Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 78 of 190
Found at i:22520547 original size:27 final size:27
Alignment explanation
Indices: 22520483--22520583 Score: 139
Period size: 27 Copynumber: 3.6 Consensus size: 27
22520473 GTATGCTGTC
22520483 AAGGCATTCCTTTCATCGTATATTGCCACA
1 AAGGCATTCCTTTCA---TATATTGCCACA
* *
22520513 AAGGCATTCCTTTCATATTTTGTCACA
1 AAGGCATTCCTTTCATATATTGCCACA
* *
22520540 AAGACATTCTTTTCATATATTGCCACA
1 AAGGCATTCCTTTCATATATTGCCACA
22520567 AAGGCATTCCTTTCATA
1 AAGGCATTCCTTTCATA
22520584 AGTTGTTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 48 0.76
30 15 0.24
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (27 bp):
AAGGCATTCCTTTCATATATTGCCACA
Found at i:22524474 original size:19 final size:17
Alignment explanation
Indices: 22524438--22524476 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
22524428 TTAGTTGTTG
22524438 ATTAGTTAAATAAATTA
1 ATTAGTTAAATAAATTA
*
22524455 ATTAGCTTAAGATTAATTA
1 ATTAG-TTAA-ATAAATTA
22524474 ATT
1 ATT
22524477 TAATAAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTTAAATAAATTA
Found at i:22526737 original size:6 final size:6
Alignment explanation
Indices: 22526726--22526866 Score: 102
Period size: 6 Copynumber: 22.5 Consensus size: 6
22526716 ACATTGTAAT
* * * * *
22526726 AAAAAG AAAAAG AAGAAAATG AAAATG AAAATG AAGAAG AAAATG AAAATG
1 AAAAAG AAAAAG -A-AAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * **
22526777 AAAAAG AAAAAG AAAAAG AAATAG CAAAAG AAAAAG AAATCG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
** * * *
22526825 TGAGAG AAAAAG AAAACGAA AAAAAG AAAATTG AAAAAG AAA
1 AAAAAG AAAAAG AAAA--AG AAAAAG AAAA-AG AAAAAG AAA
22526867 TTGAGATTGA
Statistics
Matches: 105, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
6 85 0.81
7 9 0.09
8 10 0.10
9 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:22526885 original size:18 final size:18
Alignment explanation
Indices: 22526854--22526888 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22526844 AAAAAAGAAA
22526854 ATTGAAAAAGAAATTGAG
1 ATTGAAAAAGAAATTGAG
22526872 ATTGAGAAAA-AAATTGA
1 ATTGA-AAAAGAAATTGA
22526889 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAAAAAGAAATTGAG
Found at i:22548629 original size:54 final size:54
Alignment explanation
Indices: 22548563--22548687 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
22548553 GAATAAGTAT
* * *
22548563 TTAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGCTCATCTTAGTTAA-
1 TTAGTTGCTGGAATAAATTACTAATCTTAGTTAATTAAGCTCAGCTTAGTTAAC
* *
22548616 TTAAGTTGTTGGAATAAATTACTAATCTTAGTTAATTAAGTTCAGCTTAGTTAAC
1 TT-AGTTGCTGGAATAAATTACTAATCTTAGTTAATTAAGCTCAGCTTAGTTAAC
*
22548671 TTAGTTGCTGGATTAAA
1 TTAGTTGCTGGAATAAA
22548688 CTTTTAATGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.03
54 59 0.94
55 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
TTAGTTGCTGGAATAAATTACTAATCTTAGTTAATTAAGCTCAGCTTAGTTAAC
Found at i:22550527 original size:27 final size:28
Alignment explanation
Indices: 22550483--22550536 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
22550473 TATTAAAATA
*
22550483 AAAATATTTACTTAACTACAA-AAATTC
1 AAAATATTTACTTAACTAAAATAAATTC
*
22550510 AAAATATTT-TTTACACTAAAATAAATT
1 AAAATATTTACTTA-ACTAAAATAAATT
22550537 ATATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.13
27 15 0.65
28 5 0.22
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATATTTACTTAACTAAAATAAATTC
Found at i:22559786 original size:27 final size:27
Alignment explanation
Indices: 22559752--22559810 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
22559742 CACGACAACT
22559752 AAGAATAGCCATTATGGTGAACTCTAA
1 AAGAATAGCCATTATGGTGAACTCTAA
* * *
22559779 AAGAATAGCCTTTGTGTTGAACTCTAA
1 AAGAATAGCCATTATGGTGAACTCTAA
22559806 AAGAA
1 AAGAA
22559811 ATGCCTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (27 bp):
AAGAATAGCCATTATGGTGAACTCTAA
Found at i:22566458 original size:11 final size:10
Alignment explanation
Indices: 22566435--22566494 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
22566425 ATTGGGTTAA
22566435 AATTGAGCTG
1 AATTGAGCTG
*
22566445 AATTGATCTCG
1 AATTGAGCT-G
22566456 AA-TGAGCTG
1 AATTGAGCTG
* *
22566465 ACTTGAGCTC
1 AATTGAGCTG
*
22566475 AAGTGAGCTGG
1 AATTGAGCT-G
*
22566486 AAATGAGCT
1 AATTGAGCT
22566495 AAACAGAGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 2 0.05
10 26 0.67
11 11 0.28
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (10 bp):
AATTGAGCTG
Found at i:22566461 original size:20 final size:20
Alignment explanation
Indices: 22566438--22566494 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
22566428 GGGTTAAAAT
*
22566438 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
22566458 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
*
22566478 TGAGCTGGAAATGAGCT
1 TGAGCT-GAATTGAGCT
22566495 AAACAGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 21 0.68
21 8 0.26
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:22566979 original size:22 final size:20
Alignment explanation
Indices: 22566935--22566979 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
22566925 TATTTTAGAT
* *
22566935 TTAGTTTTTTTTTTGTTTTC
1 TTAGTTTTTTTTTTGCTTGC
22566955 TTAGTTTTATTTTTATGCTTGC
1 TTAGTTTT-TTTTT-TGCTTGC
22566977 TTA
1 TTA
22566980 ACCGGGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.71
Consensus pattern (20 bp):
TTAGTTTTTTTTTTGCTTGC
Found at i:22573563 original size:25 final size:25
Alignment explanation
Indices: 22573535--22573619 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
22573525 GTATGCTCTC
*
22573535 ACGAGCTGTGAATCGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
* *
22573560 ACGAGCTGCAAATTGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
*
22573585 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
22573610 ACGAGCTGTA
1 ACGAGCTGTA
22573620 GTGTGTTCGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGGAAGCTCAT
Found at i:22586490 original size:23 final size:22
Alignment explanation
Indices: 22586445--22586491 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22586435 GACAGTGTAG
* *
22586445 AAGTTAAATGGGTTTTAGGTTT
1 AAGTTAAAAGGGTTTTAAGTTT
*
22586467 AAGTTAAAAGGGTTTTTAATTTT
1 AAGTTAAAAGGG-TTTTAAGTTT
22586490 AA
1 AA
22586492 AAAAGGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (22 bp):
AAGTTAAAAGGGTTTTAAGTTT
Found at i:22586497 original size:20 final size:21
Alignment explanation
Indices: 22586472--22586521 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
22586462 GGTTTAAGTT
**
22586472 AAAAGGGT-TTTTAATTTTAA
1 AAAAGGGTATTTTAAAGTTAA
22586492 AAAA-GGTATTTTAAAGTTAA
1 AAAAGGGTATTTTAAAGTTAA
22586512 AAATAGGGTA
1 AAA-AGGGTA
22586522 AAATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 17 0.68
21 1 0.04
22 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (21 bp):
AAAAGGGTATTTTAAAGTTAA
Found at i:22591471 original size:17 final size:17
Alignment explanation
Indices: 22591451--22591489 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22591441 TGGCGGACCA
22591451 TATCACCTGGCAGATAG
1 TATCACCTGGCAGATAG
* * *
22591468 TATCACTTGGCGGATTG
1 TATCACCTGGCAGATAG
22591485 TATCA
1 TATCA
22591490 TCTAGTGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (17 bp):
TATCACCTGGCAGATAG
Found at i:22603950 original size:52 final size:53
Alignment explanation
Indices: 22603886--22603990 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
22603876 TGATTTATGT
* * *
22603886 CTATTAAGTATGCTATAATTCGGACAGCATCAATACATGTT-TTAAGTCAGAC
1 CTATTAACTATGCTATAATTCAGACAGCATCAATACATGTTAATAAGTCAGAC
* * * * *
22603938 CTATTAACTATGCTCTATTTCAGACAGCCTTAATGCATGTTAATAAGTCAGAC
1 CTATTAACTATGCTATAATTCAGACAGCATCAATACATGTTAATAAGTCAGAC
22603991 TCTTTAATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 34 0.77
53 10 0.23
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (53 bp):
CTATTAACTATGCTATAATTCAGACAGCATCAATACATGTTAATAAGTCAGAC
Found at i:22605878 original size:20 final size:20
Alignment explanation
Indices: 22605828--22605881 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
22605818 TGAACCCTTC
*
22605828 CATTTACTTAATTTCCATTG
1 CATTTACTTACTTTCCATTG
*
22605848 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
22605868 CATTTACTTACTTT
1 CATTTACTTACTTT
22605882 AGCTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:22606790 original size:45 final size:46
Alignment explanation
Indices: 22606719--22606841 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 46
22606709 GATCGGAGTG
* * *
22606719 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCT-CATCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGA
* * * *
22606764 TGTCATAGTGTCTTTCAACCGTGGTCTTATTCATTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGA
* * *
22606810 TGCCATATTTTGTTTCAACCATGGTCTTATTC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTC
22606842 GTTTGATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
45 32 0.49
46 33 0.51
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGA
Found at i:22606933 original size:89 final size:90
Alignment explanation
Indices: 22606822--22607024 Score: 209
Period size: 89 Copynumber: 2.3 Consensus size: 90
22606812 CCATATTTTG
* * * *
22606822 TTTCAACCATGGTCTTATTCGTTTGATTCATGATGCCATAGCAT-A-TTTCAG-CTATTG-TCTT
1 TTTCAATCATGGTCTTACTCGTTTGAATCATGAAGCCATA--ATGACTTTCAGTC-A-TGCTCTT
* *
22606883 ACTTGATAGAACCGTG-TGCCATAACGTC
62 ACTCGATAGAACCGTGATGCCATAACATC
* * * *
22606911 TTTCAATCATGGTCTTCCTCGTTAGAATCGTGAAGCCATAATGACTTTTAGTCATGCTCTTACTC
1 TTTCAATCATGGTCTTACTCGTTTGAATCATGAAGCCATAATGACTTTCAGTCATGCTCTTACTC
* **
22606976 GTTAGAATTGTGATGCCATAACATC
66 GATAGAACCGTGATGCCATAACATC
*
22607001 TTTCAGTCATGGTCTTACTCGTTT
1 TTTCAATCATGGTCTTACTCGTTT
22607025 CTGGTATGGT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
87 2 0.02
88 3 0.03
89 55 0.59
90 33 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (90 bp):
TTTCAATCATGGTCTTACTCGTTTGAATCATGAAGCCATAATGACTTTCAGTCATGCTCTTACTC
GATAGAACCGTGATGCCATAACATC
Found at i:22606966 original size:45 final size:45
Alignment explanation
Indices: 22606829--22607023 Score: 171
Period size: 45 Copynumber: 4.4 Consensus size: 45
22606819 TTGTTTCAAC
* * * * * * *
22606829 CATGGTCTTATTCGTTTGATTCATGATGCCATAGCATATTTCAG-
1 CATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
* * * * * * *
22606873 CTATTGTCTTACTTGATAGAACCGTG-TGCCATAACGTCTTTCAAT
1 C-ATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
* * *
22606918 CATGGTCTTCCTCGTTAGAATCGTGAAGCCATAATGA-CTTTTAGT
1 CATGGTCTTACTCGTTAGAATCGTGAAGCCATAA-CATCTTTCAGT
* * *
22606963 CATGCTCTTACTCGTTAGAATTGTGATGCCATAACATCTTTCAGT
1 CATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
22607008 CATGGTCTTACTCGTT
1 CATGGTCTTACTCGTT
22607024 TCTGGTATGG
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
44 35 0.30
45 82 0.70
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (45 bp):
CATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
Found at i:22609364 original size:54 final size:54
Alignment explanation
Indices: 22609302--22609429 Score: 204
Period size: 54 Copynumber: 2.4 Consensus size: 54
22609292 CCACACGGCT
*
22609302 GTGTCGCAGGCCATGTGCTAAA-TCGTGTAACAATCTATTTTGGCTCACATGACC
1 GTGTCGCAGGCCGTGTGCTAAACT-GTGTAACAATCTATTTTGGCTCACATGACC
* *
22609356 GTGTCGCAGGCTGTGTGCTAAACTGTGTAACAATCTATTTTGGCTCACATGGCC
1 GTGTCGCAGGCCGTGTGCTAAACTGTGTAACAATCTATTTTGGCTCACATGACC
*
22609410 GTGTCACAGGCCGTGTGCTA
1 GTGTCGCAGGCCGTGTGCTA
22609430 GACCGTGCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (54 bp):
GTGTCGCAGGCCGTGTGCTAAACTGTGTAACAATCTATTTTGGCTCACATGACC
Found at i:22610341 original size:6 final size:6
Alignment explanation
Indices: 22610330--22610365 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
22610320 CACAAATCGT
22610330 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA
1 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA
22610366 GTCGAATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTCA
Found at i:22615820 original size:20 final size:20
Alignment explanation
Indices: 22615771--22615877 Score: 117
Period size: 20 Copynumber: 5.3 Consensus size: 20
22615761 GCATCATAGA
* *
22615771 TGCATAACAGAGTCACTGAAG
1 TGCA-AACAGAGGCACCGAAG
* *
22615792 TGTAGACAGAGGCA-CGAATG
1 TGCAAACAGAGGCACCGAA-G
* * *
22615812 TGCGAACAGATGCACCGAAA
1 TGCAAACAGAGGCACCGAAG
22615832 TGCAAACAGAGGCACCGAAG
1 TGCAAACAGAGGCACCGAAG
*
22615852 TGCAAAGAGAGGCACCGAAG
1 TGCAAACAGAGGCACCGAAG
22615872 TGCAAA
1 TGCAAA
22615878 TCCATAAACA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 61 0.86
21 7 0.10
ACGTcount: A:0.39, C:0.21, G:0.29, T:0.11
Consensus pattern (20 bp):
TGCAAACAGAGGCACCGAAG
Found at i:22630695 original size:13 final size:14
Alignment explanation
Indices: 22630672--22630700 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22630662 AATAAATTAT
22630672 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
22630686 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
22630699 TT
1 TT
22630701 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:22635370 original size:13 final size:14
Alignment explanation
Indices: 22635347--22635375 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22635337 AATAAATTAT
22635347 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
22635361 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
22635374 TT
1 TT
22635376 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:22638257 original size:13 final size:14
Alignment explanation
Indices: 22638234--22638262 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22638224 AATAAATTAT
22638234 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
22638248 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
22638261 TT
1 TT
22638263 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:22641364 original size:45 final size:45
Alignment explanation
Indices: 22641313--22641531 Score: 366
Period size: 45 Copynumber: 4.9 Consensus size: 45
22641303 AAGAGGTGGA
*
22641313 CAACATCATGCATAATTCATGGGAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
22641358 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
22641403 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * *
22641448 CAACATCATGCATAATTCATGGAAGAATTTAATGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
22641493 CAACATCATGCATAATTTATAGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
22641532 CCATGGCCGA
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 164 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:22645777 original size:45 final size:45
Alignment explanation
Indices: 22645726--22645944 Score: 384
Period size: 45 Copynumber: 4.9 Consensus size: 45
22645716 AAGAGGTGGA
*
22645726 CAACATCATGCATAATTCATGGGAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
22645771 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
22645816 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
22645861 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * *
22645906 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
22645945 CCATGGCCGA
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 167 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:22647321 original size:23 final size:22
Alignment explanation
Indices: 22647293--22647347 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
22647283 AATCTATTTT
22647293 TTTATTAAAAATTACAAACGAA
1 TTTATTAAAAATTACAAACGAA
* * * * *
22647315 TCTTATTTAAACTTATAATCTAA
1 T-TTATTAAAAATTACAAACGAA
22647338 TTTATTAAAA
1 TTTATTAAAA
22647348 TCTATCAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTATTAAAAATTACAAACGAA
Found at i:22647549 original size:93 final size:93
Alignment explanation
Indices: 22647274--22647575 Score: 270
Period size: 93 Copynumber: 3.2 Consensus size: 93
22647264 TAATCTAACA
* * *
22647274 AAAACCTAAAATCTATTTTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATCTAAT
1 AAAACTTAAAATCTA-ATTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATTTAAT
*
22647339 TTATTAAAATCTATCAATCTAATTTTACTAAAT
65 TTATTAAAACCTATCAATCTAATTTTAC----T
* * * * * * * * * *
22647372 AAAACTTAAAATC-AAATTCTACTT-ATAATTA-TAA-TAATTTTTTTTCCAAAATTAAAATCTA
1 AAAACTTAAAATCTAATTTTTA-TTAAAAATTACAAACGAATCTTATTT--AAACTTATAAT-TT
** * **
22647433 AACCTATTAAAAGCTAAAAATCTAATTTTACT
62 AATTTATTAAAACCTATCAATCTAATTTTACT
* *
22647465 ACAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATTTAATT
1 AAAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATTTAATT
* *
22647530 TATTAAAACCTATCCATCTAATTTTAAT
66 TATTAAAACCTATCAATCTAATTTTACT
* *
22647558 AGAACTTAAAATCAAATT
1 AAAACTTAAAATCTAATT
22647576 CTAACTAAAA
Statistics
Matches: 157, Mismatches: 39, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
93 57 0.36
94 29 0.18
95 4 0.03
96 26 0.17
97 29 0.18
98 12 0.08
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (93 bp):
AAAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATTTAATT
TATTAAAACCTATCAATCTAATTTTACT
Found at i:22647622 original size:186 final size:190
Alignment explanation
Indices: 22647280--22647663 Score: 618
Period size: 186 Copynumber: 2.0 Consensus size: 190
22647270 AACAAAAACC
* *
22647280 TAAAATCTATTTTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATCTAATTTATTA
1 TAAAATCTATATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTATTA
* *
22647345 AAATCTATCAATCTAATTTTACTAAATAAAACTTAAAATCAAATTCTACTTATAATTATAATAAT
66 AAACCTATCAATCTAATTTTA-TAAATAAAACTTAAAATCAAATTCTACTTAAAATTATAATAAT
*
22647410 TTTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
130 ATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
*
22647471 TAAAATCTA-ATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATTTAATTTATTA
1 TAAAATCTATATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTATTA
* * *
22647535 AAACCTATCCATCTAA-TTT-T-AATAGAACTTAAAATCAAATTCTAAC-TAAAATTCTAAT-AT
66 AAACCTATCAATCTAATTTTATAAATAAAACTTAAAATCAAATTCT-ACTTAAAATTATAATAAT
22647595 AATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
130 -ATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
22647657 TAAAATC
1 TAAAATC
22647664 AAACCCTTTT
Statistics
Matches: 182, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
185 2 0.01
186 99 0.54
187 3 0.02
189 3 0.02
190 66 0.36
191 9 0.05
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.39
Consensus pattern (190 bp):
TAAAATCTATATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTATTA
AAACCTATCAATCTAATTTTATAAATAAAACTTAAAATCAAATTCTACTTAAAATTATAATAATA
TTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
Found at i:22647808 original size:92 final size:92
Alignment explanation
Indices: 22647412--22648171 Score: 867
Period size: 92 Copynumber: 8.2 Consensus size: 92
22647402 ATAATAATTT
* * * * *
22647412 TTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
* ** * ** * * *
22647477 CTAATTTTTATTAAAAATTACAAACGAA
66 C-AAATCCTATTTAAACCTATAATCTAA
* * ** * * ** * *** * * *
22647505 TCTCATTTAAACTTATAAT-TTAATTTATTAAAACCTATCCATCTAATTTTAATAGAACTTAAAA
1 TTTTA-CCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAA
* ** ** * *
22647569 TCAAATTCTAACTAAAATTCTAATATAA
65 TCAAATCCTATTTAAACCTATAATCTAA
* * * * *
22647597 TTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAA
1 -TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAA
*
22647662 TCAAACCCT-TTTAAACCTATAATCTAA
65 TCAAATCCTATTTAAACCTATAATCTAA
** *
22647689 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATACTATTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
*
22647754 CAAATCCTATTTAAACCTATTATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* * * * *
22647781 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
22647846 CAAATCCTATTTAAACCTATAATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
**
22647873 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATACTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
* *
22647938 CAAATCCTATTTAATCCTATTATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* * * * *
22647965 TTTTTCCAAAATTATGATCTAAGCCTATTAGAACCTAAAATTCTAATTTTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
*
22648030 CAAATCCTATTTAAACCTATAAACTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* * * *
22648057 TTTTACCAAAATTACAATATAAACCTACTAGAACCTAAAAATATAATTTTACTACAACTTCAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
*
22648122 CAAATCCTATTTAAATCTATAATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* *
22648149 TTTTACCAAAATTAAAACCTAAA
1 TTTTACCAAAATTATAATCTAAA
22648172 AATATAGTTT
Statistics
Matches: 561, Mismatches: 102, Indels: 9
0.83 0.15 0.01
Matches are distributed among these distances:
91 64 0.11
92 403 0.72
93 85 0.15
94 9 0.02
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (92 bp):
TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
CAAATCCTATTTAAACCTATAATCTAA
Found at i:22649247 original size:6 final size:6
Alignment explanation
Indices: 22649236--22649264 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22649226 TGAAAGGGTT
22649236 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
22649265 AGTGTCTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:22649276 original size:4 final size:4
Alignment explanation
Indices: 22649267--22649307 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
22649257 AGGGAGAGAG
22649267 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
22649308 CTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTC
Found at i:22649316 original size:2 final size:2
Alignment explanation
Indices: 22649309--22649338 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22649299 TGTCTGTCTC
*
22649309 TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22649339 GACAGCCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:22653593 original size:22 final size:21
Alignment explanation
Indices: 22653566--22653607 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
22653556 TTTTCCTTTG
22653566 TTTTA-TTTATTTATTTATTTAT
1 TTTTATTTTA-TTATTT-TTTAT
22653588 TTTTATTTTATTATTTTTTA
1 TTTTATTTTATTATTTTTTA
22653608 ATGCTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTTATTATTTTTTAT
Found at i:22653812 original size:109 final size:108
Alignment explanation
Indices: 22653612--22653812 Score: 314
Period size: 109 Copynumber: 1.9 Consensus size: 108
22653602 TTTTTAATGC
* * *
22653612 TTAAGAATGTATTGGTCCTTTTGACGCGAAATGGAATGACAATCAAGCACCCCACCCTGGTTACT
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCTAGTTACT
* *
22653677 CAGCCCAACATACTCTTAATTTATTATATTATATATATATTGT
66 CAGCCCAACACACTCTTAATTAATTATATTATATATATATTGT
* *
22653720 TTAAGAATGTATTGGCCCTTTTGACGC-AAAGTGGAATGACAACCCAGACATCCCACCCTAGTTA
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAA-TGGAATGACAACCAAG-CACCCCACCCTAGTTA
22653784 CTCAGCCCAACACACTCTTAATTAATTAT
64 CTCAGCCCAACACACTCTTAATTAATTAT
22653813 TTTTTGTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
107 3 0.04
108 40 0.48
109 41 0.49
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (108 bp):
TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCTAGTTACT
CAGCCCAACACACTCTTAATTAATTATATTATATATATATTGT
Found at i:22654617 original size:12 final size:12
Alignment explanation
Indices: 22654600--22654639 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
22654590 GAAAGAAAAT
22654600 AAAATATATAAC
1 AAAATATATAAC
*
22654612 AAAATA-A-AAT
1 AAAATATATAAC
22654622 AAAATATATAAC
1 AAAATATATAAC
22654634 AAAATA
1 AAAATA
22654640 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATATAAC
Found at i:22654623 original size:22 final size:23
Alignment explanation
Indices: 22654595--22654648 Score: 101
Period size: 22 Copynumber: 2.4 Consensus size: 23
22654585 AACATGAAAG
22654595 AAAATAAAATATATAACAAAAT-
1 AAAATAAAATATATAACAAAATA
22654617 AAAATAAAATATATAACAAAATA
1 AAAATAAAATATATAACAAAATA
22654640 AAAATAAAA
1 AAAATAAAA
22654649 ATTAAATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATAAAATATATAACAAAATA
Found at i:22658678 original size:10 final size:10
Alignment explanation
Indices: 22658629--22658662 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
22658619 ATTTATGACA
22658629 TGTATCATAT
1 TGTATCATAT
22658639 TGTATCATAT
1 TGTATCATAT
22658649 TGTATCATAT
1 TGTATCATAT
22658659 TGTA
1 TGTA
22658663 AATGTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (10 bp):
TGTATCATAT
Found at i:22659339 original size:15 final size:15
Alignment explanation
Indices: 22659319--22659349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22659309 TTGATTTTGT
*
22659319 AATCTTAAGGGATTG
1 AATCTTAAAGGATTG
22659334 AATCTTAAAGGATTG
1 AATCTTAAAGGATTG
22659349 A
1 A
22659350 GTCAATCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (15 bp):
AATCTTAAAGGATTG
Found at i:22659916 original size:85 final size:85
Alignment explanation
Indices: 22659784--22659953 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
22659774 ATCTCATTTT
*
22659784 TTTTTTTGCATTTTATAGAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
1 TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
22659849 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
* *
22659869 TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGTCCTTATCGTACACTCTAAATTT
1 TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
22659934 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
22659954 AATTTCAATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (85 bp):
TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
ATATTATATAATAATAGTCA
Found at i:22660959 original size:19 final size:20
Alignment explanation
Indices: 22660911--22660967 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 20
22660901 AGCTAGCCTT
22660911 TATTATGTATAATTATAATATAA
1 TATTAT-TA-AATTA-AATATAA
22660934 TATTTATTAAATTAAATA-AA
1 TA-TTATTAAATTAAATATAA
*
22660954 TATTATGAAATTAA
1 TATTATTAAATTAA
22660968 TCTCAATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.34
20 4 0.12
21 4 0.12
22 5 0.16
23 4 0.12
24 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATTATTAAATTAAATATAA
Found at i:22666701 original size:19 final size:19
Alignment explanation
Indices: 22666677--22666714 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22666667 AGTATGTGTA
*
22666677 AATTTTAGTTATGTTAATT
1 AATTTTAATTATGTTAATT
*
22666696 AATTTTAATTATTTTAATT
1 AATTTTAATTATGTTAATT
22666715 TGTACTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
AATTTTAATTATGTTAATT
Found at i:22668274 original size:32 final size:31
Alignment explanation
Indices: 22668195--22668275 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
22668185 GGTCCCTTCA
*
22668195 CCGTCGGTTTCCTCATCGTCTAACCCCTTTCC
1 CCGTCGGTTTCC-CATCGTCAAACCCCTTTCC
* *
22668227 CCATCGATTTCCCCATC-TCGAAACCCCTTTCC
1 CCGTCGGTTT-CCCATCGTC-AAACCCCTTTCC
22668259 CCGTCGGTTATCCCATC
1 CCGTCGGTT-TCCCATC
22668276 CCCGAACCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
31 2 0.05
32 36 0.88
33 3 0.07
ACGTcount: A:0.14, C:0.44, G:0.11, T:0.31
Consensus pattern (31 bp):
CCGTCGGTTTCCCATCGTCAAACCCCTTTCC
Found at i:22668284 original size:32 final size:32
Alignment explanation
Indices: 22668216--22668288 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
22668206 CTCATCGTCT
*
22668216 AACCCCTTTCCCCATCGATTTCCCCATCTCGA
1 AACCCCTTTCCCCATCGATTTCCCCATCCCGA
* *
22668248 AACCCCTTTCCCCGTCGGTTAT-CCCATCCCCGA
1 AACCCCTTTCCCCATCGATT-TCCCCAT-CCCGA
*
22668281 ACCCCCTT
1 AACCCCTT
22668289 CCTTGTCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.66
33 12 0.34
ACGTcount: A:0.16, C:0.49, G:0.08, T:0.26
Consensus pattern (32 bp):
AACCCCTTTCCCCATCGATTTCCCCATCCCGA
Found at i:22668367 original size:66 final size:64
Alignment explanation
Indices: 22668195--22668367 Score: 161
Period size: 64 Copynumber: 2.7 Consensus size: 64
22668185 GGTCCCTTCA
* * * * * *
22668195 CCGTCGGTTTCCTCATCGTCTAACCCCTTTCCCCATCGATTTCCCCATCTCGAAACCCCTTTCC
1 CCGTCGGTTTCCTCATCGCCGAACCCCCTTCCCCATCGATTTCCCCAGCCCGAAACCCATTTCC
* *** * *
22668259 CCGTCGGTTATCC-CATCCCCGAACCCCCTTCCTTGTCAATTTCCCTAGCCCTG-AACCTACATT
1 CCGTCGGTT-TCCTCATCGCCGAACCCCCTTCCCCATCGATTTCCCCAGCCC-GAAACC--CATT
*
22668322 TTC
62 TCC
* *
22668325 CCGTCGATTTCCTCTTCGCCGAACCCCCTTCCCCATCGATTTC
1 CCGTCGGTTTCCTCATCGCCGAACCCCCTTCCCCATCGATTTC
22668368 TTCATCTTCA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
64 40 0.48
65 7 0.08
66 37 0.44
ACGTcount: A:0.14, C:0.45, G:0.10, T:0.31
Consensus pattern (64 bp):
CCGTCGGTTTCCTCATCGCCGAACCCCCTTCCCCATCGATTTCCCCAGCCCGAAACCCATTTCC
Found at i:22668382 original size:32 final size:33
Alignment explanation
Indices: 22668346--22668407 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
22668336 CTCTTCGCCG
22668346 AACCCC-CTTCCCCATCGA-TTTCTTCATCTTCA
1 AACCCCTCTTCCCCATC-ATTTTCTTCATCTTCA
*
22668378 AACCCCTCTTCCCCGTCATTTTCTTCATCT
1 AACCCCTCTTCCCCATCATTTTCTTCATCT
22668408 CTGAACACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.16, C:0.44, G:0.03, T:0.37
Consensus pattern (33 bp):
AACCCCTCTTCCCCATCATTTTCTTCATCTTCA
Found at i:22683279 original size:25 final size:25
Alignment explanation
Indices: 22683241--22683319 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
22683231 CAGCTTGTGA
**
22683241 GAGCTTACCAATTTTTAGCTCATAT
1 GAGCTTACCAATTTACAGCTCATAT
**
22683266 GAGCTTACTGATTTACAGCTCATGA-
1 GAGCTTACCAATTTACAGCTCAT-AT
* * * *
22683291 GAGCATACCGATTCACAGCTCGTAT
1 GAGCTTACCAATTTACAGCTCATAT
22683316 GAGC
1 GAGC
22683320 ATAGTACAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCATAT
Found at i:22683320 original size:25 final size:25
Alignment explanation
Indices: 22683257--22683322 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
22683247 ACCAATTTTT
* * *
22683257 AGCTCATATGAGCTTACTGATTTAC
1 AGCTCATATGAGCATACCGATTCAC
22683282 AGCTCATGA-GAGCATACCGATTCAC
1 AGCTCAT-ATGAGCATACCGATTCAC
*
22683307 AGCTCGTATGAGCATA
1 AGCTCATATGAGCATA
22683323 GTACAGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
AGCTCATATGAGCATACCGATTCAC
Found at i:22684147 original size:25 final size:25
Alignment explanation
Indices: 22684084--22684166 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
22684074 TTACCAATTG
*
22684084 CAGCTTGTGAGAGCTTACCAAATTT-
1 CAGCTCGTGAGAGCTTA-CAAATTTA
* * *
22684109 TAGCTCAT-ATGAGCTTACTAATTTA
1 CAGCTCGTGA-GAGCTTACAAATTTA
* ** *
22684134 CAGCTCGTGAGAGCATACCGATTCA
1 CAGCTCGTGAGAGCTTACAAATTTA
22684159 CAGCTCGT
1 CAGCTCGT
22684167 ATGAGCATAC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
24 7 0.16
25 37 0.82
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACAAATTTA
Found at i:22684172 original size:25 final size:25
Alignment explanation
Indices: 22684110--22684176 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
22684100 ACCAAATTTT
* * * *
22684110 AGCTCATATGAGCTTACTAATTTAC
1 AGCTCGTATGAGCATACCAATTCAC
*
22684135 AGCTCGTGA-GAGCATACCGATTCAC
1 AGCTCGT-ATGAGCATACCAATTCAC
22684160 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
22684177 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCAATTCAC
Found at i:22687267 original size:27 final size:27
Alignment explanation
Indices: 22687237--22687334 Score: 144
Period size: 27 Copynumber: 3.6 Consensus size: 27
22687227 TTCATAATTC
*
22687237 GCCACTAAGGCTATTCTCTTAGAGTTT
1 GCCACAAAGGCTATTCTCTTAGAGTTT
22687264 GCCACAAAGGCTATTCT-TTCAGAGTTT
1 GCCACAAAGGCTATTCTCTT-AGAGTTT
* *
22687291 GCCACAAAGGCTTTTCTCCTAGAGTTT
1 GCCACAAAGGCTATTCTCTTAGAGTTT
*
22687318 GCCACAAAGGCTTTTCT
1 GCCACAAAGGCTATTCT
22687335 TCCAGTCTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
26 2 0.03
27 63 0.95
28 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (27 bp):
GCCACAAAGGCTATTCTCTTAGAGTTT
Found at i:22687295 original size:54 final size:54
Alignment explanation
Indices: 22687207--22687335 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
22687197 CCTTGTAGGA
* * * * * *
22687207 TTTGCCACAGAGGCTATCCCTTCATAATTCGCCACTAAGGCTATTCTCTTAGAG
1 TTTGCCACAAAGGCTATTCTTTCAGAATTCGCCACAAAGGCTATTCTCCTAGAG
* * *
22687261 TTTGCCACAAAGGCTATTCTTTCAGAGTTTGCCACAAAGGCTTTTCTCCTAGAG
1 TTTGCCACAAAGGCTATTCTTTCAGAATTCGCCACAAAGGCTATTCTCCTAGAG
*
22687315 TTTGCCACAAAGGCTTTTCTT
1 TTTGCCACAAAGGCTATTCTT
22687336 CCAGTCTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (54 bp):
TTTGCCACAAAGGCTATTCTTTCAGAATTCGCCACAAAGGCTATTCTCCTAGAG
Found at i:22687353 original size:27 final size:27
Alignment explanation
Indices: 22687257--22687362 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
22687247 CTATTCTCTT
* *
22687257 AGAGTTTGCCACAAAGGCTATTCTTTC
1 AGAGTTTGCCACAAAGGCTTTTCTTCC
22687284 AGAGTTTGCCACAAAGGCTTTTC-TCC
1 AGAGTTTGCCACAAAGGCTTTTCTTCC
22687310 TAGAGTTTGCCACAAAGGCTTTTCTTCC
1 -AGAGTTTGCCACAAAGGCTTTTCTTCC
** * *
22687338 AGTCTTTACCAAAAAGGCTTTTCTT
1 AGAGTTTGCCACAAAGGCTTTTCTT
22687363 TCCTGACGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.03
27 66 0.93
28 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
AGAGTTTGCCACAAAGGCTTTTCTTCC
Found at i:22687354 original size:54 final size:54
Alignment explanation
Indices: 22687243--22687361 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
22687233 ATTCGCCACT
* * * * * *
22687243 AAGGCTATTCTCTTAGAGTTTGCCACAAAGGCTATTCTTTCAGAGTTTGCCACA
1 AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTATTCTTCCAGACTTTACCAAA
* *
22687297 AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTTTTCTTCCAGTCTTTACCAAA
1 AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTATTCTTCCAGACTTTACCAAA
22687351 AAGGCTTTTCT
1 AAGGCTTTTCT
22687362 TTCCTGACGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTATTCTTCCAGACTTTACCAAA
Found at i:22690341 original size:42 final size:42
Alignment explanation
Indices: 22690295--22690374 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
22690285 TCAAAATTGG
22690295 GACACACAGCCGTGTCCCAGCCT-GTGTAACTCATTGACATGA
1 GACACACAGCCGTGTCCCAG-CTAGTGTAACTCATTGACATGA
* * *
22690337 GACACACGGCTGTGTCTCAGCTAGTGTAACTCATTGAC
1 GACACACAGCCGTGTCCCAGCTAGTGTAACTCATTGAC
22690375 TTAGGTCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (42 bp):
GACACACAGCCGTGTCCCAGCTAGTGTAACTCATTGACATGA
Found at i:22691210 original size:22 final size:22
Alignment explanation
Indices: 22691168--22691215 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22691158 TATTCAATTA
**
22691168 CATGATATTACCATTTCTATTT
1 CATGATATTACCACATCTATTT
22691190 CATGCATATTACCACAT-TATTT
1 CATG-ATATTACCACATCTATTT
22691212 CATG
1 CATG
22691216 TTATGTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (22 bp):
CATGATATTACCACATCTATTT
Found at i:22698730 original size:8 final size:8
Alignment explanation
Indices: 22698717--22698741 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22698707 TTTTAAATGA
22698717 TATTTTAT
1 TATTTTAT
22698725 TATTTTAT
1 TATTTTAT
22698733 TATTTTAT
1 TATTTTAT
22698741 T
1 T
22698742 TAGTATATAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:22700788 original size:50 final size:50
Alignment explanation
Indices: 22700734--22701117 Score: 468
Period size: 50 Copynumber: 7.7 Consensus size: 50
22700724 CAATATGTGG
*
22700734 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * *
22700784 CCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * *
22700834 CCCTGTAAGACCATGTCTGGGAAATGGCGTTGGCACCAAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* *
22700884 CCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAAAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* *
22700934 CCATATAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * * **
22700984 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACGGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * * **
22701034 CCATGTAAGGCCATATCTTGGATATGGCATTGGCA--GTACA-GAAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG-AGAGGTC
* *
22701083 CCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22701118 TGTTATTATC
Statistics
Matches: 289, Mismatches: 43, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
48 2 0.01
49 35 0.12
50 252 0.87
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:22715572 original size:26 final size:26
Alignment explanation
Indices: 22715543--22715598 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
22715533 ATAAAAAAAA
*
22715543 CTTTTCTAGATAGCACACCACAAAGG
1 CTTTTCTAGATAACACACCACAAAGG
* * **
22715569 CTTTTCCAGAAAACATGCCACAAAGG
1 CTTTTCTAGATAACACACCACAAAGG
22715595 CTTT
1 CTTT
22715599 CACAAGATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (26 bp):
CTTTTCTAGATAACACACCACAAAGG
Found at i:22715643 original size:26 final size:24
Alignment explanation
Indices: 22715560--22715649 Score: 65
Period size: 26 Copynumber: 3.6 Consensus size: 24
22715550 AGATAGCACA
22715560 CCACAAAGGCTTTTCCAGAAAACATG
1 CCACAAAGG-TTTTCCA-AAAACATG
* * **
22715586 CCACAAAGGCTTTCACAAGATTA-G
1 CCACAAAGGTTTTC-CAAAAACATG
* *
22715610 CCATAAAGGTTTTTCCATATAACATG
1 CCACAAAGG-TTTTCCA-AAAACATG
*
22715636 CCACAAAGGCTTTC
1 CCACAAAGGTTTTC
22715650 AGAAGATAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
24 11 0.22
25 18 0.37
26 20 0.41
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (24 bp):
CCACAAAGGTTTTCCAAAAACATG
Found at i:22715666 original size:27 final size:28
Alignment explanation
Indices: 22715628--22715684 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
22715618 GTTTTTCCAT
* * *
22715628 ATAACATGCCACAAAGGC-TTTCAGAAG
1 ATAACATACCACAAAAGCTTTTCACAAG
22715655 ATAACATACCACAAAAGCTTTTCACAAG
1 ATAACATACCACAAAAGCTTTTCACAAG
22715683 AT
1 AT
22715685 TAGCTACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (28 bp):
ATAACATACCACAAAAGCTTTTCACAAG
Found at i:22715696 original size:78 final size:77
Alignment explanation
Indices: 22715560--22715703 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 77
22715550 AGATAGCACA
* * *
22715560 CCACAAAGGCTTTTCCAGAAAACATGCCACAAAGGCTTTCACAAGATTAGCCATAAAGG-TTTTT
1 CCACAAAGGCTTTTCCAGAAAACATACCACAAAAGCTTTCACAAGATTAGCCACAAAGGCTTTTT
22715624 CCATATAACATG
66 CCATATAACATG
*
22715636 CCACAAAGGC-TTT-CAGAAGATAACATACCACAAAAGCTTTTCACAAGATTAGCTACAAAGGCT
1 CCACAAAGGCTTTTCCAG-A-A-AACATACCACAAAAGC-TTTCACAAGATTAGCCACAAAGGCT
22715699 TTTTC
62 TTTTC
22715704 ACGTAAGCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
74 3 0.05
75 4 0.07
76 11 0.19
77 14 0.24
78 21 0.36
79 6 0.10
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (77 bp):
CCACAAAGGCTTTTCCAGAAAACATACCACAAAAGCTTTCACAAGATTAGCCACAAAGGCTTTTT
CCATATAACATG
Found at i:22721312 original size:6 final size:6
Alignment explanation
Indices: 22721296--22721336 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
22721286 TTAAATATAC
22721296 AAAACT AAAAACT AAAACT AAAACT AAAACT AAAACT AAAA
1 AAAACT -AAAACT AAAACT AAAACT AAAACT AAAACT AAAA
22721337 GCTCCCAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAACT
Found at i:22724371 original size:21 final size:21
Alignment explanation
Indices: 22724345--22724391 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22724335 ATAAAATCTC
*
22724345 CTAATACTTATCCTAATAAAA
1 CTAATACATATCCTAATAAAA
* *
22724366 CTAATACATCTTCTAATAAAA
1 CTAATACATATCCTAATAAAA
22724387 -TAATA
1 CTAATA
22724392 ACTAATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (21 bp):
CTAATACATATCCTAATAAAA
Found at i:22726132 original size:24 final size:23
Alignment explanation
Indices: 22726105--22726166 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
22726095 TACTGCAAAG
*
22726105 TTGAGTTGTTTGTACACAACGCTA-
1 TTGAGTGGTTTG-ACACAACG-TAT
*
22726129 TTGAGTGGCTTTGCCACAACGTAT
1 TTGAGTGG-TTTGACACAACGTAT
22726153 TTGAGTGGTTTGAC
1 TTGAGTGGTTTGAC
22726167 CATAAACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 22 0.67
25 4 0.12
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (23 bp):
TTGAGTGGTTTGACACAACGTAT
Found at i:22743908 original size:29 final size:29
Alignment explanation
Indices: 22743808--22743938 Score: 88
Period size: 29 Copynumber: 4.4 Consensus size: 29
22743798 TCACTGGGAA
* *
22743808 AGGAATGCCTTTATGGCAAAACTCTAGAC
1 AGGAAAGCCTTTATGGCAAAACTCTAAAC
* * *
22743837 AGGAAAGCCTTTGTGG-AGAGTACTGGATATAA-
1 AGGAAAGCCTTTATGGCA-A-AACT--CTA-AAC
22743869 AGGAATA-CCTTTATGGCAAAACTCTAAAC
1 AGGAA-AGCCTTTATGGCAAAACTCTAAAC
* * * * * *
22743898 AGGAAATCCTTTGTAGCACAACTCTAGAG
1 AGGAAAGCCTTTATGGCAAAACTCTAAAC
22743927 AGGAAAGCCTTT
1 AGGAAAGCCTTT
22743939 GCGATGAGTA
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
28 4 0.05
29 50 0.63
30 3 0.04
31 3 0.04
32 16 0.20
33 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (29 bp):
AGGAAAGCCTTTATGGCAAAACTCTAAAC
Found at i:22743961 original size:90 final size:90
Alignment explanation
Indices: 22743808--22744002 Score: 268
Period size: 90 Copynumber: 2.2 Consensus size: 90
22743798 TCACTGGGAA
* * * * *
22743808 AGGAATGCCTTTATGGCAAAACTCTAGACAGGAAAGCCTTTGTGGAGAGTACTGGATATAAAGGA
1 AGGAAAGCCTTTGTAGCACAACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGA
22743873 ATACCTTTATGGCA-AAACTCTAAAC
66 ATACCTTTATGGCACAAA-TCTAAAC
* *
22743898 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTG-CGATGAGTACTGGATATAAAGG
1 AGGAAAGCCTTTGTAGCACAACTCTAGACAGGAAAGCCTTTGTCGA-GAGTACTGGATATAAAGG
* * *
22743962 AATACCTTTGTGGCACAAATCTAGAT
65 AATACCTTTATGGCACAAATCTAAAC
22743988 AGGAAAGCCTTTGTA
1 AGGAAAGCCTTTGTA
22744003 CGAGTACTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 2 0.02
90 87 0.95
91 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (90 bp):
AGGAAAGCCTTTGTAGCACAACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGA
ATACCTTTATGGCACAAATCTAAAC
Found at i:22743963 original size:61 final size:60
Alignment explanation
Indices: 22743898--22744039 Score: 187
Period size: 61 Copynumber: 2.4 Consensus size: 60
22743888 AACTCTAAAC
* * *
22743898 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTGCGATGAGTACTGGATATAA
1 AGGAAATCCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTG-GACGAGTACTGGATATAA
* * *
22743959 AGG-AATACCTTTGTGGCACAAATCTAGATAGGAAAGCCTTTGTACGAGTACTTGATATAA
1 AGGAAAT-CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGGACGAGTACTGGATATAA
**
22744019 AGGAACGCCTTTGTGGCACAA
1 AGGAAATCCTTTGTGGCACAA
22744040 GGAAAAATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
60 35 0.49
61 36 0.51
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (60 bp):
AGGAAATCCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGGACGAGTACTGGATATAA
Found at i:22744033 original size:60 final size:61
Alignment explanation
Indices: 22743905--22744039 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
22743895 AACAGGAAAT
* * * *
22743905 CCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTGCGATGAGTACTGGATATAAAGGAATA
1 CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGCGACGAGTACTGGATATAAAGGAACA
* * * *
22743966 CCTTTGTGGCACAAATCTAGATAGGAAAGCCTTTG-TACGAGTACTTGATATAAAGGAACG
1 CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGCGACGAGTACTGGATATAAAGGAACA
22744026 CCTTTGTGGCACAA
1 CCTTTGTGGCACAA
22744040 GGAAAAATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 34 0.52
61 32 0.48
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (61 bp):
CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGCGACGAGTACTGGATATAAAGGAACA
Found at i:22747739 original size:358 final size:358
Alignment explanation
Indices: 22747082--22747798 Score: 1416
Period size: 358 Copynumber: 2.0 Consensus size: 358
22747072 TTTAGGAGCA
22747082 TATGACTTTTACAGAAGTTATTGTGTAAGGGAAGTCATCTTCTATTCAGGTGTTGGAGGCACAAT
1 TATGACTTTTACAGAAGTTATTGTGTAAGGGAAGTCATCTTCTATTCAGGTGTTGGAGGCACAAT
*
22747147 TAGGACAACTTGCTTCAAATCTGAATACTCGACCACCAGGCGCACTACCTAGTGACACGAAAAAT
66 TAGGACAACTTGCTTCAAATCTGAATACTCGACCACCAGGCACACTACCTAGTGACACGAAAAAT
*
22747212 CCCAGTCCTAGTGGGAAAGAACACTGTAAGGCTATCACTCTTAGGAGTGGTAAACAAACGGCGAG
131 CCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCACTCTTAGGAGTGGTAAACAAACGGCGAG
22747277 CCGACTACATACTCTGTTGTAGCACCTCAAGATACCGATGAAGTGATCCCTGGTAAGAAGGTTGA
196 CCGACTACATACTCTGTTGTAGCACCTCAAGATACCGATGAAGTGATCCCTGGTAAGAAGGTTGA
22747342 ATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTCCACAAACTATCACTCATATGCCTCATG
261 ATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTCCACAAACTATCACTCATATGCCTCATG
22747407 TCCAACCCTTGAAACTGTTGACGCAATCAAAGG
326 TCCAACCCTTGAAACTGTTGACGCAATCAAAGG
22747440 TATGACTTTTACAGAAGTTATTGTGTAAGGGAAGTCATCTTCTATTCAGGTGTTGGAGGCACAAT
1 TATGACTTTTACAGAAGTTATTGTGTAAGGGAAGTCATCTTCTATTCAGGTGTTGGAGGCACAAT
22747505 TAGGACAACTTGCTTCAAATCTGAATACTCGACCACCAGGCACACTACCTAGTGACACGAAAAAT
66 TAGGACAACTTGCTTCAAATCTGAATACTCGACCACCAGGCACACTACCTAGTGACACGAAAAAT
22747570 CCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCACTCTTAGGAGTGGTAAACAAACGGCGAG
131 CCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCACTCTTAGGAGTGGTAAACAAACGGCGAG
22747635 CCGACTACATACTCTGTTGTAGCACCTCAAGATACCGATGAAGTGATCCCTGGTAAGAAGGTTGA
196 CCGACTACATACTCTGTTGTAGCACCTCAAGATACCGATGAAGTGATCCCTGGTAAGAAGGTTGA
22747700 ATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTCCACAAACTATCACTCATATGCCTCATG
261 ATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTCCACAAACTATCACTCATATGCCTCATG
22747765 TCCAACCCTTGAAACTGTTGACGCAATCAAAGG
326 TCCAACCCTTGAAACTGTTGACGCAATCAAAGG
22747798 T
1 T
22747799 GTCGGCACAA
Statistics
Matches: 357, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
358 357 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (358 bp):
TATGACTTTTACAGAAGTTATTGTGTAAGGGAAGTCATCTTCTATTCAGGTGTTGGAGGCACAAT
TAGGACAACTTGCTTCAAATCTGAATACTCGACCACCAGGCACACTACCTAGTGACACGAAAAAT
CCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCACTCTTAGGAGTGGTAAACAAACGGCGAG
CCGACTACATACTCTGTTGTAGCACCTCAAGATACCGATGAAGTGATCCCTGGTAAGAAGGTTGA
ATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTCCACAAACTATCACTCATATGCCTCATG
TCCAACCCTTGAAACTGTTGACGCAATCAAAGG
Found at i:22757166 original size:12 final size:12
Alignment explanation
Indices: 22757151--22757180 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22757141 AGCCACAAGC
22757151 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
22757163 CCGTGTGCTAGG
1 CCGTGTGCCAGG
22757175 CCGTGT
1 CCGTGT
22757181 AACTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:22762746 original size:50 final size:53
Alignment explanation
Indices: 22762624--22762766 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 53
22762614 GGTGATGAGA
**
22762624 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTACGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--T-AGACTACGAGAAC
* * * * *
22762680 TCTCATGTAAGGCCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGACTACGAGAAC
* * *
22762730 TCCCATGTAATACCATGTCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22762767 GTACAGGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 37 0.50
51 2 0.03
55 1 0.01
56 34 0.46
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGACTACGAGAAC
Found at i:22768830 original size:50 final size:50
Alignment explanation
Indices: 22768721--22768918 Score: 211
Period size: 50 Copynumber: 3.9 Consensus size: 50
22768711 ACATTTGGGT
*
22768721 GATGAGA--TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA
*
22768772 GACTATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
** * * *
22768825 GATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * * *
22768875 TATGAGAACTCCCATGTAAGACCATATCTGGGATAAGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
22768919 AAGTACAGGA
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
50 77 0.62
51 1 0.01
53 4 0.03
54 6 0.05
55 1 0.01
56 35 0.28
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:22769221 original size:20 final size:20
Alignment explanation
Indices: 22769183--22769221 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22769173 TAAGCAAGAA
*
22769183 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
22769203 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
22769222 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:22778731 original size:3 final size:3
Alignment explanation
Indices: 22778715--22778757 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
22778705 AGCAATAATG
*
22778715 TTA TTA TCA TTTA 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
22778758 GTTTTATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:22781045 original size:19 final size:18
Alignment explanation
Indices: 22781004--22781046 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
22780994 CGTCTCTTTT
22781004 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
22781023 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
22781042 TGCAT
1 TGCAT
22781047 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:22783153 original size:1 final size:1
Alignment explanation
Indices: 22783072--22783140 Score: 57
Period size: 1 Copynumber: 69.0 Consensus size: 1
22783062 AGTTCAGACT
* * * ** * ** *
22783072 AAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAATCAAAAATAAAAAATCAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22783137 AAAA
1 AAAA
22783141 TCAAAGTCAA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:22783175 original size:7 final size:6
Alignment explanation
Indices: 22783158--22783191 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
22783148 CAAAAATAGG
22783158 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AG
22783192 GAGAGGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:22783179 original size:14 final size:13
Alignment explanation
Indices: 22783160--22783190 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
22783150 AAAATAGGAG
22783160 AAAAAGAAAGAAGA
1 AAAAAGAAA-AAGA
22783174 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
22783187 AAAA
1 AAAA
22783191 GGAGAGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:22786590 original size:88 final size:88
Alignment explanation
Indices: 22785286--22786581 Score: 2124
Period size: 88 Copynumber: 14.7 Consensus size: 88
22785276 ATGAAGTTGC
* *
22785286 AGATCCTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAGGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22785351 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
22785374 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
22785439 TAATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
22785462 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
22785527 TGATGGAGCTAGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22785550 AGATCTTGCCTTTCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22785615 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
22785638 AGATCTTGCCTTTCTGTATTGACAGCAAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22785703 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22785726 CGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
22785791 TGATGGAGCTGATTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22785814 AGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACATAAACCTTGCCTGTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22785879 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
22785902 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22785967 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
22785990 AGATCTTGCCTTCATGCATTGACAGCGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22786055 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22786078 AGATCTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAATACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
22786143 TGATGGAGCTGGTTGAAGACAAG
66 TGATGGAGCTGGTTGAAGACAAA
* *
22786166 AGATCTTGCCTTCATGCATTGACAGCGAAGCACGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
22786231 TGATGGAGCTAGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22786254 AGATCTTGCCTTTCTGTATTGATAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
22786319 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22786342 AGATGTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACTTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
22786407 TGATGGAGTTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
22786430 AGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
22786495 TGGTGGAGCTGGTTGAAAACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
22786518 AGATCTTGCCTTCCTGCATTGCCAGTGAAGCAGGTCGAAGACACAAGCCTTACCTCTCTCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
22786582 CTAGTGGAGT
Statistics
Matches: 1128, Mismatches: 80, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 1128 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:22786735 original size:132 final size:132
Alignment explanation
Indices: 22786583--22787587 Score: 1561
Period size: 132 Copynumber: 7.6 Consensus size: 132
22786573 CTCTCGGTTC
* * * *
22786583 TAGTGGAGTAGGTTAAAGATTGCATATTCTGTCACCCTATGCAGTAGTGGAGCAGATCAAAGATG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
* * *
22786648 GTGAATCTTATCTTCCCAGTACAGTGGAGAAGAATATTTAAGCCATTAGTCCTATCACCCTAAGC
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
22786713 AG
131 AG
* * *
22786715 TAATGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTAGAGTAGATCGAAGATG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
*
22786780 GTGAATCTTATCTTCCCAATACAGTAGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
22786845 AG
131 AG
* ** * *
22786847 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTATGCAGTAGTGGAATAAATCAAAGATG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
* **
22786912 GTGAATCTTATCTTCCCAGTACAGTGGAGAAATAGATTTAAGCCATTAGTCCTATCACCCTAAGC
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
22786977 AG
131 AG
* *
22786979 TAGTGGAGTAGGATGAAGATTGCAGATTCTGTCACCCTAAGAAGTAGTGGAGCAGATCGAAGATG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
* *
22787044 GTGAATCTTATCTTCCCAATACAGTGGAGATGCAGATTTAAGCCATTAGTCCTATCACCCTAAGT
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
22787109 AG
131 AG
* *
22787111 TAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
* *
22787176 GTGAATCTTATCTTCCCAATATAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGC
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
22787241 AG
131 AG
* * *
22787243 CAGTGGAGTAGGTCGAAGATTGCAGATTCTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
*
22787308 GAGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
22787373 AG
131 AG
* *
22787375 CAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
* *
22787440 GTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCC-AT--CCCT-TGC
66 GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAG-
22787501 CAG
130 CAG
* * * * * * * *
22787504 CAATGGAATAGATTGAAGATTGCAGATTCTGTTC-CCTTAAGTAATAGTGGAGCAGATCAAAGAT
1 TAGTGGAGTAGGTTGAAGATTGCAGATTCTG-TCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
*
22787568 GGTGAATCATATCTTCCCAA
65 GGTGAATCTTATCTTCCCAA
22787588 GATAGTAGAG
Statistics
Matches: 809, Mismatches: 62, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
128 1 0.00
129 79 0.10
130 2 0.00
131 2 0.00
132 725 0.90
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATG
GTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGC
AG
Found at i:22786750 original size:44 final size:44
Alignment explanation
Indices: 22786699--22787438 Score: 275
Period size: 44 Copynumber: 16.8 Consensus size: 44
22786689 GCCATTAGTC
* *
22786699 CTATCACCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * ** *
22786743 CTGTCACCCTAAGCAGTAGTAGAGTAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * *
22786786 CTTATCTTCCC-AATACAGTAGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
*
22786831 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * ** ** *
22786875 CTGTCACCCTATGCAGTAGTGGAATAAATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * *
22786918 CTTATCTTCCC--AGTA-CAGTGGAGAAATAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAAGCAGTAGTGGAG---TAGATTGAAG--ATTGCAGATT
22786963 CTATCACCCTAAGCAGTAGTGGAGTAGGA-TGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTA-GATTGAAGATTGCAGATT
* * * * ** *
22787007 CTGTCACCCTAAGAAGTAGTGGAGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * *
22787050 CTTATCTTCCC-AATACAGT-G-GAGATGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTG-GA-GTAGATTGAAG--ATTGCAGATT
* * *
22787095 CTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * ** *
22787139 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * *
22787182 CTTATCTTCCC-AA-TA-TAGTGGAGAAGTAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAAGCAGTAGT-G-G-AGTAGATTGAAG--ATTGCAGATT
* * *
22787227 CTATCACCCTAAGCAGCAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * *
22787271 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGAGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * * *
22787314 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* * *
22787359 CTATCACCCTAAGCAGCAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * *
22787403 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGAT
22787439 GGTGAATCTT
Statistics
Matches: 499, Mismatches: 133, Indels: 128
0.66 0.17 0.17
Matches are distributed among these distances:
41 15 0.03
42 10 0.02
43 117 0.23
44 247 0.49
45 85 0.17
46 16 0.03
47 5 0.01
48 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
Found at i:22789055 original size:3 final size:3
Alignment explanation
Indices: 22789039--22789093 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
22789029 AGCAATAATG
* *
22789039 TTA TTA TCA TTTA TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22789085 TTA TTA TTA
1 TTA TTA TTA
22789094 GTAGTAGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:22791519 original size:58 final size:58
Alignment explanation
Indices: 22791429--22791541 Score: 208
Period size: 58 Copynumber: 1.9 Consensus size: 58
22791419 TGGCGTTCGT
*
22791429 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGTTGATTTTGC
1 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGCTGATTTTGC
*
22791487 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGTTTTATTTGCTGATTT
1 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGCTGATTT
22791542 CATTTTTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (58 bp):
TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGCTGATTTTGC
Found at i:22793432 original size:43 final size:42
Alignment explanation
Indices: 22793370--22793468 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
22793360 CGCTATAGAT
* * * * *
22793370 CATGACCTTTAGTGGCGCTTCTACCACAAATGCCTCTAAAGAA
1 CATGACCTTTAGCGACGCTTATACCACAAACGCCACTAAA-AA
*
22793413 CATGACCTTTAGCGACGCTTATACCACAAACGCCACTATAAA
1 CATGACCTTTAGCGACGCTTATACCACAAACGCCACTAAAAA
* *
22793455 GATGACTTTTAGCG
1 CATGACCTTTAGCG
22793469 GCGTTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 14 0.29
43 34 0.71
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
CATGACCTTTAGCGACGCTTATACCACAAACGCCACTAAAAA
Found at i:22799189 original size:56 final size:56
Alignment explanation
Indices: 22799124--22799250 Score: 209
Period size: 56 Copynumber: 2.3 Consensus size: 56
22799114 CCCCTAACTA
*
22799124 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATC
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
* * *
22799180 CTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATTTAAACC
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
*
22799236 CTAAACCCTAAACCT
1 CTAACCCCTAAACCT
22799251 AACATCGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (56 bp):
CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
Found at i:22799353 original size:14 final size:15
Alignment explanation
Indices: 22799336--22799368 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
22799326 CTTAAATCAG
22799336 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
22799350 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
22799365 AATC
1 AATC
22799369 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:22799767 original size:20 final size:19
Alignment explanation
Indices: 22799726--22799769 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
22799716 AATTTTAATT
*
22799726 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
22799745 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
22799765 AATAT
1 AATAT
22799770 TTTTGTGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:22799978 original size:6 final size:6
Alignment explanation
Indices: 22799969--22800017 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
22799959 CTAAATCCTA
* * *
22799969 AACCCT AACCCT AACCCT AACCCG ACCCCA AATCCCT AACCCCT AACCC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA-CCCT AA-CCCT AACCC
22800018 CTAAACATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.33, C:0.53, G:0.02, T:0.12
Consensus pattern (6 bp):
AACCCT
Found at i:22800190 original size:14 final size:15
Alignment explanation
Indices: 22800173--22800205 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
22800163 CGTAAATCAG
22800173 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
22800187 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
22800202 AATC
1 AATC
22800206 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:22800688 original size:41 final size:41
Alignment explanation
Indices: 22800620--22800775 Score: 172
Period size: 41 Copynumber: 3.8 Consensus size: 41
22800610 AAATGTTTTT
* * * * * *
22800620 GCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTTAAAAAATGCCACTAAAGCCCCGAGCATTA
**
22800661 GCGGCGC-TCTTTGGAAAATGCCACTAAAGCCCCGAGCATTA
1 GCGGCGCTTC-TTAAAAAATGCCACTAAAGCCCCGAGCATTA
*
22800702 GCGGCGCTTCTTAAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTAAAAAATGCCACTAAAGCCCCGAGCATTA
* * *
22800743 GCGGCGCTT-TTCCAAAAATGCCGCTAAAACCCC
1 GCGGCGCTTCTT-AAAAAATGCCACTAAAGCCCC
22800776 AAAAGGTAGA
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.03
41 95 0.95
42 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTCTTAAAAAATGCCACTAAAGCCCCGAGCATTA
Found at i:22800761 original size:82 final size:82
Alignment explanation
Indices: 22800620--22800775 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
22800610 AAATGTTTTT
* * * * **
22800620 GCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTCTTTGGAAAATGCCAC
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTCTTTCAAAAATGCCAC
*
22800685 TAAAGCCCCGAGCATTA
66 TAAAACCCCGAGCATTA
* *
22800702 GCGGCGCTTCTTAAAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCT-TTTCCAAAAATGCCG
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTCTTT-CAAAAATGCCA
22800766 CTAAAACCCC
65 CTAAAACCCC
22800776 AAAAGGTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 3 0.05
82 61 0.95
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (82 bp):
GCGGCGCTTCTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTCTTTCAAAAATGCCAC
TAAAACCCCGAGCATTA
Found at i:22800865 original size:41 final size:42
Alignment explanation
Indices: 22800814--22800907 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 42
22800804 TAGGTTTTTT
*
22800814 GCGGTGTTTTTCTGAA-AAACGCCGCTAATGCTC-GATCTTTA
1 GCGGCGTTTTT-TGAAGAAACGCCGCTAATGCTCAGATCTTTA
* *
22800855 GCGGCG-TTTTTGAAGAAGCGTCGCTAATGCTCAGATCTTTA
1 GCGGCGTTTTTTGAAGAAACGCCGCTAATGCTCAGATCTTTA
22800896 GCGGCGTTTTTT
1 GCGGCGTTTTTT
22800908 ATCCAAATGC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
39 4 0.09
40 19 0.40
41 19 0.40
42 5 0.11
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTTTTGAAGAAACGCCGCTAATGCTCAGATCTTTA
Found at i:22802703 original size:12 final size:12
Alignment explanation
Indices: 22802686--22802712 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22802676 ATTATCATCG
22802686 CTCTAATCCAAT
1 CTCTAATCCAAT
22802698 CTCTAATCCAAT
1 CTCTAATCCAAT
22802710 CTC
1 CTC
22802713 GTGTACTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCTAATCCAAT
Found at i:22805362 original size:27 final size:26
Alignment explanation
Indices: 22805332--22805419 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
22805322 AGAAATACCA
* *
22805332 TTGTAGTGTACTCTGAAATAAATGCCT
1 TTGTGGTGCACTCTGAAA-AAATGCCT
* * *
22805359 TTGTGGCGCACTTTGAAAAGAATGTCT
1 TTGTGGTGCACTCTGAAAA-AATGCCT
*
22805386 TTGTGGTGCACTCTGAAAGGAATGCCT
1 TTGTGGTGCACTCTGAAA-AAATGCCT
22805413 TTGTGGT
1 TTGTGGT
22805420 AAATTTTGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (26 bp):
TTGTGGTGCACTCTGAAAAAATGCCT
Found at i:22805428 original size:54 final size:54
Alignment explanation
Indices: 22805332--22805445 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
22805322 AGAAATACCA
* * * ** *
22805332 TTGTAGTGTACTCTGAAATAAATGCCTTTGTGGCGCACTTTGAAAAGAATGTCT
1 TTGTGGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGCCT
* * * *
22805386 TTGTGGTGCACTCTGAAAGGAATGCCTTTGTGGTAAATTTTGAATAGAATGCCT
1 TTGTGGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGCCT
*
22805440 TGGTGG
1 TTGTGG
22805446 CATACTCTGT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (54 bp):
TTGTGGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGCCT
Found at i:22805429 original size:27 final size:26
Alignment explanation
Indices: 22805352--22805445 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
22805342 CTCTGAAATA
*
22805352 AATGCCTTTGTGGCGCACTTTGAAAAG
1 AATGCCTTTGTGGTGCACTTTG-AAAG
* *
22805379 AATGTCTTTGTGGTGCACTCTGAAAGG
1 AATGCCTTTGTGGTGCACTTTGAAA-G
** *
22805406 AATGCCTTTGTGGTAAATTTTGAATAG
1 AATGCCTTTGTGGTGCACTTTGAA-AG
*
22805433 AATGCCTTGGTGG
1 AATGCCTTTGTGG
22805446 CATACTCTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (26 bp):
AATGCCTTTGTGGTGCACTTTGAAAG
Found at i:22806708 original size:22 final size:22
Alignment explanation
Indices: 22806680--22806725 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22806670 AAACACCTTC
22806680 ATACTTAGCCATTTTAGTAACT
1 ATACTTAGCCATTTTAGTAACT
22806702 ATACTTAGCCATTTTAGTAACT
1 ATACTTAGCCATTTTAGTAACT
22806724 AT
1 AT
22806726 TCATCATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (22 bp):
ATACTTAGCCATTTTAGTAACT
Found at i:22807384 original size:50 final size:50
Alignment explanation
Indices: 22807261--22807601 Score: 330
Period size: 50 Copynumber: 6.7 Consensus size: 50
22807251 GAATATAACA
* * * * * * *
22807261 TGCCAAAGCTATGTCCC-GACATAGTCTTACATGGGA-TGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCTAGG
* * * * *
22807309 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
* * ** * *
22807359 TGCCCATGCTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
* * * *
22807409 TGCCAACGCCATGTCACAGACATGGTCTAACATGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
* *
22807459 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATCTAGG
* * * *
22807509 TGCCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTATCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TC-TCATCT--A-GG
22807565 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
22807602 TCTCTTTACC
Statistics
Matches: 243, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
48 14 0.06
49 22 0.09
50 162 0.67
51 4 0.02
53 5 0.02
56 36 0.15
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
Found at i:22810696 original size:19 final size:21
Alignment explanation
Indices: 22810615--22810690 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
22810605 ATCTTCGAGG
22810615 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
22810634 ATATGCAATCTTAGATATGAA
1 ATATGCAATCTTAGATATGAT
*
22810655 ATATTCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22810676 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
22810691 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 19 0.37
21 33 0.63
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:22810712 original size:23 final size:24
Alignment explanation
Indices: 22810615--22810713 Score: 78
Period size: 21 Copynumber: 4.6 Consensus size: 24
22810605 ATCTTCGAGG
22810615 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
*
22810634 ATATGCAATCTTAG---ATATGAA
1 ATATGCAATCTTAGAAGATATGAT
*
22810655 ATATTCAATCTT---AGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
22810676 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
22810700 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
22810714 GATTTAATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
19 17 0.26
21 28 0.42
23 12 0.18
24 9 0.14
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:22810725 original size:23 final size:23
Alignment explanation
Indices: 22810682--22810724 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22810672 TGATATATGC
*
22810682 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATAATTTTGT
*
22810705 AATCTTAG-AGATTTAATTTT
1 AATCTTAGAAGATATAATTTT
22810725 TAGATACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATAATTTTGT
Found at i:22810909 original size:19 final size:21
Alignment explanation
Indices: 22810885--22810923 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
22810875 ACTGTTTTCT
*
22810885 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
22810904 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
22810924 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:22811142 original size:3 final size:3
Alignment explanation
Indices: 22811134--22811182 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
22811124 ATTAATTTTG
22811134 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
22811179 TTA T
1 TTA T
22811183 ACCTACATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:22811171 original size:18 final size:17
Alignment explanation
Indices: 22811134--22811183 Score: 77
Period size: 16 Copynumber: 3.0 Consensus size: 17
22811124 ATTAATTTTG
22811134 TTATTATTATTATTATTA
1 TTATTATTATTATTA-TA
22811152 TTATTATTA-TATTATA
1 TTATTATTATTATTATA
22811168 -TATTATTATTATTATA
1 TTATTATTATTATTATA
22811184 CCTACATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.26
16 9 0.29
17 5 0.16
18 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:22818251 original size:7 final size:8
Alignment explanation
Indices: 22818237--22818274 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
22818227 GGAATCATTC
22818237 TAAAAAAA
1 TAAAAAAA
22818245 TAAAAAAA
1 TAAAAAAA
22818253 TAAAAAAA
1 TAAAAAAA
22818261 TAAATTAAAA
1 TAAA--AAAA
22818271 TAAA
1 TAAA
22818275 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 20 0.71
10 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:22818566 original size:88 final size:88
Alignment explanation
Indices: 22818413--22819065 Score: 984
Period size: 88 Copynumber: 7.4 Consensus size: 88
22818403 GTGAAGATAA
* * * * * *
22818413 CAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
22818478 GCAGCGGAGAAGGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
22818501 CAGATCTTACCTTCCTGCACCAACAGCGAAGAAGATCGAAGTCACCAACCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* * *
22818566 GTAGTGGAGCACGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* *
22818589 CAGATCTTGCCTTCCTGCACCGACAGCGAAGGAGATCGAAGAT-ACCAGCCTTGCCTCCCTAGGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAG-TCACCAGCCTTGCCTCCCTGGGT
* *
22818653 TGCAGTGGAGCAGGCTAAAATTAG
65 TGCAGCGGAGCAGGCTAAAAATAG
* * *
22818677 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATCGAAGTCACCAGCCTTGCCTTCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
*
22818742 GCAGCAGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
22818765 CAGATCTTGGCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCACCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
22818830 GCAGCCGAGTAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
*
22818853 CAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
*
22818918 GCAGCGGAGCAGGCTGAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
*
22818941 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
22819006 ACAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
22819029 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
22819066 AAAGATACCG
Statistics
Matches: 509, Mismatches: 54, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 507 1.00
89 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:22818906 original size:44 final size:44
Alignment explanation
Indices: 22818858--22819001 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
22818848 AATAGCAGAT
*
22818858 CTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGTCACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGC
* **** * * * * *
22818902 CTTGCCTCCCTGGGTTG-CAGCGGAGCAG-GCTGAAAAT-AGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATC-G-AAGTCACCAG-C
*
22818946 CTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGC
*
22818990 CTTGCCTCCCTG
1 CTTGCCTTCCTG
22819002 GGTTACAGTG
Statistics
Matches: 71, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
42 1 0.01
43 15 0.21
44 40 0.56
45 14 0.20
46 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGC
Found at i:22819397 original size:87 final size:88
Alignment explanation
Indices: 22819183--22819425 Score: 398
Period size: 87 Copynumber: 2.8 Consensus size: 88
22819173 NNNTTGTAGC
* * *
22819183 GGAGCAGGCTGAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCA
1 GGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA
22819248 ACCTTGCCTCCCTGGGTTGCAGT
66 ACCTTGCCTCCCTGGGTTGCAGT
*
22819271 GGAGTAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA
1 GGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA
*
22819336 GCCTT-CCTCCCTGGGTTGCAGT
66 ACCTTGCCTCCCTGGGTTGCAGT
* * * *
22819358 GGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGATGACCCCA
1 GGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA
22819423 ACC
66 ACC
22819426 CTATCTCCCT
Statistics
Matches: 144, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 79 0.55
88 65 0.45
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.19
Consensus pattern (88 bp):
GGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA
ACCTTGCCTCCCTGGGTTGCAGT
Found at i:22819493 original size:44 final size:44
Alignment explanation
Indices: 22819425--22819673 Score: 297
Period size: 44 Copynumber: 5.7 Consensus size: 44
22819415 TGACCCCAAC
* *
22819425 CCTATCTCCCTGGTCAGCATTGGAACAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
22819469 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
22819513 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAA-ATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTT-AAAGATTGTGAAT
** * * * * * *
22819557 TTTATCTCCCTGGGCAGTAGTGGCATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * *
22819601 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
22819645 CCTATCTCCCTGAG-CAGCAGTGGAGTAGG
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGG
22819674 AGGAAAATAG
Statistics
Matches: 176, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.02
44 168 0.95
45 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:22820081 original size:44 final size:43
Alignment explanation
Indices: 22819981--22820096 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 43
22819971 ATGGCAAATT
* *
22819981 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAACCGATAATC
* * * *
22820025 CTATCACCCTGAAGTTGCAGTGAAGCAGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTG-AGCAGATTAAAACCGAT-AATC
* *
22820069 TTATCTCTCTGAAGTTGCAGAGAGCAGA
1 TTATCTCCCTGAAGTTGCAGTGAGCAGA
22820097 ACGCATCTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 8 0.13
44 52 0.87
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGAGCAGATTAAAACCGATAATC
Found at i:22820526 original size:17 final size:18
Alignment explanation
Indices: 22820512--22820595 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
22820502 ATAATCTTCG
22820512 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
22820530 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
22820549 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
22820570 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
22820589 A-GATATG
1 AGGATATG
22820596 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:22820538 original size:19 final size:19
Alignment explanation
Indices: 22820514--22820588 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
22820504 AATCTTCGAG
22820514 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22820533 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22820552 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
22820573 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
22820589 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22820560 original size:21 final size:21
Alignment explanation
Indices: 22820515--22820577 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
22820505 ATCTTCGAGG
22820515 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
22820534 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22820555 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22820576 AT
1 AT
22820578 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:22820607 original size:23 final size:22
Alignment explanation
Indices: 22820527--22820611 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
22820517 ATGCAATCTT
*
22820527 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
22820548 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
22820567 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
22820589 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
22820612 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:22820621 original size:22 final size:23
Alignment explanation
Indices: 22820577--22820621 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22820567 AGATATGATA
*
22820577 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
22820600 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
22820622 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:22823839 original size:30 final size:31
Alignment explanation
Indices: 22823771--22823829 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
22823761 CACCCTTAAA
* * *
22823771 ATATTTACACTATTCATCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCCTCAAATTTTTC
22823802 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
22823830 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTC
Found at i:22826857 original size:12 final size:12
Alignment explanation
Indices: 22826837--22826871 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22826827 AGGATTGCAA
22826837 ATTTTCATTTCC
1 ATTTTCATTTCC
* *
22826849 ATTTCCATTTTC
1 ATTTTCATTTCC
22826861 ATTTTCATTTC
1 ATTTTCATTTC
22826872 TAAATGATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTCATTTCC
Found at i:22826860 original size:18 final size:18
Alignment explanation
Indices: 22826837--22826871 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22826827 AGGATTGCAA
22826837 ATTTTCATTTCCATTTCC
1 ATTTTCATTTCCATTTCC
*
22826855 ATTTTCATTTTCATTTC
1 ATTTTCATTTCCATTTC
22826872 TAAATGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTCATTTCCATTTCC
Done.