Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 67 of 120
Found at i:7766503 original size:3 final size:3
Alignment explanation
Indices: 7766495--7766557 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
7766485 GTTATTGTTT
7766495 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7766543 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
7766558 GATTAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7766886 original size:3 final size:3
Alignment explanation
Indices: 7766880--7766931 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
7766870 AATTATTAAG
7766880 TAA TAA TAA TAA -AA TTAA -AA GTTAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA
7766926 TAA TAA
1 TAA TAA
7766932 CTTTTTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.09
3 36 0.82
4 2 0.05
5 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7767139 original size:22 final size:20
Alignment explanation
Indices: 7767121--7767174 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
7767111 CTAAAACCTT
7767121 TAAAATTCAAAACCAAAACCC
1 TAAAA-TCAAAACCAAAACCC
7767142 TAAAATCTAAAACTCAAAA-CC
1 TAAAATC-AAAAC-CAAAACCC
*
7767163 -AAAACCAAAACC
1 TAAAATCAAAACC
7767175 CTAAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.03
19 5 0.17
20 7 0.23
21 12 0.40
22 5 0.17
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (20 bp):
TAAAATCAAAACCAAAACCC
Found at i:7767147 original size:21 final size:22
Alignment explanation
Indices: 7767121--7767162 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7767111 CTAAAACCTT
7767121 TAAAAT-TCAAAAC-CAAAACCC
1 TAAAATCT-AAAACTCAAAACCC
7767142 TAAAATCTAAAACTCAAAACC
1 TAAAATCTAAAACTCAAAACC
7767163 AAAACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (22 bp):
TAAAATCTAAAACTCAAAACCC
Found at i:7767160 original size:28 final size:29
Alignment explanation
Indices: 7767106--7767168 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
7767096 TAAACCCATC
* *
7767106 AAACCCTAAAACCTTTAAAATTCAAAACCA
1 AAACCCTAAAA-CTCTAAAACTCAAAACCA
7767136 AAACCCTAAAA-TCTAAAACTCAAAACCA
1 AAACCCTAAAACTCTAAAACTCAAAACCA
7767164 AAACC
1 AAACC
7767169 AAAACCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 20 0.65
30 11 0.35
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.16
Consensus pattern (29 bp):
AAACCCTAAAACTCTAAAACTCAAAACCA
Found at i:7773431 original size:13 final size:13
Alignment explanation
Indices: 7773415--7773455 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7773405 ATGCAAAAGA
7773415 AAAGAAAAAAATG
1 AAAGAAAAAAATG
7773428 AAAGGAAAAAAA-G
1 AAA-GAAAAAAATG
7773441 AATA-AAAAAAATG
1 AA-AGAAAAAAATG
7773454 AA
1 AA
7773456 TGGATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.28
13 9 0.36
14 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAGAAAAAAATG
Found at i:7773456 original size:13 final size:14
Alignment explanation
Indices: 7773417--7773456 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
7773407 GCAAAAGAAA
7773417 AGAAAAAAATGAA-
1 AGAAAAAAATGAAT
7773430 AGGAAAAAAA-GAAT
1 A-GAAAAAAATGAAT
7773444 A-AAAAAAATGAAT
1 AGAAAAAAATGAAT
7773457 GGATGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (14 bp):
AGAAAAAAATGAAT
Found at i:7775189 original size:35 final size:36
Alignment explanation
Indices: 7775147--7775349 Score: 117
Period size: 36 Copynumber: 5.6 Consensus size: 36
7775137 ATTTTCTTAT
* *
7775147 TTTTTTGATTTA-TGTGTCATCCTCG-TCATTCTATA
1 TTTTTTGACTTACAGTGTCAT-CTCGATCATTCTATA
* *
7775182 TTTTTTGACTTACAGTGTCATCTCGATCGTTCTTTA
1 TTTTTTGACTTACAGTGTCATCTCGATCATTCTATA
** * * * * * *
7775218 TTTTTCAACTTACAATATATCATCCCAATCATGCTTTA
1 TTTTTTGACTTAC-A-GTGTCATCTCGATCATTCTATA
* ** * *
7775256 TTTTTTGACTTACAATGTCATCTTAATCATTTTTTA
1 TTTTTTGACTTACAGTGTCATCTCGATCATTCTATA
** * * * *
7775292 -TTTTCAACTTGCATTATCATCTCGATCATAT-TTTA
1 TTTTTTGACTTACAGTGTCATCTCGATCAT-TCTATA
* *
7775327 TTTTTTAACTTACAGTGTTATCT
1 TTTTTTGACTTACAGTGTCATCT
7775350 TGGTTGTTCT
Statistics
Matches: 131, Mismatches: 31, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
35 41 0.31
36 61 0.47
37 2 0.02
38 27 0.21
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (36 bp):
TTTTTTGACTTACAGTGTCATCTCGATCATTCTATA
Found at i:7775363 original size:71 final size:73
Alignment explanation
Indices: 7775180--7775366 Score: 225
Period size: 71 Copynumber: 2.6 Consensus size: 73
7775170 CGTCATTCTA
*
7775180 TATTTTTTGACTTACAGTGTCATCTCGATCGTTCTTTATTTTTCAACTTACAATATATCATCCCA
1 TATTTTTTGACTTACAGTGTCATCTTGATCGTTCTTTA-TTTTCAACTTACAATATATCATCCCA
*
7775245 ATCATGCTT
65 ATCATACTT
* * * * * * *
7775254 TATTTTTTGACTTACAATGTCATCTTAATCATTTTTTATTTTCAACTTGC-AT-TATCATCTCGA
1 TATTTTTTGACTTACAGTGTCATCTTGATCGTTCTTTATTTTCAACTTACAATATATCATCCCAA
*
7775317 TCATATTT
66 TCATACTT
* * * *
7775325 TATTTTTTAACTTACAGTGTTATCTTGGTTGTTCTTTATTTT
1 TATTTTTTGACTTACAGTGTCATCTTGATCGTTCTTTATTTT
7775367 TTACTTACGT
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
71 49 0.52
72 2 0.02
73 11 0.12
74 33 0.35
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (73 bp):
TATTTTTTGACTTACAGTGTCATCTTGATCGTTCTTTATTTTCAACTTACAATATATCATCCCAA
TCATACTT
Found at i:7775595 original size:6 final size:6
Alignment explanation
Indices: 7775576--7775673 Score: 58
Period size: 6 Copynumber: 15.7 Consensus size: 6
7775566 TTGTCCCAAC
* * *
7775576 AAAA-A AAAATA AAAACA AAAACA AAAGC- AAAACAA AAAACTGA AAAGCCAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC-A AAAAC--A AAA-AC-A
* * *
7775627 AAAACAA AAATACA AAAACA AAAAC- CAAACA AAAAAA AAAAGA AAAA
1 AAAAC-A AAA-ACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
7775674 AAATGGAACA
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
5 12 0.16
6 37 0.49
7 15 0.20
8 10 0.13
9 1 0.01
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:7775601 original size:17 final size:16
Alignment explanation
Indices: 7775573--7775614 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
7775563 ATGTTGTCCC
*
7775573 AACAAAAAAAAATAAA
1 AACAAAAAAAAAGAAA
*
7775589 AACAAAAACAAAAGCAA
1 AACAAAAA-AAAAGAAA
7775606 AACAAAAAA
1 AACAAAAAA
7775615 CTGAAAAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.02
Consensus pattern (16 bp):
AACAAAAAAAAAGAAA
Found at i:7775636 original size:15 final size:14
Alignment explanation
Indices: 7775586--7775664 Score: 53
Period size: 14 Copynumber: 5.8 Consensus size: 14
7775576 AAAAAAAAAT
7775586 AAAAACAAAAA-C-
1 AAAAACAAAAACCA
*
7775598 AAAAGC-AAAA-CA
1 AAAAACAAAAACCA
*
7775610 AAAAACTGAAAAGCCA
1 AAAAAC--AAAAACCA
*
7775626 AAAAACAAAAA-TA
1 AAAAACAAAAACCA
7775639 CAAAAACAAAAACCA
1 -AAAAACAAAAACCA
7775654 AACAAA-AAAAA
1 AA-AAACAAAAA
7775665 AAAGAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
11 5 0.09
12 10 0.19
13 1 0.02
14 22 0.42
15 7 0.13
16 8 0.15
ACGTcount: A:0.77, C:0.16, G:0.04, T:0.03
Consensus pattern (14 bp):
AAAAACAAAAACCA
Found at i:7775966 original size:23 final size:23
Alignment explanation
Indices: 7775939--7775982 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7775929 AAAAAAAAAT
*
7775939 AATTATA-AATAATTAATTAATCA
1 AATTATATAATAA-AAATTAATCA
7775962 AATTATATAATAAAAATTAAT
1 AATTATATAATAAAAATTAAT
7775983 TACAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTATATAATAAAAATTAATCA
Found at i:7775989 original size:13 final size:13
Alignment explanation
Indices: 7775932--7776003 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
7775922 AATTGCAAAA
*
7775932 AAAAAATAATTAT
1 AAAAATTAATTAT
7775945 AAATAATTAATTA-
1 AAA-AATTAATTAT
* *
7775958 ATCAAATTATATAAT
1 A-AAAATTA-ATTAT
*
7775973 AAAAATTAATTAC
1 AAAAATTAATTAT
7775986 AAAAATTAACTT-T
1 AAAAATTAA-TTAT
7775999 AAAAA
1 AAAAA
7776004 AAAGAGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 26 0.55
14 20 0.43
15 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAATTAATTAT
Found at i:7776053 original size:23 final size:24
Alignment explanation
Indices: 7776010--7776058 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
7776000 AAAAAAAGAG
7776010 AAAAAAAGAAGTAAATTACAAAAAA
1 AAAAAAAGAAGTAAA-TACAAAAAA
*
7776035 AAAAAAGAGAAG-AAA-ACAACAAA
1 AAAAAA-AGAAGTAAATACAAAAAA
7776058 A
1 A
7776059 GTGGATAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 8 0.36
25 9 0.41
26 5 0.23
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAAAGAAGTAAATACAAAAAA
Found at i:7776056 original size:26 final size:25
Alignment explanation
Indices: 7776010--7776058 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
7776000 AAAAAAAGAG
* **
7776010 AAAAAAAGAAGTAAATTACAAAAAA
1 AAAAAAAGAAGAAAACAACAAAAAA
7776035 AAAAAAGAGAAGAAAACAACAAAA
1 AAAAAA-AGAAGAAAACAACAAAA
7776059 GTGGATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.06
Consensus pattern (25 bp):
AAAAAAAGAAGAAAACAACAAAAAA
Found at i:7777770 original size:3 final size:3
Alignment explanation
Indices: 7777762--7777823 Score: 52
Period size: 3 Copynumber: 19.0 Consensus size: 3
7777752 AATCATTAAG
* * *
7777762 TAA TAA TAA TAA AAA TTAA AAA TTAA TAAA TAAA TGAT TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA -TAA T-AA T-AA T-AA TAA TAA TAA
7777809 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
7777824 ACTTTTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
3 36 0.73
4 13 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7778062 original size:28 final size:29
Alignment explanation
Indices: 7777998--7778074 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
7777988 CCCATCAAAC
*
7777998 CTTAAATCCAAACCCTAAAACCCTTAAAA
1 CTTAAAACCAAACCCTAAAACCCTTAAAA
*
7778027 -TTCAAAACCATAACCCTAAAA-TC-TAAAA
1 CTT-AAAACCA-AACCCTAAAACCCTTAAAA
7778055 CTTAAAACCAAAACCCTAAA
1 CTTAAAACC-AAACCCTAAA
7778075 TTAAAAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 22 0.52
29 10 0.24
30 10 0.24
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (29 bp):
CTTAAAACCAAACCCTAAAACCCTTAAAA
Found at i:7778063 original size:22 final size:22
Alignment explanation
Indices: 7778012--7778063 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
7778002 AATCCAAACC
7778012 CTAAAACCCTTAAAATTCAAAA
1 CTAAAACCCTTAAAATTCAAAA
* *
7778034 CCATAACCC-TAAAA-TCTAAAA
1 CTAAAACCCTTAAAATTC-AAAA
7778055 CTTAAAACC
1 C-TAAAACC
7778064 AAAACCCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 12 0.50
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (22 bp):
CTAAAACCCTTAAAATTCAAAA
Found at i:7778324 original size:13 final size:12
Alignment explanation
Indices: 7778299--7778329 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
7778289 ATAATGAGAT
7778299 TAAAATAAATAA
1 TAAAATAAATAA
7778311 TAAAATATAATAA
1 TAAAATA-AATAA
7778324 TAAAAT
1 TAAAAT
7778330 GAGATCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:7785775 original size:18 final size:18
Alignment explanation
Indices: 7785752--7785786 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7785742 ACTTGTATAA
7785752 AAAATTACAAAAAATGAT
1 AAAATTACAAAAAATGAT
*
7785770 AAAATTATAAAAAATGA
1 AAAATTACAAAAAATGA
7785787 AAACAAAAAG
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:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAATTACAAAAAATGAT
Found at i:7792826 original size:16 final size:17
Alignment explanation
Indices: 7792795--7792872 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 17
7792785 GGATTTCGAA
*
7792795 GATTTTGGACTTTTAAAG
1 GATTTT-GAATTTTAAAG
7792813 G-TTTTGAATTTT-AAG
1 GATTTTGAATTTTAAAG
*
7792828 GATTTTGAATTTT-ATG
1 GATTTTGAATTTTAAAG
** * *
7792844 GGGTTTGGA-TTTAAGG
1 GATTTTGAATTTTAAAG
7792860 GATTTTGAATTTT
1 GATTTTGAATTTT
7792873 TAGGGGTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
15 7 0.15
16 33 0.69
17 7 0.15
18 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.50
Consensus pattern (17 bp):
GATTTTGAATTTTAAAG
Found at i:7792863 original size:32 final size:31
Alignment explanation
Indices: 7792822--7792881 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
7792812 GGTTTTGAAT
7792822 TTTAAGGATTTTGAA-TTTTATGGGGTTTGGA
1 TTTAAGGATTTTGAATTTTTA-GGGGTTTGGA
7792853 TTTAAGGGATTTTGAATTTTTAGGGGTTT
1 TTTAA-GGATTTTGAATTTTTAGGGGTTT
7792882 TAGAAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 5 0.19
32 17 0.63
33 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (31 bp):
TTTAAGGATTTTGAATTTTTAGGGGTTTGGA
Found at i:7793544 original size:27 final size:26
Alignment explanation
Indices: 7793514--7793565 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
7793504 ACGGATCCTT
* *
7793514 CTTTGGTTAAAATGACGTCGTTTTGGG
1 CTTTGATTAAAACGACGTC-TTTTGGG
*
7793541 CTTTTATTAAAACGACGTCTTTTGG
1 CTTTGATTAAAACGACGTCTTTTGG
7793566 CATTGACAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.42
Consensus pattern (26 bp):
CTTTGATTAAAACGACGTCTTTTGGG
Found at i:7794175 original size:21 final size:21
Alignment explanation
Indices: 7794149--7794190 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7794139 CAGAGAGAAC
7794149 TGGTCAGGG-GATTGGTTGGGT
1 TGGTCAGGGAG-TTGGTTGGGT
7794170 TGGTCAGGGAGTTGGTTGGGT
1 TGGTCAGGGAGTTGGTTGGGT
7794191 GACTGATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.10, C:0.05, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGTCAGGGAGTTGGTTGGGT
Found at i:7794278 original size:16 final size:16
Alignment explanation
Indices: 7794257--7794296 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
7794247 TCTTATTTTC
7794257 GTTTTGTTTTTTGTTT
1 GTTTTGTTTTTTGTTT
7794273 GTTTTGTTTTTTGTTT
1 GTTTTGTTTTTTGTTT
7794289 GTTTTGTT
1 GTTTTGTT
7794297 AAATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (16 bp):
GTTTTGTTTTTTGTTT
Found at i:7797667 original size:51 final size:51
Alignment explanation
Indices: 7797612--7797718 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
7797602 GAGTGAAAAT
** * **
7797612 AATATTTCGTACAATTGTTAAC-CTTTAATTAGTATTTAATTATAAAGATTA
1 AATATTTAATACAATTGTTAACTC-TAAATTAACATTTAATTATAAAGATTA
* *
7797663 AATATTTAATATAATTTTTAACTCTAAATTAACATTTAATTATAAAGATTA
1 AATATTTAATACAATTGTTAACTCTAAATTAACATTTAATTATAAAGATTA
7797714 AATAT
1 AATAT
7797719 GTATAAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (51 bp):
AATATTTAATACAATTGTTAACTCTAAATTAACATTTAATTATAAAGATTA
Found at i:7800507 original size:25 final size:24
Alignment explanation
Indices: 7800453--7800507 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
7800443 TTATTAAAAA
7800453 CATTAATTTTTTATAAATTATTTTT
1 CATT-ATTTTTTATAAATTATTTTT
* *
7800478 AATTATTTATTTATAACTT-TATTTT
1 CATTATTT-TTTATAAATTAT-TTTT
7800503 CATTA
1 CATTA
7800508 CAACTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
CATTATTTTTTATAAATTATTTTT
Found at i:7801988 original size:34 final size:34
Alignment explanation
Indices: 7801923--7802001 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
7801913 AACTTTCACT
*
7801923 AAATGTATTTTCAAAAAATGTTATTATTTTTC-G
1 AAATGTATTTTCAAAAAATGTTATTACTTTTCAG
* *
7801956 AAAATGTATTTTCAACAAGTGTTA-TAGCTTTTCAG
1 -AAATGTATTTTCAAAAAATGTTATTA-CTTTTCAG
*
7801991 AAATGAATTTT
1 AAATGTATTTT
7802002 TTCGAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 2 0.05
34 36 0.92
35 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (34 bp):
AAATGTATTTTCAAAAAATGTTATTACTTTTCAG
Found at i:7806124 original size:24 final size:25
Alignment explanation
Indices: 7806083--7806141 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
7806073 GCAATATAAA
*
7806083 AATTATAAAAATACAAAAATAATAT
1 AATTATAAAAATAAAAAAATAATAT
*
7806108 AATT-TAAAATTAAAAAAATCATATAT
1 AATTATAAAAATAAAAAAAT-A-ATAT
*
7806134 AAATATAA
1 AATTATAA
7806142 TAAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 5 0.18
26 7 0.25
27 3 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (25 bp):
AATTATAAAAATAAAAAAATAATAT
Found at i:7806755 original size:16 final size:17
Alignment explanation
Indices: 7806716--7806748 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7806706 AAATTGTTCC
*
7806716 AATTTTATAATTAAATT
1 AATTTTACAATTAAATT
7806733 AATTTTACAATTAAAT
1 AATTTTACAATTAAAT
7806749 CATTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTTACAATTAAATT
Found at i:7807130 original size:27 final size:28
Alignment explanation
Indices: 7807098--7807165 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
7807088 ATATCATAAT
7807098 TAAAAATAATTATAAAAATAAAA-ATTAA
1 TAAAAATAATTA-AAAAATAAAATATTAA
* *
7807126 TAAAATTAA-TAAAAAATAAAATGTTAA
1 TAAAAATAATTAAAAAATAAAATATTAA
7807153 TAAAAATAATTAA
1 TAAAAATAATTAA
7807166 TTATTTGACC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.29
27 14 0.40
28 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (28 bp):
TAAAAATAATTAAAAAATAAAATATTAA
Found at i:7807143 original size:16 final size:17
Alignment explanation
Indices: 7807124--7807158 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7807114 AATAAAAATT
7807124 AATAAAA-TTAATAAAA
1 AATAAAAGTTAATAAAA
7807140 AATAAAATGTTAATAAAA
1 AATAAAA-GTTAATAAAA
7807158 A
1 A
7807159 TAATTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AATAAAAGTTAATAAAA
Found at i:7807411 original size:15 final size:16
Alignment explanation
Indices: 7807391--7807420 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7807381 ATTTTAATAA
7807391 ATATAATAA-ATAATG
1 ATATAATAATATAATG
7807406 ATATAATAATATAAT
1 ATATAATAATATAAT
7807421 TATTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
ATATAATAATATAATG
Found at i:7812620 original size:22 final size:22
Alignment explanation
Indices: 7812595--7812637 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7812585 CAAAGGGTAT
*
7812595 TACCTCAATGGTTTTCTTACTC
1 TACCTCAATGGTTTCCTTACTC
7812617 TACCTCAATGGTTTCCTTACT
1 TACCTCAATGGTTTCCTTACT
7812638 TTTCTAGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (22 bp):
TACCTCAATGGTTTCCTTACTC
Found at i:7813803 original size:21 final size:21
Alignment explanation
Indices: 7813777--7813816 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7813767 CCTGAGCTCT
7813777 TCCATCTCT-TTGCACATGGCC
1 TCCATC-CTATTGCACATGGCC
*
7813798 TCCATCCTATTGCGCATGG
1 TCCATCCTATTGCACATGG
7813817 TCTCTACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (21 bp):
TCCATCCTATTGCACATGGCC
Found at i:7816688 original size:50 final size:50
Alignment explanation
Indices: 7816615--7816711 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 50
7816605 GATTCTTATG
7816615 TGTTTTCCACTATCCTAATAGATACATAACAAA-CCTTAAAATAAGCTATA
1 TGTTTTCCACTATCCTAATAGATACATAACAAATCC-TAAAATAAGCTATA
* *
7816665 TGTTTTCCACTATCTTAATAGATACATAATAAATCCTAAAATAAGCT
1 TGTTTTCCACTATCCTAATAGATACATAACAAATCCTAAAATAAGCT
7816712 CCAAAAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (50 bp):
TGTTTTCCACTATCCTAATAGATACATAACAAATCCTAAAATAAGCTATA
Found at i:7817950 original size:21 final size:21
Alignment explanation
Indices: 7817926--7817973 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7817916 AATTTACTTG
7817926 AAATTAAAA-ACATTATCTTAT
1 AAATTAAAACACATTATCTT-T
* *
7817947 AAATTAAAACATATTGTCTTT
1 AAATTAAAACACATTATCTTT
7817968 AAATTA
1 AAATTA
7817974 TAATATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATTAAAACACATTATCTTT
Found at i:7819940 original size:6 final size:6
Alignment explanation
Indices: 7819924--7819958 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
7819914 AAAATAATTG
*
7819924 AAAATA AAAAAA TAAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA -AAAATA AAAATA AAAATA AAAA
7819959 AGGAAACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:7819940 original size:31 final size:29
Alignment explanation
Indices: 7819874--7819949 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
7819864 AGTAAAATAG
*
7819874 AATAATAATAAAAA-AATTGAAAATAAAAT
1 AATAA-AATAAAAATAATTGAAAATAAAAA
**
7819903 CTTAAAATATGAAAATAATTGAAAATAAAAA
1 AATAAAATA--AAAATAATTGAAAATAAAAA
7819934 AATAAAATAAAAATAA
1 AATAAAATAAAAATAA
7819950 AAATAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 4 0.10
29 10 0.26
30 4 0.10
31 21 0.54
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (29 bp):
AATAAAATAAAAATAATTGAAAATAAAAA
Found at i:7819952 original size:12 final size:13
Alignment explanation
Indices: 7819874--7819959 Score: 57
Period size: 13 Copynumber: 6.1 Consensus size: 13
7819864 AGTAAAATAG
7819874 AATAATAATAAAAA
1 AATAA-AATAAAAA
*
7819888 AATTGAAAATAAAAT
1 AA-T-AAAATAAAAA
**
7819903 CTTAAAATATGAAAA
1 AATAAAATA--AAAA
7819918 TAATTGAAAATAAAAA
1 -AA-T-AAAATAAAAA
7819934 AATAAAATAAAAA
1 AATAAAATAAAAA
*
7819947 TA-AAAATAAAAA
1 AATAAAATAAAAA
7819959 A
1 A
7819960 GGAAACCTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
12 10 0.18
13 17 0.30
14 4 0.07
15 13 0.23
16 6 0.11
17 1 0.02
18 6 0.11
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:7820334 original size:11 final size:12
Alignment explanation
Indices: 7820307--7820340 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
7820297 ACTTGTTATT
7820307 GAAAAATTCATC
1 GAAAAATTCATC
7820319 GAAAAATTCATC
1 GAAAAATTCATC
7820331 -AAAAATTCAT
1 GAAAAATTCAT
7820341 GTTGATCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (12 bp):
GAAAAATTCATC
Found at i:7820854 original size:5 final size:5
Alignment explanation
Indices: 7820838--7820956 Score: 91
Period size: 5 Copynumber: 23.2 Consensus size: 5
7820828 AAGAAAAAAA
* *
7820838 ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AATATT ATTATT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT A-TAAT
* ** ** *
7820886 ATACT ATAGC ACTAAT AATAAT AT--T ATAA- ATAAT AATAGC ATAAC
1 ATAAT ATAAT A-TAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
7820931 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
7820957 AAACAATGCT
Statistics
Matches: 95, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.03
4 4 0.04
5 64 0.67
6 23 0.24
7 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:7826797 original size:17 final size:17
Alignment explanation
Indices: 7826775--7826836 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
7826765 AATTCATGAA
*
7826775 TTTATTTTGTAAGGATT
1 TTTATTTTGAAAGGATT
*
7826792 TTTA-TTTGAAAAAGATTTT
1 TTTATTTTG-AAAGGA--TT
7826811 TTTATTATTGAAAGGATT
1 TTTATT-TTGAAAGGATT
7826829 TTT-TTTTG
1 TTTATTTTG
7826837 TTTTTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
16 7 0.19
17 10 0.27
18 5 0.14
19 6 0.16
20 6 0.16
21 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (17 bp):
TTTATTTTGAAAGGATT
Found at i:7827014 original size:38 final size:39
Alignment explanation
Indices: 7826961--7827035 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
7826951 TAAAAAGCAG
*
7826961 TAAAATAGAATAAT-AATAAAAAACTAAAAATAAAATCT
1 TAAAATAGAATAATAAATAAAAAACAAAAAATAAAATCT
* *
7826999 TAAAATATGAA-AATAAATGAAAATCAAAAAATAAAAT
1 TAAAATA-GAATAATAAATAAAAAACAAAAAATAAAAT
7827036 AAAAAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 10 0.31
39 22 0.69
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (39 bp):
TAAAATAGAATAATAAATAAAAAACAAAAAATAAAATCT
Found at i:7827897 original size:5 final size:5
Alignment explanation
Indices: 7827887--7827981 Score: 63
Period size: 5 Copynumber: 18.8 Consensus size: 5
7827877 ATAATAAGAA
* * * *
7827887 AATAT AATAT AATAT AATAC CATAT AATAAT AATAT ACA-AT ATTAT ACTAT
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT A-ATAT AATAT AATAT
**
7827938 AGCACT AATAAT AATAT --TAT AA-AT AATAAT AATAT AATAT AATA
1 AATA-T AAT-AT AATAT AATAT AATAT AAT-AT AATAT AATAT AATA
7827982 AAACAATGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 46 0.65
6 17 0.24
7 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:7827916 original size:18 final size:18
Alignment explanation
Indices: 7827895--7827981 Score: 63
Period size: 18 Copynumber: 4.9 Consensus size: 18
7827885 AAAATATAAT
*
7827895 ATAATATAATACCATATA
1 ATAATATAATACAATATA
*
7827913 ATAATA-ATATACAATATT
1 ATAATATA-ATACAATATA
* ** *
7827931 ATACTATAGCACTA-ATA
1 ATAATATAATACAATATA
*
7827948 ATAATATTATA-AATAATA
1 ATAATATAATACAAT-ATA
*
7827966 ATAATATAATATAATA
1 ATAATATAATACAATA
7827982 AAACAATGTT
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
16 1 0.02
17 10 0.20
18 36 0.71
19 4 0.08
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (18 bp):
ATAATATAATACAATATA
Found at i:7830437 original size:6 final size:6
Alignment explanation
Indices: 7830425--7830465 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
7830415 GCATATAGGA
* *
7830425 GTATAT ATATAT ATATAT GTATAT GTATAT GTATAT GTATA
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
7830466 CCAGTGTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:7831712 original size:16 final size:14
Alignment explanation
Indices: 7831691--7831728 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
7831681 ATTGTCATTC
7831691 ATATTAATCAATTATA
1 ATATTAAT-AATT-TA
7831707 ATATTAATAATTTA
1 ATATTAATAATTTA
7831721 A-ATTAATA
1 ATATTAATA
7831729 TATCAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 3 0.14
15 4 0.18
16 8 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATTAATAATTTA
Found at i:7832116 original size:25 final size:25
Alignment explanation
Indices: 7832088--7832138 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7832078 AAATCAACAC
7832088 ACATTAAGTTTAGTAAATTACTTTA
1 ACATTAAGTTTAGTAAATTACTTTA
7832113 ACATTAAGTTTAGTAAATTACTTTA
1 ACATTAAGTTTAGTAAATTACTTTA
7832138 A
1 A
7832139 TATATTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
ACATTAAGTTTAGTAAATTACTTTA
Found at i:7832722 original size:31 final size:31
Alignment explanation
Indices: 7832653--7832715 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7832643 TTTATATTAG
* *
7832653 AGAGACTAAATTTCAAATTTCATATTAATAC
1 AGAGATTAAATTTCAAATTTCATATGAATAC
* *
7832684 AGAGATTAAATTTCAAATTTCGTATGATTAC
1 AGAGATTAAATTTCAAATTTCATATGAATAC
7832715 A
1 A
7832716 TGGATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (31 bp):
AGAGATTAAATTTCAAATTTCATATGAATAC
Found at i:7833001 original size:2 final size:2
Alignment explanation
Indices: 7832996--7833026 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7832986 TGTAAATTAG
7832996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7833027 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7836603 original size:18 final size:18
Alignment explanation
Indices: 7836580--7836627 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
7836570 AATAATAATA
*
7836580 AATAGATGCATATATGCT
1 AATAGATGCATATATGCC
7836598 AATAGATGCATATATGCC
1 AATAGATGCATATATGCC
7836616 AATAGATG-ATAT
1 AATAGATGCATAT
7836628 GCACAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
AATAGATGCATATATGCC
Found at i:7837078 original size:15 final size:15
Alignment explanation
Indices: 7837054--7837119 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
7837044 GGTTTTGAGA
*
7837054 TTTTAAGATTTTGGG
1 TTTTAGGATTTTGGG
7837069 TTTTAGGATTTT-GG
1 TTTTAGGATTTTGGG
* * *
7837083 TTTTTGGTTTTTGGA
1 TTTTAGGATTTTGGG
*
7837098 TTTT-GGATTTTAAGG
1 TTTTAGGATTTT-GGG
7837113 TTTTAGG
1 TTTTAGG
7837120 GTTTATAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 18 0.44
15 21 0.51
16 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (15 bp):
TTTTAGGATTTTGGG
Found at i:7837086 original size:14 final size:15
Alignment explanation
Indices: 7837054--7837199 Score: 59
Period size: 15 Copynumber: 9.7 Consensus size: 15
7837044 GGTTTTGAGA
* *
7837054 TTTTAAGATTTTGGG
1 TTTTAGGATTTTAGG
7837069 TTTTAGGATTTT-GG
1 TTTTAGGATTTTAGG
* *
7837083 TTTTTGG-TTTTTGG
1 TTTTAGGATTTTAGG
7837097 ATTTT-GGATTTTAAGG
1 -TTTTAGGATTTT-AGG
* *
7837113 TTTTAGGGTTTATAGC
1 TTTTAGGATTT-TAGG
* * *
7837129 TTTAAGG-TTTCAAG
1 TTTTAGGATTTTAGG
* * *
7837143 TTTCAGGGTTTAAGG
1 TTTTAGGATTTTAGG
* * *
7837158 TTTTGAAGACTTAAGG
1 TTTT-AGGATTTTAGG
*
7837174 TTTT-TGATTTTAGGG
1 TTTTAGGATTTTA-GG
*
7837189 TTTTAGAATTT
1 TTTTAGGATTT
7837200 AGGGTTTTGA
Statistics
Matches: 100, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
13 4 0.04
14 24 0.24
15 40 0.40
16 31 0.31
17 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (15 bp):
TTTTAGGATTTTAGG
Found at i:7837091 original size:21 final size:22
Alignment explanation
Indices: 7837060--7837119 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
7837050 GAGATTTTAA
*
7837060 GATTTTGGGTTTTAGGATTTTG
1 GATTTTAGGTTTTAGGATTTTG
* *
7837082 G-TTTTTGGTTTTTGGATTTTG
1 GATTTTAGGTTTTAGGATTTTG
7837103 GATTTTAAGGTTTTAGG
1 GATTTT-AGGTTTTAGG
7837120 GTTTATAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 19 0.59
22 5 0.16
23 8 0.25
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (22 bp):
GATTTTAGGTTTTAGGATTTTG
Found at i:7837192 original size:15 final size:15
Alignment explanation
Indices: 7837172--7837207 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7837162 GAAGACTTAA
* *
7837172 GGTTTTTGATTTTAG
1 GGTTTTAGAATTTAG
7837187 GGTTTTAGAATTTAG
1 GGTTTTAGAATTTAG
7837202 GGTTTT
1 GGTTTT
7837208 GAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.56
Consensus pattern (15 bp):
GGTTTTAGAATTTAG
Found at i:7837213 original size:15 final size:15
Alignment explanation
Indices: 7837151--7837214 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
7837141 AGTTTCAGGG
*
7837151 TTTAAGGTTTTGAAGA
1 TTTAGGGTTTTGAA-A
* * *
7837167 CTTAAGGTTTTTG-AT
1 -TTTAGGGTTTTGAAA
7837182 TTTAGGGTTTT-AGAA
1 TTTAGGGTTTTGA-AA
7837197 TTTAGGGTTTTGAAA
1 TTTAGGGTTTTGAAA
7837212 TTT
1 TTT
7837215 TAAGGTTTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
14 9 0.24
15 17 0.46
16 2 0.05
17 9 0.24
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTTGAAA
Found at i:7837216 original size:16 final size:16
Alignment explanation
Indices: 7837180--7837222 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
7837170 AAGGTTTTTG
7837180 ATTTTAGGGTTTTAGA
1 ATTTTAGGGTTTTAGA
7837196 A-TTTAGGGTTTT-GAA
1 ATTTTAGGGTTTTAG-A
*
7837211 ATTTTAAGGTTT
1 ATTTTAGGGTTT
7837223 CAATGGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 13 0.54
16 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (16 bp):
ATTTTAGGGTTTTAGA
Found at i:7837305 original size:15 final size:14
Alignment explanation
Indices: 7837259--7837332 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 14
7837249 AAATTTTACC
7837259 ATTTAGAGTTTTGAA
1 ATTTAG-GTTTTGAA
* **
7837274 GGTTTAGGGGTTG-A
1 -ATTTAGGTTTTGAA
7837288 ATTTAGAGTTTTGAA
1 ATTTAG-GTTTTGAA
7837303 ATTTATGGTTTTGAA
1 ATTTA-GGTTTTGAA
7837318 ATTTTAAGGTTTTGA
1 A-TTT-AGGTTTTGA
7837333 CGGTTTATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
13 5 0.11
14 5 0.11
15 19 0.40
16 17 0.36
17 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (14 bp):
ATTTAGGTTTTGAA
Found at i:7837328 original size:16 final size:15
Alignment explanation
Indices: 7837295--7837332 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
7837285 TGAATTTAGA
*
7837295 GTTTTGAAATTTATG
1 GTTTTGAAATTTAAG
7837310 GTTTTGAAATTTTAAG
1 GTTTTGAAA-TTTAAG
7837326 GTTTTGA
1 GTTTTGA
7837333 CGGTTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (15 bp):
GTTTTGAAATTTAAG
Found at i:7837421 original size:22 final size:23
Alignment explanation
Indices: 7837374--7837429 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
7837364 GATTTAGGAT
7837374 TTTAAGGGTTTGGGGTTAGAGCA
1 TTTAAGGGTTTGGGGTTAGAGCA
* *
7837397 TTTAA-GGTTTAGGGTTTTGAG-A
1 TTTAAGGGTTT-GGGGTTAGAGCA
*
7837419 TTTTAGGGTTT
1 TTTAAGGGTTT
7837430 TGGATTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (23 bp):
TTTAAGGGTTTGGGGTTAGAGCA
Found at i:7837423 original size:23 final size:22
Alignment explanation
Indices: 7837367--7837429 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
7837357 GTTTTAAGAT
7837367 TTAG-GATTTTAAGGGTTTGGGG
1 TTAGAGATTTTAA-GGTTTGGGG
*
7837389 TTAGAGCA-TTTAAGGTTTAGGGT
1 TTAGAG-ATTTTAAGGTTT-GGGG
* *
7837412 TTTGAGATTTTAGGGTTT
1 TTAGAGATTTTAAGGTTT
7837430 TGGATTTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 10 0.29
23 23 0.68
24 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (22 bp):
TTAGAGATTTTAAGGTTTGGGG
Found at i:7837437 original size:15 final size:16
Alignment explanation
Indices: 7837404--7837444 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
7837394 GCATTTAAGG
7837404 TTTAGGGTTTTGAGAT
1 TTTAGGGTTTTGAGAT
7837420 TTTAGGGTTTTG-GAT
1 TTTAGGGTTTTGAGAT
7837435 TTTAGGGTTT
1 TTTAGGGTTT
7837445 CGAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (16 bp):
TTTAGGGTTTTGAGAT
Found at i:7837577 original size:3 final size:3
Alignment explanation
Indices: 7837569--7837608 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7837559 TCATAAAAAT
7837569 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7837609 CTTTAGTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7839638 original size:81 final size:81
Alignment explanation
Indices: 7839461--7839618 Score: 192
Period size: 81 Copynumber: 2.0 Consensus size: 81
7839451 ATCATACTCA
* * * * * *
7839461 AAGGTCTTACAAATCTCTATATCTATAAATGCTCTTTTAAAAAGAGGCCTTGAAACTTTAAGATT
1 AAGGACTTACAAATCTCAAAATCTACAAATGCTCCTTTAAAAAGAGGCCTTGAAACTTTAAAATT
* *
7839526 TAAAATCTTTTATCCG
66 TAAAATATTCTATCCG
** *
7839542 AAGGACTTATGAATCTCAAAATCTACAAATGCTCCTTTAAAAAGAGGTC-TGAAAACTTTAAAAT
1 AAGGACTTACAAATCTCAAAATCTACAAATGCTCCTTTAAAAAGAGGCCTTG-AAACTTTAAAAT
*
7839606 TTAATATATTCTA
65 TTAAAATATTCTA
7839619 CCTAGAAGAC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.03
81 62 0.97
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (81 bp):
AAGGACTTACAAATCTCAAAATCTACAAATGCTCCTTTAAAAAGAGGCCTTGAAACTTTAAAATT
TAAAATATTCTATCCG
Found at i:7839809 original size:48 final size:49
Alignment explanation
Indices: 7839733--7839825 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
7839723 TGAATATACA
* *
7839733 AATGATAATCAAACATGATTACTCAGATATCAACACTAAG-AAAACTTT
1 AATGATAATCAAACATGAATACTAAGATATCAACACTAAGTAAAACTTT
* *
7839781 AATGAT-ATACAAACATGAATATTAAGATATCATCACTAAGTAAAA
1 AATGATAAT-CAAACATGAATACTAAGATATCAACACTAAGTAAAA
7839826 ATGAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 2 0.05
48 33 0.85
49 4 0.10
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.27
Consensus pattern (49 bp):
AATGATAATCAAACATGAATACTAAGATATCAACACTAAGTAAAACTTT
Found at i:7839974 original size:29 final size:29
Alignment explanation
Indices: 7839913--7840080 Score: 100
Period size: 28 Copynumber: 5.9 Consensus size: 29
7839903 ATTTTATTAG
** *
7839913 GCTTAAAATTTGGGTGCTAGCTAATTTGG
1 GCTTAAAATTTGGGTGCTAGCTAAACTGA
7839942 GCTTAAAATTTGGGTGCT-GACTAAACTGA
1 GCTTAAAATTTGGGTGCTAG-CTAAACTGA
* * *
7839971 GCTT-AAATATGAGTGCCAGCTAAACATG-
1 GCTTAAAATTTGGGTGCTAGCTAAAC-TGA
* *
7839999 GCTT-AAA-TCGTGTGCTAGCTAAACT-A
1 GCTTAAAATTTGGGTGCTAGCTAAACTGA
* ** * * *
7840025 GGCTT-AAATCTGTATACTAGCTAAATTGG
1 -GCTTAAAATTTGGGTGCTAGCTAAACTGA
* *
7840054 GCTT-AAATTCCGAGTGCTAGCTAAACT
1 GCTTAAAATT-TGGGTGCTAGCTAAACT
7840081 AGGTTTAAAT
Statistics
Matches: 109, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 20 0.18
28 45 0.41
29 43 0.39
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (29 bp):
GCTTAAAATTTGGGTGCTAGCTAAACTGA
Found at i:7840021 original size:27 final size:27
Alignment explanation
Indices: 7839983--7840091 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 27
7839973 TTAAATATGA
*
7839983 GTGCCAGCTAAAC-ATGGCTTAAATCGT
1 GTGCTAGCTAAACTA-GGCTTAAATCGT
7840010 GTGCTAGCTAAACTAGGCTTAAATCTGT
1 GTGCTAGCTAAACTAGGCTTAAATC-GT
* * * * *
7840038 ATACTAGCTAAATTGGGCTTAAATTCCGA
1 GTGCTAGCTAAACTAGGCTTAAA-T-CGT
*
7840067 GTGCTAGCTAAACTAGGTTTAAATC
1 GTGCTAGCTAAACTAGGCTTAAATC
7840092 TATTTGTCAG
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
27 23 0.34
28 23 0.34
29 20 0.30
30 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (27 bp):
GTGCTAGCTAAACTAGGCTTAAATCGT
Found at i:7840030 original size:55 final size:57
Alignment explanation
Indices: 7839962--7840090 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 57
7839952 TGGGTGCTGA
* *
7839962 CTAAACT-GAGCTTAAATATG-AGTGCCAGCTAAACAT-GGCTTAAA-T-CGTGTGCTAG
1 CTAAACTAG-GCTTAAATATGTA-TACCAGCTAAA-ATGGGCTTAAATTCCGAGTGCTAG
* * *
7840017 CTAAACTAGGCTTAAATCTGTATACTAGCTAAATTGGGCTTAAATTCCGAGTGCTAG
1 CTAAACTAGGCTTAAATATGTATACCAGCTAAAATGGGCTTAAATTCCGAGTGCTAG
*
7840074 CTAAACTAGGTTTAAAT
1 CTAAACTAGGCTTAAAT
7840091 CTATTTGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
54 1 0.02
55 34 0.54
56 3 0.05
57 25 0.40
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (57 bp):
CTAAACTAGGCTTAAATATGTATACCAGCTAAAATGGGCTTAAATTCCGAGTGCTAG
Found at i:7840136 original size:22 final size:22
Alignment explanation
Indices: 7840111--7840159 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
7840101 GCTAAATCGA
* * *
7840111 GCTTGGGTGCTAGCTGATCTGG
1 GCTTAGGTGCTAGCTAATCTAG
7840133 GCTTAGGTGCTAGCTAATCTAG
1 GCTTAGGTGCTAGCTAATCTAG
7840155 GCTTA
1 GCTTA
7840160 AAGTGCCGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.33
Consensus pattern (22 bp):
GCTTAGGTGCTAGCTAATCTAG
Found at i:7845556 original size:4 final size:4
Alignment explanation
Indices: 7845547--7845601 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
7845537 AGTGAATATG
* * **
7845547 TGAA TGAA TGAA TAAA TGAA TGAA TG-A TCAAA TGAA TGAA CAAA TGAA
1 TGAA TGAA TGAA TGAA TGAA TGAA TGAA T-GAA TGAA TGAA TGAA TGAA
7845595 TGAA TGA
1 TGAA TGA
7845602 TAAAGCCATC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
3 2 0.05
4 37 0.90
5 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.24
Consensus pattern (4 bp):
TGAA
Found at i:7845560 original size:16 final size:16
Alignment explanation
Indices: 7845547--7845601 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
7845537 AGTGAATATG
7845547 TGAATGAATGAATAAA
1 TGAATGAATGAATAAA
7845563 TGAATGAATG-ATCAAA
1 TGAATGAATGAAT-AAA
** *
7845579 TGAATGAACAAATGAA
1 TGAATGAATGAATAAA
7845595 TGAATGA
1 TGAATGA
7845602 TAAAGCCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.88
17 2 0.06
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.24
Consensus pattern (16 bp):
TGAATGAATGAATAAA
Found at i:7849414 original size:18 final size:19
Alignment explanation
Indices: 7849373--7849419 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
7849363 TTTGGTTGAT
*
7849373 GATTTAGGGTTGCATGTTA
1 GATTTAGGGTTGCAAGTTA
* *
7849392 AATTTAGGGTT-TAAGTTA
1 GATTTAGGGTTGCAAGTTA
7849410 GATTTAGGGT
1 GATTTAGGGT
7849420 CTTGATGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.43
Consensus pattern (19 bp):
GATTTAGGGTTGCAAGTTA
Found at i:7849490 original size:23 final size:22
Alignment explanation
Indices: 7849455--7849517 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
7849445 TTTCATTTAA
* * *
7849455 GGGTTTCAAGATTTTAGAGTTTT
1 GGGTTTTAGGATTTTAG-GTCTT
7849478 GGGTTTTAGGATTTT-GGTCTT
1 GGGTTTTAGGATTTTAGGTCTT
7849499 GGGATTTTGAGG-TTTTAGG
1 GGG-TTTT-AGGATTTTAGG
7849518 GTCTATAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.21
22 9 0.26
23 18 0.53
ACGTcount: A:0.16, C:0.03, G:0.33, T:0.48
Consensus pattern (22 bp):
GGGTTTTAGGATTTTAGGTCTT
Found at i:7849594 original size:15 final size:16
Alignment explanation
Indices: 7849576--7849608 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7849566 TAGGGTTTCA
7849576 AAAT-TTAAGATTTTG
1 AAATGTTAAGATTTTG
7849591 AAATGTTAAGATTTTG
1 AAATGTTAAGATTTTG
7849607 AA
1 AA
7849609 GGTCTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
AAATGTTAAGATTTTG
Found at i:7849870 original size:3 final size:3
Alignment explanation
Indices: 7849864--7849888 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7849854 ATAAAAATTA
7849864 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
7849889 AATTTGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:7852146 original size:38 final size:38
Alignment explanation
Indices: 7852093--7852181 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 38
7852083 TATTGTTAAG
* * * *
7852093 TTGAGCTTGAGTTTGAACTT-AAGTTACTTGAGTAATGAC
1 TTGAG-TTGAATTTGAACTTGAA-CTACTTAAGTAAAGAC
* *
7852132 TTGAGTTGAATTTGAGCTTGAACTACTTAAGTAAAGAG
1 TTGAGTTGAATTTGAACTTGAACTACTTAAGTAAAGAC
*
7852170 TTGAGCTGAATT
1 TTGAGTTGAATT
7852182 CAAGTAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 35 0.83
39 7 0.17
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (38 bp):
TTGAGTTGAATTTGAACTTGAACTACTTAAGTAAAGAC
Found at i:7866600 original size:22 final size:22
Alignment explanation
Indices: 7866570--7866612 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7866560 GATCCAAATG
* *
7866570 CAAAATCAAGTTCAAATTAATT
1 CAAAATCAACTCCAAATTAATT
*
7866592 CAAATTCAACTCCAAATTAAT
1 CAAAATCAACTCCAAATTAAT
7866613 CCACCAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (22 bp):
CAAAATCAACTCCAAATTAATT
Found at i:7873122 original size:204 final size:201
Alignment explanation
Indices: 7872771--7873546 Score: 746
Period size: 202 Copynumber: 3.8 Consensus size: 201
7872761 ATGAATTTAC
* * * *
7872771 CGTGATAATAAAATAAAATGTCACCCTATGATTTTTTTTTGTGACATTAGTTTTCATCAGCTATT
1 CGTGACAATAAAATAAAATGTCACCTTATGATTTTTTTTTGTGACATTAGTTTTCGTTAGCTA-T
* * * * *
7872836 TATATTAAAAAAAAAGTCATTGAAGGCTATATTTGTTAC-AAA-AAA--A-AAAATCTAATATAT
65 T-TA-TAAAAAAAAAGTCATTAAAGGCTATAATTGTCACAAAATAAATGATAAAATTTGATATAT
* * ** * * *
7872896 TAGTGACAAAATGTAAATCATCATAGTATTAATGACAAAATTATCATCACCAATGATTGTAAGAT
128 TAGTGACAAAAGGTAAATCATCACAGTATTGGTAACATAATTATCATCACAAATGATTGTAAGAT
* *
7872961 AATGTCTAT
193 AATGTCAAA
* * *
7872970 TGTGACAATAAAATAAAATGTCACCTTTTG-TGTTAATTTTTGTGACATTAGTTTTCGTTAGCTA
1 CGTGACAATAAAATAAAATGTCACCTTATGAT-TT-TTTTTTGTGACATTAGTTTTCGTTAGCTA
7873034 TTTTATAAAAAAAAAGGTCATTAAAGGCTATAATTGTCACAAAATAAATGATAAAATCTT-ATAT
64 -TTTATAAAAAAAAA-GTCATTAAAGGCTATAATTGTCACAAAATAAATGATAAAAT-TTGATAT
* * *
7873098 ATTAGTGACAAAAGGTAAATCATCACAATATTGGTAACATAATTATCATCA-AGAATTATTATAA
126 ATTAGTGACAAAAGGTAAATCATCACAGTATTGGTAACATAATTATCATCACA-AATGATTGTAA
7873162 GATAATGTCAAA
190 GATAATGTCAAA
* * * * * * * *
7873174 CGTGACAATAAAATCAAATGTCAGCTTATTGGTTTTTTTATATGACGTTAATTTTTGTTAGCTA-
1 CGTGACAATAAAATAAAATGTCACCTTA-TGATTTTTTTTTGTGACATTAGTTTTCGTTAGCTAT
* * * * ** * *
7873238 TTATAAAGAAGAACGTCATTGAAGGTTATAATCATCACAAAATGAATAATAAAATTTGATATATT
65 TTATAAA-AAAAAAGTCATTAAAGGCTATAATTGTCACAAAATAAATGATAAAATTTGATATATT
* ** * ** ** * *
7873303 AATGATGAAATGTAAATCATCGTAGTATTGGTAACATAATTATTGTTACAAATGGTTGTAAGATA
129 AGTGACAAAAGGTAAATCATCACAGTATTGGTAACATAATTATCATCACAAATGATTGTAAGATA
*
7873368 ACGTCAAA
194 ATGTCAAA
* ** * * ** * *
7873376 CGTGACAATAAAATCAAACATCACATTATGCTTTACTTTTTTGTGATGTGAGTTTTTGTTAGCTA
1 CGTGACAATAAAATAAAATGTCACCTTATGATTT--TTTTTTGTGACATTAGTTTTCGTTAGCTA
* ** *
7873441 TTTAT-GAAAAATTGTCATTAAAGGCTAT-ATTCGTCACAAAATAAATGATTAAATTTGATATAT
64 TTTATAAAAAAAAAGTCATTAAAGGCTATAATT-GTCACAAAATAAATGATAAAATTTGATATAT
* * *
7873504 TAGTGACAAAAGATAAATTATCACAGTATTGGTGACATAATTA
128 TAGTGACAAAAGGTAAATCATCACAGTATTGGTAACATAATTA
7873547 ACATTATTAA
Statistics
Matches: 473, Mismatches: 85, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
198 11 0.02
199 51 0.11
200 32 0.07
201 12 0.03
202 207 0.44
203 31 0.07
204 123 0.26
205 5 0.01
206 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (201 bp):
CGTGACAATAAAATAAAATGTCACCTTATGATTTTTTTTTGTGACATTAGTTTTCGTTAGCTATT
TATAAAAAAAAAGTCATTAAAGGCTATAATTGTCACAAAATAAATGATAAAATTTGATATATTAG
TGACAAAAGGTAAATCATCACAGTATTGGTAACATAATTATCATCACAAATGATTGTAAGATAAT
GTCAAA
Found at i:7877908 original size:20 final size:21
Alignment explanation
Indices: 7877883--7877930 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
7877873 AATAAAAATA
*
7877883 ATTGAAATGAAAG-TTAGCTT
1 ATTGAAATAAAAGTTTAGCTT
*
7877903 ATTGAACTAAAAGTTTAGCTT
1 ATTGAAATAAAAGTTTAGCTT
7877924 ACTTGAA
1 A-TTGAA
7877931 TAATTAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.46
21 8 0.33
22 5 0.21
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (21 bp):
ATTGAAATAAAAGTTTAGCTT
Found at i:7879666 original size:22 final size:22
Alignment explanation
Indices: 7879640--7879685 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
7879630 GTTCAATCCC
7879640 AATTGTGATAAGGGATTAGATT
1 AATTGTGATAAGGGATTAGATT
*
7879662 AATTGTGATAAGGGATTATATT
1 AATTGTGATAAGGGATTAGATT
7879684 AA
1 AA
7879686 CATGGGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (22 bp):
AATTGTGATAAGGGATTAGATT
Found at i:7879748 original size:18 final size:17
Alignment explanation
Indices: 7879727--7879761 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7879717 TTTTTTTCAA
7879727 TCAATAACTGTTTTATCT
1 TCAA-AACTGTTTTATCT
*
7879745 TCAAAAGTGTTTTATCT
1 TCAAAACTGTTTTATCT
7879762 AAATCCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (17 bp):
TCAAAACTGTTTTATCT
Found at i:7883983 original size:10 final size:10
Alignment explanation
Indices: 7883959--7883988 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7883949 TATTTTATCA
7883959 ATTAAAATA-
1 ATTAAAATAT
7883968 ATTAAAATAT
1 ATTAAAATAT
7883978 ATTAAAATAT
1 ATTAAAATAT
7883988 A
1 A
7883989 AAAGCTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:7885642 original size:2 final size:2
Alignment explanation
Indices: 7885581--7885622 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7885571 CTACTTCAAG
7885581 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7885623 CTTTATTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7886380 original size:6 final size:6
Alignment explanation
Indices: 7886371--7886418 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
7886361 AAATAAATAT
* * *
7886371 AATAAA AATAAA AATAAA ATTATAAA AATAAT ATTAAT AATAAA AATA
1 AATAAA AATAAA AATAAA A--ATAAA AATAAA AATAAA AATAAA AATA
7886419 TATAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
AATAAA
Found at i:7886385 original size:29 final size:30
Alignment explanation
Indices: 7886341--7886423 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 30
7886331 AACATTGATA
* *
7886341 AATAAAATTTAAAAATATATAA-ATAAATAT
1 AATAAAA-ATAAAAATATATAATATAAAAAT
7886371 AATAAAAATAAAAATA-A-AATTATAAAAAT
1 AATAAAAATAAAAATATATAA-TATAAAAAT
7886400 AATATTAATAATAAAAATATATAA
1 AATA--AA-AATAAAAATATATAA
7886424 CCAAAATTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 19 0.43
30 7 0.16
31 2 0.05
32 10 0.23
33 1 0.02
34 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (30 bp):
AATAAAAATAAAAATATATAATATAAAAAT
Found at i:7886398 original size:9 final size:9
Alignment explanation
Indices: 7886362--7886423 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
7886352 AAAATATATA
*
7886362 AATAAATAT
1 AATAAAAAT
7886371 AATAAAAAT
1 AATAAAAAT
*
7886380 AAAAATAAAAT
1 -AATA-AAAAT
*
7886391 TATAAAAAT
1 AATAAAAAT
**
7886400 AATATTAAT
1 AATAAAAAT
7886409 AATAAAAAT
1 AATAAAAAT
7886418 ATATAA
1 A-ATAA
7886424 CCAAAATTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
9 27 0.66
10 9 0.22
11 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AATAAAAAT
Found at i:7886400 original size:35 final size:39
Alignment explanation
Indices: 7886340--7886418 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 39
7886330 TAACATTGAT
* *
7886340 AAATAAAATTTAAAAATATATAAATAA-A-T-ATAATAA
1 AAATAAAATATAAAAATATAAAAATAATATTAATAATAA
*
7886376 AAATAAAA-ATAAAATTATAAAAATAATATTAATAATAA
1 AAATAAAATATAAAAATATAAAAATAATATTAATAATAA
7886414 AAATA
1 AAATA
7886419 TATAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 15 0.41
36 9 0.24
37 1 0.03
38 12 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (39 bp):
AAATAAAATATAAAAATATAAAAATAATATTAATAATAA
Found at i:7886742 original size:32 final size:33
Alignment explanation
Indices: 7886688--7886756 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
7886678 GTATTACCTG
*
7886688 AAGTTAGAAAATGACATTACTTGGTCTTAGCCA
1 AAGTTAGAAAATGACATGACTTGGTCTTAGCCA
* *
7886721 AAGTT-GAAAATGATATGACTTGGTCTTAGCTA
1 AAGTTAGAAAATGACATGACTTGGTCTTAGCCA
7886753 AAGT
1 AAGT
7886757 CAAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 28 0.85
33 5 0.15
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (33 bp):
AAGTTAGAAAATGACATGACTTGGTCTTAGCCA
Found at i:7886838 original size:32 final size:32
Alignment explanation
Indices: 7886797--7886907 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 32
7886787 ATAAAAACAG
*
7886797 AAAAA-AAAGGTGATCGAATTGATCCAAGGTT
1 AAAAATAAAGGTGATCGAACTGATCCAAGGTT
* *
7886828 AAAAATAAAGGTGATC-AAGCTAAACCAAGGTT
1 AAAAATAAAGGTGATCGAA-CTGATCCAAGGTT
* * *
7886860 AAAAGTTAAAGGTGA-CTGGACTGAGT-CAAGGTA
1 AAAA-ATAAAGGTGATC-GAACTGA-TCCAAGGTT
7886893 AAAAATAAAGGTGAT
1 AAAAATAAAGGTGAT
7886908 TGGACAAAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 7 0.11
32 34 0.53
33 22 0.34
34 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (32 bp):
AAAAATAAAGGTGATCGAACTGATCCAAGGTT
Found at i:7886912 original size:32 final size:32
Alignment explanation
Indices: 7886866--7886930 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
7886856 GGTTAAAAGT
** * *
7886866 TAAAGGTGACTGGACTGAGTCAAGGTAAAAAA
1 TAAAGGTGACTGGACAAAGCCAAAGTAAAAAA
*
7886898 TAAAGGTGATTGGACAAAGCCAAAGTAAAAAA
1 TAAAGGTGACTGGACAAAGCCAAAGTAAAAAA
7886930 T
1 T
7886931 GACTTGATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (32 bp):
TAAAGGTGACTGGACAAAGCCAAAGTAAAAAA
Found at i:7887894 original size:16 final size:16
Alignment explanation
Indices: 7887875--7887922 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
7887865 CATTTTCCCT
*
7887875 TTTTTTTCATTTTTAA
1 TTTTTTTCATATTTAA
7887891 TTTTTTTCATATTTAA
1 TTTTTTTCATATTTAA
7887907 TCTTTTTTCATCATTT
1 T-TTTTTTCAT-ATTT
7887923 TTCACTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 16 0.55
17 9 0.31
18 4 0.14
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTCATATTTAA
Found at i:7887914 original size:20 final size:19
Alignment explanation
Indices: 7887874--7887936 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 19
7887864 TCATTTTCCC
*
7887874 TTTTTTTTCATTTTTAA--
1 TTTTTTTTCATATTTAACT
7887891 -TTTTTTTCATATTTAATCT
1 TTTTTTTTCATATTTAA-CT
** * *
7887910 TTTTTCATCATTTTTCACT
1 TTTTTTTTCATATTTAACT
7887929 TTTTTTTT
1 TTTTTTTT
7887937 GCTTCATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 15 0.43
19 8 0.23
20 12 0.34
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTTTCATATTTAACT
Found at i:7890971 original size:2 final size:2
Alignment explanation
Indices: 7890966--7890999 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7890956 AGTTTATTAG
* *
7890966 CA CA CA CA CA CA TA TA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7891000 TATATAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (2 bp):
CA
Found at i:7893564 original size:3 final size:3
Alignment explanation
Indices: 7893556--7893581 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7893546 GGTCAACTTT
7893556 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
7893582 CTTTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7894360 original size:10 final size:10
Alignment explanation
Indices: 7894345--7894437 Score: 53
Period size: 10 Copynumber: 8.7 Consensus size: 10
7894335 ATTGTAGAAT
*
7894345 TTTTTTTTTC
1 TTTTTTTTTA
7894355 TTTTTTTTTA
1 TTTTTTTTTA
**
7894365 TTTTTCAATTACA
1 TTTTT---TTTTA
*
7894378 TTTTTATTTA
1 TTTTTTTTTA
7894388 TTTTATTTTTA
1 TTTT-TTTTTA
7894399 TATATATTTTTTA
1 T-T-T-TTTTTTA
*
7894412 TTTTATTTTA
1 TTTTTTTTTA
* *
7894422 -CTTGTTTTA
1 TTTTTTTTTA
7894431 TTTTTTT
1 TTTTTTT
7894438 AGAATTTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
9 7 0.11
10 30 0.48
11 7 0.11
12 2 0.03
13 16 0.25
14 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:7894392 original size:28 final size:24
Alignment explanation
Indices: 7894355--7894420 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 24
7894345 TTTTTTTTTC
*
7894355 TTTTT-TTTTATTTTTCAATTACATTT
1 TTTTTATTTTATTTTT--A-TACATAT
*
7894381 TTATTTATTTTATTTTTATATATAT
1 TT-TTTATTTTATTTTTATACATAT
7894406 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
7894421 ACTTGTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 13 0.36
25 7 0.19
26 3 0.08
27 3 0.08
28 10 0.28
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTATTTTATTTTTATACATAT
Found at i:7894408 original size:17 final size:15
Alignment explanation
Indices: 7894377--7894419 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
7894367 TTTCAATTAC
7894377 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
7894392 ATTTTTATATATATTTT
1 ATTTTTAT-T-TATTTT
*
7894409 TTATTTTATTT
1 AT-TTTTATTT
7894420 TACTTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.33
16 2 0.08
17 8 0.33
18 6 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTATTTATTTT
Found at i:7894453 original size:36 final size:38
Alignment explanation
Indices: 7894379--7894465 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 38
7894369 TCAATTACAT
* * * * *
7894379 TTTTATTTATTTTATTTTTATATATATTTTTTATTTTA
1 TTTTACTTGTTTTATTTTTATATAGAATTTTTAATTTA
7894417 TTTTACTTGTTTTATTTTT-T-TAGAATTTTTAATTTA
1 TTTTACTTGTTTTATTTTTATATAGAATTTTTAATTTA
*
7894453 TTCTACTTGTTTT
1 TTTTACTTGTTTT
7894466 TAAATTAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 25 0.58
37 1 0.02
38 17 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (38 bp):
TTTTACTTGTTTTATTTTTATATAGAATTTTTAATTTA
Found at i:7894824 original size:94 final size:94
Alignment explanation
Indices: 7894679--7894920 Score: 303
Period size: 95 Copynumber: 2.6 Consensus size: 94
7894669 TTTTATTCTG
* * *
7894679 CCAAACTATTGGAGGATTTGCATC---TTAAATCTTACTAAACTATTGGAAGATTTAGTAAATTT
1 CCAAACTATTGGA-GATCTGCATCAAATTAAATCTTACTAAACTATTGAAAGATTTAATAAATTT
* * *
7894741 TTTATAAAA-AAAATTTCAAGGAAATCTCA
65 TTTAAAAAATAAAATTACAAAGAAATCTCA
* * * * *
7894770 TCAAACTATTGAGAGATCTGCATCAAATTAAATCCTACCAAACTATTAAAAGATTTAATATATTT
1 CCAAACTATTG-GAGATCTGCATCAAATTAAATCTTACTAAACTATTGAAAGATTTAATAAATTT
7894835 TTTAAAAAATAAAATTACAAAGAAATCTCA
65 TTTAAAAAATAAAATTACAAAGAAATCTCA
* * *
7894865 CCAAACTGTTGGGAAATCTGCATCAAAGTAAATCTTACTAAACTATTGAAAGATTT
1 CCAAACTATT-GGAGATCTGCATCAAATTAAATCTTACTAAACTATTGAAAGATTT
7894921 TACTAATTCT
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
91 19 0.15
92 2 0.02
94 40 0.31
95 65 0.51
96 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (94 bp):
CCAAACTATTGGAGATCTGCATCAAATTAAATCTTACTAAACTATTGAAAGATTTAATAAATTTT
TTAAAAAATAAAATTACAAAGAAATCTCA
Found at i:7905960 original size:65 final size:65
Alignment explanation
Indices: 7905829--7906330 Score: 402
Period size: 66 Copynumber: 7.7 Consensus size: 65
7905819 ACTTACCATG
* * * * *
7905829 TTTTTATCTCAGCTCAGTCCATATCATTTTATTTTTTTGACTCA-AGATTTAATCCCGATCATCT
1 TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATA-ATTTGATCCCGATCACCT
7905893 A
65 A
* * * ** *
7905894 TTTTGATCTCAGCTCAATTCAAATCATTTTATTTTTTTGACTCACAATTTGGTCTTGGTCACCTA
1 TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATAATTTGATCCCGATCACCTA
* * * * * * * *
7905959 TTTTTTATCTCAGTTCAGTCCAAATTATTTTATTTTTTTGACTCATGATTTGATCTCAATCATCT
1 -TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATAATTTGATCCCGATCACCT
7906024 A
65 A
* ** * * * * * * * ** *
7906025 TTTTTTATCTCAATTTAGTCTAAATTATTTTATTTTTCTAACTCGTGGTTTGAT-CCTAGTCACC
1 -TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATAATTTGATCCCGA-TCACC
*
7906089 TCT
64 T-A
* * * * *
7906092 TTTTGATCTCTGCTCAATCGAGATCATTTTATTTTTTTGACTCGA-GATTTGATCCCGATCATCT
1 TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTC-ATAATTTGATCCCGATCACCT
*
7906156 G
65 A
** * * * * *
7906157 TTTTGATCTTGGCACAGTCCAGATCATTTTATTTTTTTGACTCGTAATTTGAT-CCTAGTCA-CT
1 TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATAATTTGATCCCGA-TCACCT
7906220 A
65 A
* * * * **
7906221 TTTTGATCTCAGCTCAATCTAGATCATTTTATTTTTTTGACTCGTAGTTCAATCCCGATCACCTA
1 TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATAATTTGATCCCGATCACCTA
** *
7906286 TTTTGATCTTGGCTCAGTCCAAATCATTTTATTTTTTTAGACTCA
1 TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTT-GACTCA
7906331 CTGTTCGATC
Statistics
Matches: 353, Mismatches: 73, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
64 53 0.15
65 142 0.40
66 155 0.44
67 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.47
Consensus pattern (65 bp):
TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCATAATTTGATCCCGATCACCTA
Found at i:7905994 original size:131 final size:131
Alignment explanation
Indices: 7905829--7906331 Score: 519
Period size: 132 Copynumber: 3.8 Consensus size: 131
7905819 ACTTACCATG
* *
7905829 TTTTT-ATCTCAGCTCAGTCCATATCATTTTATTTTTTTGACTCAAGATTTAATCCCGATCATCT
1 TTTTTGATCTCAGCTCAATCCAGATCATTTTATTTTTTTGACTCAAGATTTAATCCCGATCATCT
* * * *
7905893 ATTTTGATCTCAGCTCAATTCAAATCATTTTATTTTTTTGACTCACAATTTGGTCTTGGTCACCT
66 ATTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCACAATTTGATCCTAGTCACCT
7905958 A
131 A
* * * * * * * * *
7905959 TTTTTTATCTCAGTTCAGTCCAAATTATTTTATTTTTTTGACTCATGATTTGATCTCAATCATCT
1 TTTTTGATCTCAGCTCAATCCAGATCATTTTATTTTTTTGACTCAAGATTTAATCCCGATCATCT
* ** * * * * * * ****
7906024 ATTTTTTATCTCAATTTAGTCTAAATTATTTTATTTTTCTAACTCGTGGTTTGATCCTAGTCACC
66 A-TTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCACAATTTGATCCTAGTCACC
*
7906089 TC
130 TA
* * * *
7906091 TTTTTGATCTCTGCTCAATCGAGATCATTTTATTTTTTTGACTCGAGATTTGATCCCGATCATCT
1 TTTTTGATCTCAGCTCAATCCAGATCATTTTATTTTTTTGACTCAAGATTTAATCCCGATCATCT
* ** * * * **
7906156 GTTTTGATCTTGGCACAGTCCAGATCATTTTATTTTTTTGACTCGTAATTTGATCCTAGTCA-CT
66 ATTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCACAATTTGATCCTAGTCACCT
7906220 A
131 A
* * * *
7906221 -TTTTGATCTCAGCTCAATCTAGATCATTTTATTTTTTTGACTCGTAG-TTCAATCCCGATCACC
1 TTTTTGATCTCAGCTCAATCCAGATCATTTTATTTTTTTGACTC-AAGATTTAATCCCGATCATC
** *
7906284 TATTTTGATCTTGGCTCAGTCCAAATCATTTTATTTTTTTAGACTCAC
65 TATTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTT-GACTCAC
7906332 TGTTCGATCT
Statistics
Matches: 306, Mismatches: 63, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
129 91 0.30
130 14 0.05
131 100 0.33
132 101 0.33
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (131 bp):
TTTTTGATCTCAGCTCAATCCAGATCATTTTATTTTTTTGACTCAAGATTTAATCCCGATCATCT
ATTTTGATCTCAGCTCAATCCAAATCATTTTATTTTTTTGACTCACAATTTGATCCTAGTCACCT
A
Found at i:7907721 original size:67 final size:68
Alignment explanation
Indices: 7907642--7907780 Score: 183
Period size: 68 Copynumber: 2.1 Consensus size: 68
7907632 TCATATATCA
* * * *
7907642 TTTTTAAAACTCA-TAAAATCTTCCAATAATTTAATAAGATTTTATA-AATTTTATTCTCAAAAA
1 TTTTTAAAACTCACAAAAATATTCCAATAATTTAATAAGATGTTA-AGAATCTTATTCTCAAAAA
7907705 TTAT
65 TTAT
* * * *
7907709 TTTTTTAAACTCACAAAAATATTCTAATAGTTTGATAAGATGTTAAGAATCTTATTCTCAAAAAT
1 TTTTTAAAACTCACAAAAATATTCCAATAATTTAATAAGATGTTAAGAATCTTATTCTCAAAAAT
7907774 TAT
66 TAT
7907777 TTTT
1 TTTT
7907781 CACCCAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
67 13 0.21
68 49 0.79
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (68 bp):
TTTTTAAAACTCACAAAAATATTCCAATAATTTAATAAGATGTTAAGAATCTTATTCTCAAAAAT
TAT
Found at i:7927339 original size:25 final size:26
Alignment explanation
Indices: 7927311--7927371 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
7927301 TATACCGTCT
* *
7927311 TTAACATATATA-ATGATATAAATTA
1 TTAAAATATATATATAATATAAATTA
*
7927336 TTAAAATATAAATATAATATAAATTA
1 TTAAAATATATATATAATATAAATTA
7927362 -TAAAATATAT
1 TTAAAATATAT
7927372 TTACATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
TTAAAATATATATATAATATAAATTA
Found at i:7927489 original size:19 final size:20
Alignment explanation
Indices: 7927459--7927532 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 20
7927449 AATTCATTTA
7927459 AATACGATATGAATAAACATG
1 AATA-GATATGAATAAACATG
*
7927480 AATA-ATATGAATATACAT-
1 AATAGATATGAATAAACATG
7927498 ATATAGATAT-AACT-AACATG
1 A-ATAGATATGAA-TAAACATG
* *
7927518 GATATATATGAATAA
1 AATAGATATGAATAA
7927533 GTACGACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
18 1 0.02
19 30 0.70
20 8 0.19
21 4 0.09
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (20 bp):
AATAGATATGAATAAACATG
Found at i:7928292 original size:15 final size:15
Alignment explanation
Indices: 7928263--7928318 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
7928253 TTATTATCTG
7928263 AATTATAAATTTATT
1 AATTATAAATTTATT
7928278 AATTA-AAATTATATT
1 AATTATAAATT-TATT
* * *
7928293 TATTTTTAATATTATT
1 AATTATAAAT-TTATT
*
7928309 AATTTTAAAT
1 AATTATAAAT
7928319 AATAATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 5 0.15
15 12 0.36
16 15 0.45
17 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATAAATTTATT
Found at i:7928426 original size:20 final size:19
Alignment explanation
Indices: 7928401--7928445 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7928391 TAAATTTTTT
7928401 AAAATTTAAATATTACATTA
1 AAAATTTAAATATTA-ATTA
* * *
7928421 AAAATTTTATTATTATTTA
1 AAAATTTAAATATTAATTA
7928440 AAAATT
1 AAAATT
7928446 ATTCATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTTAAATATTAATTA
Found at i:7928616 original size:17 final size:17
Alignment explanation
Indices: 7928596--7928631 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7928586 GTTGAAAGTT
7928596 GAAAGTAGTTTAGATAA
1 GAAAGTAGTTTAGATAA
7928613 GAAAGTAGTTTAGATAA
1 GAAAGTAGTTTAGATAA
7928630 GA
1 GA
7928632 GAAAATAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (17 bp):
GAAAGTAGTTTAGATAA
Found at i:7929235 original size:28 final size:29
Alignment explanation
Indices: 7929184--7929266 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 29
7929174 ATATTAAAAA
7929184 TAAATATCATATTATTTAATAAATTTAT-AATT
1 TAAATATCATATTA---AA-AAATTTATAAATT
7929216 TAAATATCATATTAAAAAATTT-TAAATT
1 TAAATATCATATTAAAAAATTTATAAATT
* * *
7929244 TAAGTATTATATTAAATAATTTA
1 TAAATATCATATTAAAAAATTTA
7929267 CTACTTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 1 0.02
28 29 0.63
29 2 0.04
32 14 0.30
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAATATCATATTAAAAAATTTATAAATT
Found at i:7929438 original size:19 final size:18
Alignment explanation
Indices: 7929414--7929461 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7929404 AAAAATCATA
7929414 AAAATAATTTTAAAATATG
1 AAAATAATTTT-AAATATG
*
7929433 AAAATAAGTTTTAAATATT
1 AAAATAA-TTTTAAATATG
*
7929452 AAAAAAATTT
1 AAAATAATTT
7929462 ACATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 19 0.73
20 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AAAATAATTTTAAATATG
Found at i:7943056 original size:106 final size:107
Alignment explanation
Indices: 7942891--7943091 Score: 271
Period size: 107 Copynumber: 1.9 Consensus size: 107
7942881 TTCAAAGAAG
* * *
7942891 AAATACCTTAATTGATTATCAATTGAGACATTTTCTTTGAACAAATACTTTATTTGATACTTTTT
1 AAATACCTTAATTAATTATCAATTAAGACATTTTCTTTGAACAAAAACTTTATTTGATACTTTTT
* **
7942956 TCAGAA-TTTTTATAAAAGTATCAAATAAGGCACTTTTTTATT
66 TCAAAACTTTGCA-AAAAGTATCAAATAAGGCACTTTTTTATT
* ** * *
7942998 AAATGCCTTAATTAATTATCAATTAAGGTATTTT-TTTTAACAAAAATTTTATTTGATACTTTTT
1 AAATACCTTAATTAATTATCAATTAAGACATTTTCTTTGAACAAAAACTTTATTTGATACTTTTT
7943062 TCAAAACGTTTGCAAAAAGTATCAAATAAG
66 TCAAAAC-TTTGCAAAAAGTATCAAATAAG
7943092 ACCTCTCCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
106 32 0.40
107 45 0.56
108 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (107 bp):
AAATACCTTAATTAATTATCAATTAAGACATTTTCTTTGAACAAAAACTTTATTTGATACTTTTT
TCAAAACTTTGCAAAAAGTATCAAATAAGGCACTTTTTTATT
Found at i:7944623 original size:24 final size:24
Alignment explanation
Indices: 7944596--7944642 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
7944586 TTAAAAGATT
*
7944596 ATAAGCCACCAATAGTAGAATGCA
1 ATAAACCACCAATAGTAGAATGCA
7944620 ATAAACCACCAATAGTAGAATGC
1 ATAAACCACCAATAGTAGAATGC
7944643 TTATCCTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (24 bp):
ATAAACCACCAATAGTAGAATGCA
Found at i:7946121 original size:18 final size:17
Alignment explanation
Indices: 7946099--7946136 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7946089 AAAAATATAT
7946099 ATTTTTTAT-AAAAACTA
1 ATTTTTT-TGAAAAACTA
*
7946116 ATTTTTTTGAAAAATTA
1 ATTTTTTTGAAAAACTA
7946133 ATTT
1 ATTT
7946137 ACTTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTTTTTGAAAAACTA
Found at i:7946439 original size:20 final size:20
Alignment explanation
Indices: 7946414--7946453 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
7946404 TTTCTAATAA
7946414 TTTTTTT-GAAATAACT-TAT
1 TTTTTTTGGAAA-AACTATAT
7946433 TTTTTTTGGAAAAACTATAT
1 TTTTTTTGGAAAAACTATAT
7946453 T
1 T
7946454 AAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTTTTGGAAAAACTATAT
Found at i:7949007 original size:34 final size:34
Alignment explanation
Indices: 7948975--7949037 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
7948965 TAAAATTTAA
7948975 ATTTAAAT-TTTTAA-AACTTTTTAATCTTATTT
1 ATTTAAATCTTTTAACAACTTTTTAATCTTATTT
* *
7949007 ATTTTAATCTTTTAACAATTTTTTAATCTTA
1 ATTTAAATCTTTTAACAACTTTTTAATCTTA
7949038 AAGTTAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 7 0.26
33 6 0.22
34 14 0.52
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (34 bp):
ATTTAAATCTTTTAACAACTTTTTAATCTTATTT
Found at i:7955305 original size:19 final size:19
Alignment explanation
Indices: 7955281--7955321 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7955271 TAGATTGATG
7955281 CAAGAAAAATAG-TAAAAAT
1 CAAGAAAAA-AGTTAAAAAT
*
7955300 CAAGAAAAAAGTTAAAAGT
1 CAAGAAAAAAGTTAAAAAT
7955319 CAA
1 CAA
7955322 CCTAAAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.66, C:0.07, G:0.12, T:0.15
Consensus pattern (19 bp):
CAAGAAAAAAGTTAAAAAT
Found at i:7957088 original size:17 final size:18
Alignment explanation
Indices: 7957060--7957098 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7957050 CCCAACCAAA
*
7957060 AATTCTAATTTTGGTTTT
1 AATTCTAATTTTAGTTTT
7957078 AATTC-AATTTTAGTTTT
1 AATTCTAATTTTAGTTTT
7957095 AATT
1 AATT
7957099 TGATTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (18 bp):
AATTCTAATTTTAGTTTT
Found at i:7958474 original size:21 final size:21
Alignment explanation
Indices: 7958449--7958510 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
7958439 ATTAAATAAT
* * *
7958449 TTGCACGATATTTTATTTTAA
1 TTGCAAGATAGTTTATATTAA
7958470 TTGCAAGATAGTTTATATTAA
1 TTGCAAGATAGTTTATATTAA
* *
7958491 TTGTATGATA-TATTATATTA
1 TTGCAAGATAGT-TTATATTA
7958511 TTATTGCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (21 bp):
TTGCAAGATAGTTTATATTAA
Found at i:7959552 original size:21 final size:20
Alignment explanation
Indices: 7959528--7959576 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
7959518 GAGAATCTTT
* *
7959528 AAATTTTAGATGTGAACCTTG
1 AAATTTT-GATGTGAACCATA
7959549 AAATATTTGATGTGAACCATA
1 AAAT-TTTGATGTGAACCATA
7959570 AAATTTT
1 AAATTTT
7959577 CAAATATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (20 bp):
AAATTTTGATGTGAACCATA
Done.