16569819 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
16569757 GCCTTTAAAA
16569767 AAATTATTTTATTT-TA-ATT
1 AAATTATTTTATTTCTATATT
* *
16569786 AAATAATATTTATTTCTATGTT
1 AAATTAT-TTTATTTCTATATT
16569808 AAA-TATTTTATT
1 AAATTATTTTATT
16569820 ATGTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 13 0.46
21 4 0.14
22 5 0.18
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
AAATTATTTTATTTCTATATT
Found at i:16570033 original size:6 final size:6
Alignment explanation
Indices: 16570022--16570098 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
16570012 CTTAAATATT
* *
16570022 AAAATA AAAATA AAAATA TAGAATCA AAAAT- AAAATA AATAATA AAAATT
1 AAAATA AAAATA AAAATA -AAAAT-A AAAATA AAAATA AA-AATA AAAATA
* * * * *
16570072 AGATTA AATATA AAGATA TAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
16570099 TACAGCAAGT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
5 5 0.09
6 34 0.63
7 14 0.26
8 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:16570040 original size:20 final size:20
Alignment explanation
Indices: 16570015--16570056 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16570005 AAGTTATCTT
16570015 AAATATTAAAAT-AAAAATAA
1 AAATA-TAAAATCAAAAATAA
*
16570035 AAATATAGAATCAAAAATAA
1 AAATATAAAATCAAAAATAA
16570055 AA
1 AA
16570057 TAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATATAAAATCAAAAATAA
Found at i:16570069 original size:19 final size:20
Alignment explanation
Indices: 16570027--16570069 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
16570017 ATATTAAAAT
* *
16570027 AAAAATAAAAATATAGAATC
1 AAAAATAAAAATAAAGAATA
*
16570047 AAAAAT-AAAATAAATAATA
1 AAAAATAAAAATAAAGAATA
16570066 AAAA
1 AAAA
16570070 TTAGATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAATAAAGAATA
Found at i:16589984 original size:45 final size:44
Alignment explanation
Indices: 16589935--16590329 Score: 162
Period size: 45 Copynumber: 9.1 Consensus size: 44
16589925 GTAGATCACT
16589935 GATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * ** * * *
16589980 GATAGTAGATCTAACAT-TCGTGTGTTTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* * *
16590025 GATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAAATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * *
16590070 GATAGCATATCTGACAT-TC------A-A----AGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAA
** * *
16590102 GATAATAGATTTGGCGTCTCTGTATTAGACAGGGAACAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * * ** *
16590147 GATAGTAGATTTGACAT-TCGAATGT-TTACATTGAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC---TGTATTAGACGGGAGCAGATCGAA
* * * *
16590192 GAT-GACAGATTTGGCGTCTCTATAATAGACGGGGAGCGGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * * * * * * * * *
16590237 GGTAGTAGATCTGACATTTGTGTGTTTACATC-GAAGCAGATTGAA
1 GATAGCAGATTTGGCATCTCTGT-ATTAGA-CGGGAGCAGATCGAA
* * *
16590282 GAT-GACAGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCAAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
16590327 GAT
1 GAT
16590330 TTCAGCATGG
Statistics
Matches: 243, Mismatches: 75, Indels: 64
0.64 0.20 0.17
Matches are distributed among these distances:
32 21 0.09
33 2 0.01
37 1 0.00
38 1 0.00
39 1 0.00
40 1 0.00
43 4 0.02
44 18 0.07
45 173 0.71
46 16 0.07
47 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (44 bp):
GATAGCAGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAA
Found at i:16590145 original size:77 final size:77
Alignment explanation
Indices: 16590013--16590165 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
16590003 GTTTACATCG
* *
16590013 AAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAAATCGAAGATAGCAT
1 AAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAACAAATCGAAGATAGCAG
16590078 ATCTGACATTCA
66 ATCTGACATTCA
* * *
16590090 AAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTATTAGACAGGGAACAGATCGAAGATAGTAG
1 AAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAACAAATCGAAGATAGCAG
*
16590155 ATTTGACATTC
66 ATCTGACATTC
16590166 GAATGTTTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (77 bp):
AAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAACAAATCGAAGATAGCAG
ATCTGACATTCA
Found at i:16590237 original size:167 final size:167
Alignment explanation
Indices: 16589941--16590254 Score: 475
Period size: 167 Copynumber: 1.9 Consensus size: 167
16589931 CACTGATAGC
* * **
16589941 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTT
1 AGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGATAGTAGATCTAACATTCGAATGTT
* *
16590006 TACATCGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAAATCGAAG
66 TACATCGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAATAGACAGGGAGCAAATCGAAG
*
16590071 ATAGCATATCTGACATTCAAAGCAGATCGAAGATAAT
131 ATAGCAGATCTGACATTCAAAGCAGATCGAAGATAAT
* * *
16590108 AGATTTGGCGTCTCTGTATTAGACAGGGAACAGATCGAAGATAGTAGATTTGACATTCGAATGTT
1 AGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGATAGTAGATCTAACATTCGAATGTT
* * * **
16590173 TACATTGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTATAATAGACGGGGAGCGGATCGAAG
66 TACATCGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAATAGACAGGGAGCAAATCGAAG
* *
16590238 GTAGTAGATCTGACATT
131 ATAGCAGATCTGACATT
16590255 TGTGTGTTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
167 130 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (167 bp):
AGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGATAGTAGATCTAACATTCGAATGTT
TACATCGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAATAGACAGGGAGCAAATCGAAG
ATAGCAGATCTGACATTCAAAGCAGATCGAAGATAAT
Found at i:16590243 original size:90 final size:90
Alignment explanation
Indices: 16590090--16590329 Score: 336
Period size: 90 Copynumber: 2.7 Consensus size: 90
16590080 CTGACATTCA
* * * *
16590090 AAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTATTAGACAGGGAACAGATCGAAGATAGTAG
1 AAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAG
* *
16590155 ATTTGACATTCGAATGTTTACATTG
66 ATCTGACATTCGAATGTTTACATCG
* * * *
16590180 AAGCAGATCGAAGATGACAGATTTGGCGTCTCTATAATAGACGGGGAGCGGATCGAAGGTAGTAG
1 AAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAG
* **
16590245 ATCTGACATTTGTGTGTTTACATCG
66 ATCTGACATTCGAATGTTTACATCG
* * *
16590270 AAGCAGATTGAAGATGACAGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCAAAGAT
1 AAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGAT
16590330 TTCAGCATGG
Statistics
Matches: 130, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 130 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (90 bp):
AAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAG
ATCTGACATTCGAATGTTTACATCG
Found at i:16591864 original size:12 final size:11
Alignment explanation
Indices: 16591846--16591890 Score: 65
Period size: 12 Copynumber: 4.0 Consensus size: 11
16591836 ATAATATATA
16591846 TTATAT-TTAT
1 TTATATATTAT
16591856 TTATATATTAT
1 TTATATATTAT
16591867 TTATCATATTAT
1 TTAT-ATATTAT
16591879 TTATATTATTAT
1 TTATA-TATTAT
16591891 ACATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.19
11 9 0.28
12 17 0.53
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATATATTAT
Found at i:16591870 original size:21 final size:21
Alignment explanation
Indices: 16591839--16591927 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 21
16591829 TGTAAAAATA
16591839 ATATA-TA-TTATATTTATTT
1 ATATATTATTTATATTTATTT
16591858 ATATATTATTTATCATATTATTT
1 ATATATTATTTAT-AT-TTATTT
**
16591881 ATATTATTATACAT-TTTATTT
1 ATA-TATTATTTATATTTATTT
16591902 ATA-A--ATTT-TATTATATGTT
1 ATATATTATTTATATT-TAT-TT
16591921 ATATATT
1 ATATATT
16591928 TTACTATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
16 1 0.02
17 4 0.07
18 3 0.05
19 11 0.20
20 3 0.05
21 13 0.24
22 3 0.05
23 9 0.16
24 8 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (21 bp):
ATATATTATTTATATTTATTT
Found at i:16591879 original size:15 final size:14
Alignment explanation
Indices: 16591840--16591928 Score: 51
Period size: 13 Copynumber: 6.1 Consensus size: 14
16591830 GTAAAAATAA
16591840 TATATATTA-TATT
1 TATATATTATTATT
*
16591853 TATTTATATATTATT
1 TATATAT-TATTATT
16591868 TATCATATTATTTATAT
1 TAT-ATATTA-TTAT-T
16591885 TATTATACATT-TTATT
1 TA-TAT--ATTATTATT
*
16591901 TATAAATT-TTA-T
1 TATATATTATTATT
*
16591913 TATATGTTATATATT
1 TATATATTAT-TATT
16591928 T
1 T
16591929 TACTATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
12 7 0.12
13 13 0.22
14 4 0.07
15 13 0.22
16 10 0.17
17 9 0.15
18 1 0.02
19 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (14 bp):
TATATATTATTATT
Found at i:16591928 original size:19 final size:19
Alignment explanation
Indices: 16591900--16591936 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16591890 TACATTTTAT
*
16591900 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATG
*
16591919 TTATATATTTTACTATAT
1 TTATAAATTTTACTATAT
16591937 ATANNNNNNN
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATAAATTTTACTATATG
Found at i:16596872 original size:43 final size:42
Alignment explanation
Indices: 16596811--16596979 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 42
16596801 TATGATTTTT
* * *
16596811 GATATGTGTTCTCATGTAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGAT-TCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
16596854 GATATGTGATTACGTGTAAGACCATGTCTAGGACATTGACATC
1 GATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCATC
*
16596897 G-TATTTGATTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
1 GATATGTGATTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
* *
16596938 GATATGTGATGGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGAT-TCGTGTAAGACCACGTCTGGGACGTTGGCAT
16596980 TGTACAATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 26 0.25
42 17 0.16
43 60 0.58
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
GATATGTGATTCGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:16597182 original size:18 final size:19
Alignment explanation
Indices: 16597148--16597185 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16597138 GATGCAATAT
16597148 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
16597167 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
16597185 A
1 A
16597186 GTACATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:16599427 original size:31 final size:28
Alignment explanation
Indices: 16599357--16599432 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 28
16599347 TGAAGCTCTT
*
16599357 AAAGGATGCCTTTGTGGCGAGACTTTGA
1 AAAGGATGCCTTTGTGGCAAGACTTTGA
* * * *
16599385 AAAGAAAGCCTTTGTTGTAAGTACTTTATGA
1 AAAGGATGCCTTTGTGGCAAG-AC-TT-TGA
16599416 AAAGGATGCCTTTGTGG
1 AAAGGATGCCTTTGTGG
16599433 AAATCTCTGG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 16 0.43
29 2 0.05
30 2 0.05
31 17 0.46
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32
Consensus pattern (28 bp):
AAAGGATGCCTTTGTGGCAAGACTTTGA
Found at i:16603890 original size:24 final size:24
Alignment explanation
Indices: 16603863--16603910 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
16603853 AAACATCTCT
16603863 AAATA-AATCATAG-TTAGACTAGGA
1 AAATATAA-CATAGTTTA-ACTAGGA
16603887 AAATATAACATAGTTTAACTAGGA
1 AAATATAACATAGTTTAACTAGGA
16603911 GAAGAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (24 bp):
AAATATAACATAGTTTAACTAGGA
Found at i:16606218 original size:30 final size:29
Alignment explanation
Indices: 16606178--16606273 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
16606168 GTTAATAATT
* *
16606178 TATA-AAAATTAGATCAAATCAAAATTTCA
1 TATATAAAATTACATAAAATCAAAA-TTCA
*
16606207 TATATAAAATTACATAAAATTAAAATTCA
1 TATATAAAATTACATAAAATCAAAATTCA
* * *
16606236 TATATATAATTATATATTAAATCATAATTCA
1 TATATAAAATTACATA--AAATCAAAATTCA
*
16606267 TGTATAA
1 TATATAA
16606274 TTTTAATATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 22 0.40
30 17 0.31
31 16 0.29
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (29 bp):
TATATAAAATTACATAAAATCAAAATTCA
Done.