Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 37 of 126
Found at i:7612044 original size:65 final size:64
Alignment explanation
Indices: 7611975--7612169 Score: 284
Period size: 66 Copynumber: 3.0 Consensus size: 64
7611965 CCCAAAAATA
* * * *
7611975 TTTTTTGAAAAGC-TTATTTTCAAGAAAAATTGATACTTTCTACTTTTTCCCAAAAATATTTTTT
1 TTTTTTGGAAA-CTTTAATTTCGAGAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT
7612039 G
64 G
7612040 TTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTT
1 TTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTC-CCAAAAATA-TTTTTT
7612105 G
64 G
* *
7612106 TTTTTTGGAAACTTTAATTTCGAGGAAAATTGATAATTTCAACTTTTCCTCAAAAATATTTTTT
1 TTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTT
7612170 TTTACAGTTC
Statistics
Matches: 120, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
64 6 0.05
65 53 0.44
66 61 0.51
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (64 bp):
TTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTG
Found at i:7615693 original size:14 final size:14
Alignment explanation
Indices: 7615646--7615697 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7615636 TAGAAGCAAC
7615646 TTTTTTTTTGTTTCT
1 TTTTTTTTTGTTT-T
* ***
7615661 GTTTTTTATTGTCCA
1 -TTTTTTTTTGTTTT
7615676 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
7615690 TTTTTTTT
1 TTTTTTTT
7615698 AAATTTGATC
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 18 0.64
16 10 0.36
ACGTcount: A:0.04, C:0.06, G:0.08, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:7615728 original size:131 final size:136
Alignment explanation
Indices: 7615525--7615783 Score: 402
Period size: 131 Copynumber: 1.9 Consensus size: 136
7615515 CTCAACTGAT
* *
7615525 TTTTTTTTTGCCCATTTTTTTTTGCTTCTTTTTTTTTCTTAAAATTTTGATCAAATCTCCTATAA
1 TTTTTTATTGCCCATTTTTTTTTGC-TCTTTTTTTTTCTTAAAATTTTGATCAAAGCTCCTATAA
* *
7615590 GCAGAGGCTCAATGATTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAAGCAACTTTTTTTTT
65 GCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAAGCAACCTTTTTTTT
7615655 GTTTCTG
130 GTTTCTG
* *
7615662 TTTTTTATTGTCCATTTTTTTTTG-T-TTTTTTTTT-TT-AAA-TTTGATCAAAGCTCCTCTAAG
1 TTTTTTATTGCCCATTTTTTTTTGCTCTTTTTTTTTCTTAAAATTTTGATCAAAGCTCCTATAAG
* *
7615722 CAGAGGCTTAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACCTTTTTT
66 CAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAAGCAACCTTTTTT
7615784 ATTATTTTTT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
131 77 0.68
132 3 0.03
133 2 0.02
134 9 0.08
135 1 0.01
137 22 0.19
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.46
Consensus pattern (136 bp):
TTTTTTATTGCCCATTTTTTTTTGCTCTTTTTTTTTCTTAAAATTTTGATCAAAGCTCCTATAAG
CAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAAGCAACCTTTTTTTTG
TTTCTG
Found at i:7615946 original size:43 final size:41
Alignment explanation
Indices: 7615830--7615983 Score: 272
Period size: 41 Copynumber: 3.7 Consensus size: 41
7615820 AGCTCCTCTA
*
7615830 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
*
7615871 ACCACGACTTTGAAAAGTAAATTGCTCTTCTAAACAGAGGC
1 ACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
7615912 ACCACGACTTTGGGAAAAGTAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTT--GAAAAGTAAATTGCTCCTCTAAACAGAGGC
7615955 ACCACGACTTTGAAAAGTAAATTGCTCCT
1 ACCACGACTTTGAAAAGTAAATTGCTCCT
7615984 TGACAATCAT
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
41 68 0.63
43 40 0.37
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
ACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
Found at i:7617205 original size:8 final size:8
Alignment explanation
Indices: 7617202--7617263 Score: 81
Period size: 8 Copynumber: 7.6 Consensus size: 8
7617192 GGTTTTCTTT
7617202 TTTTTTCA
1 TTTTTTCA
7617210 TTTTTTCA
1 TTTTTTCA
7617218 TTTTTTCA
1 TTTTTTCA
*
7617226 TTTTCTCA
1 TTTTTTCA
7617234 TTTTTTCA
1 TTTTTTCA
*
7617242 TTCTTTT-T
1 TT-TTTTCA
7617250 TTTTTCTCA
1 TTTTT-TCA
7617259 TTTTT
1 TTTTT
7617264 CATCCATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
7 3 0.06
8 35 0.74
9 9 0.19
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:7617207 original size:18 final size:19
Alignment explanation
Indices: 7617186--7617223 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7617176 CAAAATCATC
7617186 TTTTCAGGTTTTC-TTTTT
1 TTTTCAGGTTTTCATTTTT
**
7617204 TTTTCATTTTTTCATTTTT
1 TTTTCAGGTTTTCATTTTT
7617223 T
1 T
7617224 CATTTTCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTCAGGTTTTCATTTTT
Found at i:7617266 original size:24 final size:24
Alignment explanation
Indices: 7617194--7617263 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
7617184 TCTTTTCAGG
7617194 TTTTCTTTTTTTT-TCATTTTTTCA
1 TTTT-TTTTTTTTCTCATTTTTTCA
**
7617218 TTTTTTCATTTTCTCATTTTTTCA
1 TTTTTTTTTTTTCTCATTTTTTCA
7617242 TTCTTTTTTTTTTCTCATTTTT
1 TT-TTTTTTTTTTCTCATTTTT
7617264 CATCCATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.15
24 17 0.43
25 17 0.43
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTTTTTTTTCTCATTTTTTCA
Found at i:7621692 original size:60 final size:60
Alignment explanation
Indices: 7621569--7621794 Score: 237
Period size: 60 Copynumber: 3.7 Consensus size: 60
7621559 TTGTGTAGGA
* * **
7621569 AAAATTGATGCTTTCAACTTTTTCC-C-AAAA-ATATTTTTTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATATTTTTTTGAAAATTTATTTTCAAGG
7621627 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAATTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAATTTATTTTCAAGG
* * * *
7621687 AAAATTGATACATTCAACTTTT-CTCCAAAAATATTTGTTTGTTTTTTGGAAACTTTAATTTCGA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATA----TAT-TTTTTT-GAAAATTTATTTTC-A
*
7621751 A-A
58 AGG
* *
7621753 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTT
7621795 TACAGTTCCT
Statistics
Matches: 145, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
57 6 0.04
58 18 0.12
59 6 0.04
60 54 0.37
61 6 0.04
62 3 0.02
64 2 0.01
65 6 0.04
66 41 0.28
67 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAATTTATTTTCAAGG
Found at i:7624974 original size:24 final size:23
Alignment explanation
Indices: 7624947--7624992 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7624937 GAAAAAGAAA
7624947 ATAAATCAAAAAATAAAAAAAATG
1 ATAAAT-AAAAAATAAAAAAAATG
**
7624971 ATAAATATGAAATAAAAAAAAT
1 ATAAATAAAAAATAAAAAAAAT
7624993 CTAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (23 bp):
ATAAATAAAAAATAAAAAAAATG
Found at i:7624999 original size:23 final size:23
Alignment explanation
Indices: 7624955--7625017 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
7624945 AAATAAATCA
*
7624955 AAAAATAAAAAAAAT-GATAAAT
1 AAAAATAAAAAAAATCTATAAAT
*
7624977 ATGAAATAAAAAAAATCTA-AAAT
1 A-AAAATAAAAAAAATCTATAAAT
*
7625000 AAAAATGAATAAAAATCT
1 AAAAAT-AAAAAAAATCT
7625018 CTGCCACTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.15
23 28 0.82
24 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (23 bp):
AAAAATAAAAAAAATCTATAAAT
Found at i:7626437 original size:19 final size:20
Alignment explanation
Indices: 7626410--7626451 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
7626400 TTTGAAAACT
*
7626410 TTCTTCTGTCAAATT-TATC
1 TTCTGCTGTCAAATTGTATC
* *
7626429 TTCTGCTGTGAACTTGTATC
1 TTCTGCTGTCAAATTGTATC
7626449 TTC
1 TTC
7626452 CATGGTCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.50
Consensus pattern (20 bp):
TTCTGCTGTCAAATTGTATC
Found at i:7631565 original size:22 final size:21
Alignment explanation
Indices: 7631532--7631575 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
7631522 AGGATTTATT
*
7631532 TTTAATTTTTATCAAAT-TAA
1 TTTAATTTTTATAAAATATAA
7631552 TTTAATATTATTATAAAATATAA
1 TTTAAT-TT-TTATAAAATATAA
7631575 T
1 T
7631576 AATTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 2 0.10
22 8 0.40
23 4 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTTTTATAAAATATAA
Found at i:7631910 original size:18 final size:19
Alignment explanation
Indices: 7631887--7631922 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7631877 CACCCAATGC
7631887 CCATAGACC-AAACACCAG
1 CCATAGACCTAAACACCAG
*
7631905 CCATAGCCCTAAACACCA
1 CCATAGACCTAAACACCA
7631923 AAAGGCTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.42, G:0.08, T:0.08
Consensus pattern (19 bp):
CCATAGACCTAAACACCAG
Found at i:7632871 original size:25 final size:28
Alignment explanation
Indices: 7632839--7632889 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
7632829 TTATTTTAAT
7632839 AATAATAA-AA-AT-AAAAATAATAAAA
1 AATAATAAGAATATAAAAAATAATAAAA
*
7632864 AATAATAAGAATCTAAAAAATAATAA
1 AATAATAAGAATATAAAAAATAATAA
7632890 GAATTGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 2 0.09
27 1 0.05
28 11 0.50
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (28 bp):
AATAATAAGAATATAAAAAATAATAAAA
Found at i:7632880 original size:18 final size:18
Alignment explanation
Indices: 7632859--7632893 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7632849 ATAAAAATAA
7632859 TAAAAAATAATAAGAATC
1 TAAAAAATAATAAGAATC
7632877 TAAAAAATAATAAGAAT
1 TAAAAAATAATAAGAAT
7632894 TGAATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAAAAATAATAAGAATC
Found at i:7633156 original size:15 final size:15
Alignment explanation
Indices: 7633137--7633221 Score: 84
Period size: 14 Copynumber: 5.7 Consensus size: 15
7633127 TTTACATTTT
*
7633137 TAAAATTCAAAACCT
1 TAAAATTCAAAACCC
*
7633152 TAAAAATCCAAAACCC
1 T-AAAATTCAAAACCC
*
7633168 TAAAA-TCTAAACCC
1 TAAAATTCAAAACCC
* * *
7633182 TTAAATCCAAATCCC
1 TAAAATTCAAAACCC
7633197 T-AAATTCAAAACCC
1 TAAAATTCAAAACCC
*
7633211 TAAAATGCAAA
1 TAAAATTCAAA
7633222 CCCCAAAACT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
14 23 0.41
15 20 0.36
16 13 0.23
ACGTcount: A:0.52, C:0.26, G:0.01, T:0.21
Consensus pattern (15 bp):
TAAAATTCAAAACCC
Found at i:7633163 original size:16 final size:16
Alignment explanation
Indices: 7633138--7633186 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
7633128 TTACATTTTT
*
7633138 AAAATTCAAAACCTTA
1 AAAATCCAAAACCTTA
*
7633154 AAAATCCAAAACCCT-
1 AAAATCCAAAACCTTA
* *
7633169 AAAATCTAAACCCTTA
1 AAAATCCAAAACCTTA
7633185 AA
1 AA
7633187 TCCAAATCCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATCCAAAACCTTA
Found at i:7633181 original size:14 final size:13
Alignment explanation
Indices: 7633162--7633229 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 13
7633152 TAAAAATCCA
7633162 AAACCCTAAAATC
1 AAACCCTAAAATC
*
7633175 TAAACCCTTAAATCC
1 -AAACCCTAAAAT-C
*
7633190 AAATCCCTAAATTC
1 AAA-CCCTAAAATC
7633204 AAAACCCTAAAATGC
1 -AAACCCTAAAAT-C
*
7633219 AAACCCCAAAA
1 AAACCCTAAAA
7633230 CTTTCGAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
14 33 0.73
15 12 0.27
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (13 bp):
AAACCCTAAAATC
Found at i:7633197 original size:29 final size:28
Alignment explanation
Indices: 7633137--7633229 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
7633127 TTTACATTTT
*
7633137 TAAAATTCAAAACCTTAAAAATCCAAAACCC
1 TAAAA-TCAAAACCCT-AAAATCC-AAACCC
* *
7633168 TAAAATCTAAACCCTTAAATCCAAATCCC
1 TAAAATCAAAACCCTAAAATCCAAA-CCC
* *
7633197 TAAATTCAAAACCCTAAAATGCAAACCC
1 TAAAATCAAAACCCTAAAATCCAAACCC
*
7633225 CAAAA
1 TAAAA
7633230 CTTTCGAAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
28 9 0.17
29 30 0.58
30 8 0.15
31 5 0.10
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19
Consensus pattern (28 bp):
TAAAATCAAAACCCTAAAATCCAAACCC
Found at i:7633324 original size:16 final size:16
Alignment explanation
Indices: 7633299--7633356 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
7633289 TTTAGAACCG
*
7633299 AAACCTTAAAATCTCC
1 AAACCCTAAAATCTCC
*
7633315 AAACCCTAAAA--TCA
1 AAACCCTAAAATCTCC
*
7633329 AAACCCT-AAACCTTCC
1 AAACCCTAAAATC-TCC
*
7633345 AAAACCTAAAAT
1 AAACCCTAAAAT
7633357 TCAAGCCCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 3 0.09
14 9 0.27
16 18 0.55
17 3 0.09
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
AAACCCTAAAATCTCC
Found at i:7633346 original size:30 final size:29
Alignment explanation
Indices: 7633312--7633403 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 29
7633302 CCTTAAAATC
7633312 TCCAAACCCTAAAATCAAAACCCTAAACCT
1 TCCAAACCCTAAAATC-AAACCCTAAACCT
* *
7633342 TCCAAAACCTAAAATTCAAGCCCTAAGACCT
1 TCCAAACCCTAAAA-TCAAACCCTAA-ACCT
** * *
7633373 TATAAACCCTAAGAGCAAACCCTAAAACCT
1 TCCAAACCCTAAAATCAAACCCT-AAACCT
7633403 T
1 T
7633404 TAAAACTCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
30 33 0.65
31 18 0.35
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (29 bp):
TCCAAACCCTAAAATCAAACCCTAAACCT
Found at i:7633373 original size:31 final size:30
Alignment explanation
Indices: 7633312--7633427 Score: 87
Period size: 30 Copynumber: 3.9 Consensus size: 30
7633302 CCTTAAAATC
*
7633312 TCCAAACCCTAAAATCAAAACCCTAAACCT
1 TCCAAAACCTAAAATCAAAACCCTAAACCT
*
7633342 TCCAAAACCTAAAATTC-AAGCCCTAAGACCT
1 TCCAAAACCTAAAA-TCAAAACCCTAA-ACCT
** * * *
7633373 TATAAACCCTAAGAGC-AAACCCTAAAACCT
1 TCCAAAACCTAAAATCAAAACCCT-AAACCT
* * *
7633403 T-TAAAA-CTCAAACCAAAACCCTAAA
1 TCCAAAACCTAAAATCAAAACCCTAAA
7633428 ATTTAAATGT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
28 8 0.11
29 11 0.16
30 33 0.47
31 18 0.26
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.17
Consensus pattern (30 bp):
TCCAAAACCTAAAATCAAAACCCTAAACCT
Found at i:7638981 original size:13 final size:13
Alignment explanation
Indices: 7638960--7638991 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7638950 AGAGAAATTG
*
7638960 CTCATCCCTATTT
1 CTCACCCCTATTT
7638973 CTCACCCCTATTT
1 CTCACCCCTATTT
7638986 CTCACC
1 CTCACC
7638992 TTTTGCCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.38
Consensus pattern (13 bp):
CTCACCCCTATTT
Found at i:7639503 original size:21 final size:21
Alignment explanation
Indices: 7639458--7639506 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7639448 AACATTTAAA
* *
7639458 AAAAAAAAAACAAAATAAAAT
1 AAAAAAAAAACAAAACAAAAG
* *
7639479 AAAAAAAAAAGAAAACAAGAG
1 AAAAAAAAAACAAAACAAAAG
7639500 AAAAAAA
1 AAAAAAA
7639507 GTTTTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.86, C:0.04, G:0.06, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACAAAACAAAAG
Found at i:7639503 original size:26 final size:25
Alignment explanation
Indices: 7639455--7639503 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
7639445 TTCAACATTT
*
7639455 AAAAAAAAAAAAACAAAATAAAATA
1 AAAAAAAAAAAAACAAAAGAAAATA
*
7639480 AAAAAAAAAGAAAACAAGAGAAAA
1 AAAAAAAAA-AAAACAAAAGAAAA
7639504 AAAGTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.86, C:0.04, G:0.06, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAAAAACAAAAGAAAATA
Found at i:7640092 original size:13 final size:13
Alignment explanation
Indices: 7640076--7640110 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7640066 TCACAAAAAA
7640076 AAAAAAAAAAATG-
1 AAAAAAAAAAA-GC
7640089 AAAAAAAAAAAGC
1 AAAAAAAAAAAGC
7640102 AAAAAAAAA
1 AAAAAAAAA
7640111 CATCTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.89, C:0.03, G:0.06, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAGC
Found at i:7640517 original size:13 final size:14
Alignment explanation
Indices: 7640499--7640527 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7640489 CTTCAATTAG
7640499 AATTCAAA-AAAAA
1 AATTCAAATAAAAA
7640512 AATTCAAATAAAAA
1 AATTCAAATAAAAA
7640526 AA
1 AA
7640528 GAAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AATTCAAATAAAAA
Found at i:7642099 original size:41 final size:41
Alignment explanation
Indices: 7642028--7642105 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
7642018 TTAAAGTTTT
* *
7642028 AAAGCCTCTGTTTAAGAGGAACCAATTTCAATCAAGATTTC
1 AAAGCCTCAGTTTAAGAGGAACCAATTTCAAACAAGATTTC
*
7642069 AAAGCCTCAGTTT-AGAAGGAACC-TTATTCAAACAAGA
1 AAAGCCTCAGTTTAAG-AGGAACCAAT-TTCAAACAAGA
7642106 CCTTTAGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 3 0.09
41 29 0.91
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (41 bp):
AAAGCCTCAGTTTAAGAGGAACCAATTTCAAACAAGATTTC
Found at i:7642500 original size:22 final size:21
Alignment explanation
Indices: 7642419--7642505 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 21
7642409 ATCGATTCTA
* *
7642419 TAAGAACTCCAGGCATGATTTC
1 TAAG-ACTCTAGGCATAATTTC
* *
7642441 TAAAACCTCTAGGCACAATCTT-
1 TAAGA-CTCTAGGCATAAT-TTC
* * *
7642463 TAAGACTTTCGAGCATGATTTC
1 TAAGACTCTAG-GCATAATTTC
7642485 TAAGATCTCTAGGCATAATTT
1 TAAGA-CTCTAGGCATAATTT
7642506 TGATTCGTGG
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
21 7 0.15
22 35 0.73
23 6 0.12
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (21 bp):
TAAGACTCTAGGCATAATTTC
Found at i:7642654 original size:153 final size:153
Alignment explanation
Indices: 7642310--7642756 Score: 375
Period size: 153 Copynumber: 2.9 Consensus size: 153
7642300 GTCGATTCTG
* * * ** *
7642310 TAAGACCTTTAGG-CATGATTTTTAAGACCTCCAAGCATAATTTCAATTCACGACATTGTTTCGA
1 TAAGA-CTTTTGGACATGATTTTCAAGACCTCCAAGCATAATTTCGATTCACGACATTGTCCCAA
* *
7642374 TCAATTCTTTATTTTCGACTTGCGATGTTGTCTCGATCGATTCTATAAGAACTCCAGGCATGATT
65 TCAATTCTTTATTTTCGACTTACGATGTTGTCTCGATCGATTCTATAAGAACTCCAGGCATAATT
*
7642439 TCTAAAACCTCTAGGCACAATCTT
130 TCTAAAACCTCGAGGCACAATCTT
* * * * * ** **
7642463 TAAGAC-TTTCGAGCATGA-TTTCTAAGATCTCTAGGCATAATTTTGATTCGTGGTATTGTCCCA
1 TAAGACTTTTGGA-CATGATTTTC-AAGACCTCCAAGCATAATTTCGATTCACGACATTGTCCCA
* * * * * * *
7642526 ATCGATTCTTTATTTTTTGACTTATGGTGTTGTCT-GATCGATTCTGTAAGACCTCCGGGCATAA
64 ATCAATTCTTTA-TTTTCGACTTACGATGTTGTCTCGATCGATTCTATAAGAACTCCAGGCATAA
** *
7642590 TTTCTAAAACCTTCGA-GCTTAATTTT
128 TTTCTAAAACC-TCGAGGCACAATCTT
* * * ** **
7642616 TAAGACTTTTGGACATGATTTTCAAGACCTCCGAGCATAATTTCGATTTACAATGTTGTCTTAAT
1 TAAGACTTTTGGACATGATTTTCAAGACCTCCAAGCATAATTTCGATTCACGACATTGTCCCAAT
** * * * * * * * *
7642681 CAATTCTTTATTTTTTAACTTGCGGTATTGTCTTGGTCGATTCTATAAGATCT-CTGAGCATGAT
66 CAATTCTTTA-TTTTCGACTTACGATGTTGTCTCGATCGATTCTATAAGAACTCCAG-GCATAAT
*
7642745 TTCTAAGACCTC
129 TTCTAAAACCTC
7642757 CGGGCATGAT
Statistics
Matches: 232, Mismatches: 53, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
151 3 0.01
152 4 0.02
153 164 0.71
154 61 0.26
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (153 bp):
TAAGACTTTTGGACATGATTTTCAAGACCTCCAAGCATAATTTCGATTCACGACATTGTCCCAAT
CAATTCTTTATTTTCGACTTACGATGTTGTCTCGATCGATTCTATAAGAACTCCAGGCATAATTT
CTAAAACCTCGAGGCACAATCTT
Found at i:7642658 original size:22 final size:22
Alignment explanation
Indices: 7642573--7642658 Score: 59
Period size: 22 Copynumber: 3.9 Consensus size: 22
7642563 TCGATTCTGT
*
7642573 AAGACCTCCGGGCATAA-TTTC
1 AAGACCTCCGAGCATAATTTTC
* * * *
7642594 TAAAACCTTCGAGCTTAATTTTT
1 -AAGACCTCCGAGCATAATTTTC
* ** *
7642617 AAGACTTTTG-GACATGATTTTC
1 AAGACCTCCGAG-CATAATTTTC
7642639 AAGACCTCCGAGCATAATTT
1 AAGACCTCCGAGCATAATTT
7642659 CGATTTACAA
Statistics
Matches: 46, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
21 1 0.02
22 41 0.89
23 4 0.09
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (22 bp):
AAGACCTCCGAGCATAATTTTC
Found at i:7642752 original size:22 final size:22
Alignment explanation
Indices: 7642726--7642777 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
7642716 GTCGATTCTA
*
7642726 TAAGATCTCTGAGCATGATTTC
1 TAAGATCTCCGAGCATGATTTC
* *
7642748 TAAGACCTCCGGGCATGATTTC
1 TAAGATCTCCGAGCATGATTTC
*
7642770 TAAAATCT
1 TAAGATCT
7642778 TCAGGCATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (22 bp):
TAAGATCTCCGAGCATGATTTC
Found at i:7642784 original size:22 final size:22
Alignment explanation
Indices: 7642738--7642790 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7642728 AGATCTCTGA
* *
7642738 GCATGATTTCTAAGACCTCCGG
1 GCATGATTTCTAAAACCTCCAG
* *
7642760 GCATGATTTCTAAAATCTTCAG
1 GCATGATTTCTAAAACCTCCAG
*
7642782 GCATAATTT
1 GCATGATTT
7642791 TGATTTATGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (22 bp):
GCATGATTTCTAAAACCTCCAG
Found at i:7642967 original size:22 final size:22
Alignment explanation
Indices: 7642931--7642995 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
7642921 GTCAATTCTG
* *
7642931 TAAGACCTTCGAGCACAATCTT-
1 TAAGACCTCCAAGCACAAT-TTC
* **
7642953 TAAGACCTCCTAGCATGATTTC
1 TAAGACCTCCAAGCACAATTTC
*
7642975 TAAGACCTCCAAGCATAATTT
1 TAAGACCTCCAAGCACAATTT
7642996 TGAGTCACAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (22 bp):
TAAGACCTCCAAGCACAATTTC
Found at i:7643271 original size:37 final size:37
Alignment explanation
Indices: 7643172--7643286 Score: 108
Period size: 37 Copynumber: 3.1 Consensus size: 37
7643162 TTCGACTCAT
* * *
7643172 GGTGTTGTCCCGATCAATTCTTTA-TTCTTGACTTGC
1 GGTGTTGTCTCGGTTAATTCTTTATTTCTTGACTTGC
** * * **
7643208 AATGTTGTCTCGTTTGATTCCATATTTCTTGACTTGC
1 GGTGTTGTCTCGGTTAATTCTTTATTTCTTGACTTGC
* *
7643245 GGTGTTGT-TCTGGTTAATTCTTTATTTTTTGACTCGC
1 GGTGTTGTCTC-GGTTAATTCTTTATTTCTTGACTTGC
7643282 GGTGT
1 GGTGT
7643287 CATCTCGATC
Statistics
Matches: 61, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
36 18 0.30
37 43 0.70
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (37 bp):
GGTGTTGTCTCGGTTAATTCTTTATTTCTTGACTTGC
Found at i:7643835 original size:18 final size:19
Alignment explanation
Indices: 7643812--7643848 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7643802 CATCTAATGC
7643812 CCATAGA-CCAAACACCAA
1 CCATAGACCCAAACACCAA
*
7643830 CCATAGACCCAGACACCAA
1 CCATAGACCCAAACACCAA
7643849 AAGGCCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.46, C:0.41, G:0.08, T:0.05
Consensus pattern (19 bp):
CCATAGACCCAAACACCAA
Found at i:7644736 original size:13 final size:14
Alignment explanation
Indices: 7644715--7644752 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
7644705 GATTTAGGTA
*
7644715 TTTT-TTTTTTATT
1 TTTTATTTTTTATG
7644728 TTTTATTTTTTA-G
1 TTTTATTTTTTATG
7644741 TTTTATTTTTTA
1 TTTTATTTTTTA
7644753 ATAGTCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (14 bp):
TTTTATTTTTTATG
Found at i:7644744 original size:8 final size:7
Alignment explanation
Indices: 7644715--7644752 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
7644705 GATTTAGGTA
7644715 TTTT-TT
1 TTTTATT
7644721 TTTTATT
1 TTTTATT
7644728 TTTTATT
1 TTTTATT
*
7644735 TTTTA-G
1 TTTTATT
7644741 TTTTATT
1 TTTTATT
7644748 TTTTA
1 TTTTA
7644753 ATAGTCATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 9 0.32
7 19 0.68
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:7644744 original size:20 final size:18
Alignment explanation
Indices: 7644713--7644752 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
7644703 CTGATTTAGG
7644713 TATTTTTTTTTTATTTTT
1 TATTTTTTTTTTATTTTT
7644731 TATTTTTTAGTTTTATTTTT
1 TATTTTTT--TTTTATTTTT
7644751 TA
1 TA
7644753 ATAGTCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TATTTTTTTTTTATTTTT
Found at i:7645158 original size:15 final size:15
Alignment explanation
Indices: 7645138--7645224 Score: 97
Period size: 15 Copynumber: 5.8 Consensus size: 15
7645128 GTTTGCATTT
*
7645138 TTAAAATTCAAAACC
1 TTAAAATCCAAAACC
7645153 TTAAAAATCCAAAACC
1 TT-AAAATCCAAAACC
* *
7645169 CTAAAATCCAAATCC
1 TTAAAATCCAAAACC
7645184 TT-AAATCCAAAACCC
1 TTAAAATCCAAAA-CC
*
7645199 TT-AAATTCAAAACC
1 TTAAAATCCAAAACC
*
7645213 ATAAAATCCAAA
1 TTAAAATCCAAA
7645225 CCCCAAAACT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.20
15 36 0.59
16 13 0.21
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
TTAAAATCCAAAACC
Found at i:7645191 original size:14 final size:14
Alignment explanation
Indices: 7645156--7645232 Score: 73
Period size: 14 Copynumber: 5.3 Consensus size: 14
7645146 CAAAACCTTA
7645156 AAAATCCAAAACCCT
1 AAAATCC-AAACCCT
*
7645171 AAAATCCAAATCCT
1 AAAATCCAAACCCT
*
7645185 TAAATCCAAAACCCTT
1 AAAATCC-AAACCC-T
* * *
7645201 AAATTCAAAACCAT
1 AAAATCCAAACCCT
*
7645215 AAAATCCAAACCCC
1 AAAATCCAAACCCT
7645229 AAAA
1 AAAA
7645233 CTTTTGAAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
14 27 0.55
15 17 0.35
16 5 0.10
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATCCAAACCCT
Found at i:7645198 original size:29 final size:29
Alignment explanation
Indices: 7645139--7645232 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
7645129 TTTGCATTTT
7645139 TAAAATTCAAAACCTTAAAAATCCAAAACCC
1 TAAAATTCAAAACCTT--AAATCCAAAACCC
* *
7645170 TAAAATCCAAATCCTTAAATCCAAAACCC
1 TAAAATTCAAAACCTTAAATCCAAAACCC
* *
7645199 TTAAATTCAAAACCATAAAATCC-AAACCC
1 TAAAATTCAAAACC-TTAAATCCAAAACCC
*
7645228 CAAAA
1 TAAAA
7645233 CTTTTGAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 33 0.61
30 7 0.13
31 14 0.26
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (29 bp):
TAAAATTCAAAACCTTAAATCCAAAACCC
Found at i:7645253 original size:21 final size:22
Alignment explanation
Indices: 7645227--7645269 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7645217 AATCCAAACC
*
7645227 CCAAAACTTTTGAAA-CCTAAA
1 CCAAAAATTTTGAAACCCTAAA
*
7645248 CCAAAAATTTTTAAACCCTAAA
1 CCAAAAATTTTGAAACCCTAAA
7645270 ATCAAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (22 bp):
CCAAAAATTTTGAAACCCTAAA
Found at i:7645279 original size:14 final size:14
Alignment explanation
Indices: 7645260--7645339 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
7645250 AAAAATTTTT
7645260 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
7645274 AAACCCGAAACCTC-
1 AAACCCTAAA-ATCA
** *
7645288 AAACTTTAAAACCA
1 AAACCCTAAAATCA
*
7645302 AAACCCTAAAATCTCC
1 AAACCCTAAAA--TCA
7645318 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
7645332 AAATCCTA
1 AAACCCTA
7645340 GACCTTTCAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
13 1 0.02
14 34 0.69
15 2 0.04
16 12 0.24
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.16
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:7645374 original size:31 final size:30
Alignment explanation
Indices: 7645317--7645374 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7645307 CTAAAATCTC
* *
7645317 CAAACCCTAAAATCAAAATCCTAGACCTTT
1 CAAAACCTAAAATCAAAAGCCTAGACCTTT
7645347 CAAAACCTAAAATTC-AAAGCCTAAGACC
1 CAAAACCTAAAA-TCAAAAGCCT-AGACC
7645375 AAACCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.19
Consensus pattern (30 bp):
CAAAACCTAAAATCAAAAGCCTAGACCTTT
Found at i:7647352 original size:5 final size:5
Alignment explanation
Indices: 7647344--7647371 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7647334 ATAAAAAAGT
7647344 AAACA AAACA AAACA AAACA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAA
7647372 TGAAAACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:7647545 original size:40 final size:40
Alignment explanation
Indices: 7647445--7647629 Score: 185
Period size: 40 Copynumber: 4.7 Consensus size: 40
7647435 AAAAAGAAAA
* *
7647445 AAAGAT-TTCACATTTGCATTATTGCATTTGCATCATAAG
1 AAAGATATTCACATTTGCATAATTACATTTGCATCATAAG
* * *
7647484 AAA-AAATTCATATTTGCATAATTACATTTGCACCATAAG
1 AAAGATATTCACATTTGCATAATTACATTTGCATCATAAG
* * * * * *
7647523 AAAGATGTTCATATTTGCATAATTGCATTTACATCACAAT
1 AAAGATATTCACATTTGCATAATTACATTTGCATCATAAG
* * * * *
7647563 AAAGACATTTACATTTGCATCACTTACATCTGTATCATAAG
1 AAAGATATTCACATTTGCAT-AATTACATTTGCATCATAAG
* *
7647604 AAAAATATTCGCATTTGCATAATTAC
1 AAAGATATTCACATTTGCATAATTAC
7647630 TTTTATACTA
Statistics
Matches: 115, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
38 1 0.01
39 35 0.30
40 50 0.43
41 29 0.25
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (40 bp):
AAAGATATTCACATTTGCATAATTACATTTGCATCATAAG
Found at i:7647621 original size:81 final size:79
Alignment explanation
Indices: 7647451--7647627 Score: 201
Period size: 81 Copynumber: 2.2 Consensus size: 79
7647441 AAAAAAAGAT
* * * * *
7647451 TTCACATTTGCATTATTGCATTTGCATCATAAGAAAAAATTCATATTTGCATAATTACATTTGCA
1 TTCACATTTGCATAATTGCATTTACATCACAAGAAAAAATTCACATTTGCATAATTACATCTGCA
* *
7647516 CCATAAGAAAGATG
66 CCATAAGAAAAATA
* * * * *
7647530 TTCATATTTGCATAATTGCATTTACATCACAATAAAGACATTTACATTTGCATCACTTACATCTG
1 TTCACATTTGCATAATTGCATTTACATCACAAGAAA-AAATTCACATTTGCAT-AATTACATCTG
* *
7647595 TATCATAAGAAAAATA
64 CACCATAAGAAAAATA
*
7647611 TTCGCATTTGCATAATT
1 TTCACATTTGCATAATT
7647628 ACTTTTATAC
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 31 0.39
80 13 0.16
81 36 0.45
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (79 bp):
TTCACATTTGCATAATTGCATTTACATCACAAGAAAAAATTCACATTTGCATAATTACATCTGCA
CCATAAGAAAAATA
Found at i:7647719 original size:26 final size:26
Alignment explanation
Indices: 7647679--7647732 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
7647669 CATCTACATT
* *
7647679 ACAATAAAGAGATTTGCATTTGCATC
1 ACAATAAAAAGATTTACATTTGCATC
*
7647705 ACAATAAAAATATTTACATTTGCATC
1 ACAATAAAAAGATTTACATTTGCATC
7647731 AC
1 AC
7647733 CTGCATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (26 bp):
ACAATAAAAAGATTTACATTTGCATC
Found at i:7647755 original size:67 final size:64
Alignment explanation
Indices: 7647684--7647836 Score: 164
Period size: 67 Copynumber: 2.3 Consensus size: 64
7647674 ACATTACAAT
* *
7647684 AAAGAGATTTGCATTTGCATCACAATAAAAATATTTACATTTGCATCACCTGCATTTACATCATG
1 AAAGAGATTTGCATTTGCATCACAAGAAAAACATTTACATTTGCATCA-CTGCATTTACATCAT-
7647749 AG
64 -G
* * * * ** * *
7647751 AAAGATATTTGCATTTACATCATAAGACAAACATTTTTATTTGCATCATTGCATTTGCATCATG
1 AAAGAGATTTGCATTTGCATCACAAGAAAAACATTTACATTTGCATCACTGCATTTACATCATG
*
7647815 AAAG-GTATTTCCATTTGCATCA
1 AAAGAG-ATTTGCATTTGCATCA
7647837 TTGAAAAAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
64 19 0.26
66 13 0.18
67 40 0.56
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (64 bp):
AAAGAGATTTGCATTTGCATCACAAGAAAAACATTTACATTTGCATCACTGCATTTACATCATG
Found at i:7647792 original size:26 final size:26
Alignment explanation
Indices: 7647734--7647786 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7647724 TTGCATCACC
* *
7647734 TGCATTTACATCATGAGAAAGATATT
1 TGCATTTACATCATAAGAAAGACATT
7647760 TGCATTTACATCATAAGACAA-ACATT
1 TGCATTTACATCATAAGA-AAGACATT
7647786 T
1 T
7647787 TTATTTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (26 bp):
TGCATTTACATCATAAGAAAGACATT
Found at i:7649123 original size:58 final size:57
Alignment explanation
Indices: 7648962--7649167 Score: 143
Period size: 58 Copynumber: 3.6 Consensus size: 57
7648952 AATCACTCAG
* * * * * *
7648962 TGGTGATATTTAAGTTTTCTTCGATGGTAATATCT-AAAATCATTTACATTATCACTTAG
1 TGGTGATATCTAAGTTTTCTTTGGTGGTAATATCTGAAAA-CATTTAGATT-T-TCTTAA
** * **
7649021 TGGTGATATCCGAGTTCTT-TTTGGTGGCAATATAC-GAAGTCATTTAGATTTTCTTAA
1 TGGTGATATCTAAGTT-TTCTTTGGTGGTAATAT-CTGAAAACATTTAGATTTTCTTAA
* * *
7649078 TGGTGATATCTAAGTTTTCATTTGGTGGTGATATCTGAAAACATTT-GCATTTTCTCAG
1 TGGTGATATCTAAGTTTTC-TTTGGTGGTAATATCTGAAAACATTTAG-ATTTTCTTAA
* * * **
7649136 TGATGATATC-GAGTTTCCTTCAGTGGTAATAT
1 TGGTGATATCTAAGTTTTCTTTGGTGGTAATAT
7649168 TCAAAGTCCT
Statistics
Matches: 115, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
56 13 0.11
57 26 0.23
58 38 0.33
59 33 0.29
60 5 0.04
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (57 bp):
TGGTGATATCTAAGTTTTCTTTGGTGGTAATATCTGAAAACATTTAGATTTTCTTAA
Found at i:7649495 original size:43 final size:43
Alignment explanation
Indices: 7649422--7649523 Score: 118
Period size: 43 Copynumber: 2.3 Consensus size: 43
7649412 AAAAGTCCAC
* * *
7649422 TAGGCATCATTCCAAAGTCCTCTGGACATCACAT-CAAAGTTTTTT
1 TAGGCATCATTTC-AAGTCCTCTGGACATCAC-TCCAAAG-CTATT
* *
7649467 TA-GCATCATTTCAAGTCTTCTGGGCATCACTCCAAAGCTATT
1 TAGGCATCATTTCAAGTCCTCTGGACATCACTCCAAAGCTATT
7649509 TAGGCATCATTTCAA
1 TAGGCATCATTTCAA
7649524 AGTTCTCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 6 0.12
43 33 0.66
44 9 0.18
45 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (43 bp):
TAGGCATCATTTCAAGTCCTCTGGACATCACTCCAAAGCTATT
Found at i:7649524 original size:22 final size:22
Alignment explanation
Indices: 7649422--7649526 Score: 65
Period size: 22 Copynumber: 4.8 Consensus size: 22
7649412 AAAAGTCCAC
* * *
7649422 TAGGCATCATTCCAAAGTCCTC
1 TAGGCATCATTTCAAAGTCTTT
** *
7649444 T-GGACATCACATCAAAGTTTTTT
1 TAGG-CATCATTTCAAAG-TCTTT
*
7649467 TA-GCATCATTTC-AAGTCTTC
1 TAGGCATCATTTCAAAGTCTTT
* * *
7649487 TGGGCATCACTCCAAAG-CTATT
1 TAGGCATCATTTCAAAGTCT-TT
7649509 TAGGCATCATTTCAAAGT
1 TAGGCATCATTTCAAAGT
7649527 TCTCTAAGTA
Statistics
Matches: 59, Mismatches: 17, Indels: 13
0.66 0.19 0.15
Matches are distributed among these distances:
20 4 0.07
21 15 0.25
22 36 0.61
23 4 0.07
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (22 bp):
TAGGCATCATTTCAAAGTCTTT
Found at i:7649740 original size:35 final size:35
Alignment explanation
Indices: 7649701--7649911 Score: 177
Period size: 35 Copynumber: 6.2 Consensus size: 35
7649691 TTATTTAAAA
* * * *
7649701 GAGTTTATTCAACGTTTCATGGCCTCTGGTTATAG
1 GAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAG
* * *
7649736 GAGTTTATTTAAAGTCTCATAGCTTTTGGTTATAA
1 GAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAG
* * *
7649771 GAGTTTATTTAAAGTTTCATAACCTCTGGTTAAAG
1 GAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAG
* * * *
7649806 GAG-TT-TTTCAAGTATCATTA-CCTTTGATT-TGAG
1 GAGTTTATTTAAAGTCTCA-TAGCCTCTGGTTAT-AG
*
7649839 GAG-TTATTTAAAGTCTCATAGCCTCTGGTTAAAG
1 GAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAG
* * *
7649873 GAG-TT-TTTAAAATGC-CATAGCCTCTAGTTAGAG
1 GAGTTTATTTAAAGT-CTCATAGCCTCTGGTTATAG
7649906 GAGTTT
1 GAGTTT
7649912 TTCAAGTATC
Statistics
Matches: 143, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
33 52 0.36
34 31 0.22
35 60 0.42
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (35 bp):
GAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAG
Found at i:7649788 original size:70 final size:69
Alignment explanation
Indices: 7649699--7649880 Score: 210
Period size: 70 Copynumber: 2.7 Consensus size: 69
7649689 CTTTATTTAA
* * * * * *
7649699 AAGAGTTTATTCAACGTTTCATGGCCTCTGGTTATAGGAGTTTATTTAAAGTCTCA-TAGCTTTT
1 AAGAGTTTATTTAAAGTTTCATAGCCTCTGGTTAAAGGAGTTT-TTTAAAGTATCATTA-CCTTT
*
7649763 GGTTAT-
64 GATT-TG
* *
7649769 AAGAGTTTATTTAAAGTTTCATAACCTCTGGTTAAAGGAG-TTTTTCAAGTATCATTACCTTTGA
1 AAGAGTTTATTTAAAGTTTCATAGCCTCTGGTTAAAGGAGTTTTTTAAAGTATCATTACCTTTGA
7649833 TTTG
66 TTTG
* *
7649837 AGGAG-TTATTTAAAGTCTCATAGCCTCTGGTTAAAGGAGTTTTT
1 AAGAGTTTATTTAAAGTTTCATAGCCTCTGGTTAAAGGAGTTTTT
7649881 AAAATGCCAT
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
67 33 0.34
68 25 0.26
69 4 0.04
70 35 0.36
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (69 bp):
AAGAGTTTATTTAAAGTTTCATAGCCTCTGGTTAAAGGAGTTTTTTAAAGTATCATTACCTTTGA
TTTG
Found at i:7649907 original size:67 final size:66
Alignment explanation
Indices: 7649717--7649928 Score: 169
Period size: 67 Copynumber: 3.1 Consensus size: 66
7649707 ATTCAACGTT
* * * * * * *
7649717 TCATGGCCTCTGGTTATAGGAGTTTATTTAAA-GTCTCATAGCTTTTGGTTATAAGAGTTTATTT
1 TCATAGCCTCTGGTTAAAGGAGTTT-TTAAAATG-C-CATAGC-CTTAGTTAGAGGAG-TTATTT
*
7649781 AAAGTT
61 AAAGTA
* * * ** * *
7649787 TCATAACCTCTGGTTAAAGGAGTTTTTCAAGTATCATTA-CCTTTGATTTGAGGAGTTATTTAAA
1 TCATAGCCTCTGGTTAAAGGAGTTTTTAAAATGCCA-TAGCCTTAG-TTAGAGGAGTTATTTAAA
*
7649851 GTC
64 GTA
*
7649854 TCATAGCCTCTGGTTAAAGGAGTTTTTAAAATGCCATAGCCTCTAGTTAGAGGAGTT-TTTCAAG
1 TCATAGCCTCTGGTTAAAGGAGTTTTTAAAATGCCATAGCCT-TAGTTAGAGGAGTTATTTAAAG
7649918 TA
65 TA
*
7649920 TCATTGCCT
1 TCATAGCCT
7649929 TTAGTTAGAG
Statistics
Matches: 114, Mismatches: 23, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
66 17 0.15
67 58 0.51
68 11 0.10
69 6 0.05
70 22 0.19
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (66 bp):
TCATAGCCTCTGGTTAAAGGAGTTTTTAAAATGCCATAGCCTTAGTTAGAGGAGTTATTTAAAGT
A
Found at i:7649923 original size:100 final size:103
Alignment explanation
Indices: 7649734--7649930 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 103
7649724 CTCTGGTTAT
* * * ** *
7649734 AGGAGTTTATTTAAAGTCTCATAGCTTTTGGTTATAAGAGTTTATTTAAAGTTTCATAACCTCTG
1 AGGAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAAGAGTTTATTTAAAATGCCATAACCTCTA
7649799 GTTAAAGGAGTTTTTCAAGTATCATTACCTTTGATTTG
66 GTTAAAGGAGTTTTTCAAGTATCATTACCTTTGATTTG
*
7649837 AGGAG-TTATTTAAAGTCTCATAGCCTCTGGTTA-AAGGAG-TT-TTTAAAATGCCATAGCCTCT
1 AGGAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAA-GAGTTTATTTAAAATGCCATAACCTCT
* *
7649898 AGTTAGAGGAGTTTTTCAAGTATCATTGCCTTT
65 AGTTAAAGGAGTTTTTCAAGTATCATTACCTTT
7649931 AGTTAGAGTA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
100 46 0.55
101 4 0.05
102 29 0.35
103 5 0.06
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (103 bp):
AGGAGTTTATTTAAAGTCTCATAGCCTCTGGTTATAAGAGTTTATTTAAAATGCCATAACCTCTA
GTTAAAGGAGTTTTTCAAGTATCATTACCTTTGATTTG
Found at i:7649934 original size:33 final size:33
Alignment explanation
Indices: 7649626--7649938 Score: 160
Period size: 33 Copynumber: 9.3 Consensus size: 33
7649616 ATATCACCTC
* * * * *
7649626 TGGTTAGAGGAATCTTTCAAATACCATTGCCTT
1 TGGTTAGAGGAGTTTTTCAAGTATCATAGCCTT
* * * * * *
7649659 TGTTTATAGGAATTTTTCAAATACCATTGCCTT
1 TGGTTAGAGGAGTTTTTCAAGTATCATAGCCTT
** * * * * *
7649692 TATTTAAAAGAGTTTATTCAACGTTTCATGGCCTC
1 TGGTTAGAGGAGTTT-TTCAA-GTATCATAGCCTT
* * * *
7649727 TGGTTATAGGAGTTTATTTAAAGTCTCATAGCTTT
1 TGGTTAGAGGAG-TT-TTTCAAGTATCATAGCCTT
* * * * * *
7649762 TGGTTATAAGAGTTTATTTAAAGTTTCATAACCTC
1 TGGTTAGAGGAG-TT-TTTCAAGTATCATAGCCTT
*
7649797 TGGTTAAAGGAGTTTTTCAAGTATCATTA-CCTT
1 TGGTTAGAGGAGTTTTTCAAGTATCA-TAGCCTT
* * * * *
7649830 TGATTTGAGGAGTTATTTAAAGTCTCATAGCCTC
1 TGGTTAGAGGAGTT-TTTCAAGTATCATAGCCTT
* * * ** *
7649864 TGGTTAAAGGAGTTTTTAAAATGCCATAGCCTC
1 TGGTTAGAGGAGTTTTTCAAGTATCATAGCCTT
* *
7649897 TAGTTAGAGGAGTTTTTCAAGTATCATTGCCTT
1 TGGTTAGAGGAGTTTTTCAAGTATCATAGCCTT
*
7649930 TAGTTAGAG
1 TGGTTAGAG
7649939 TAACTTTTAA
Statistics
Matches: 222, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
33 117 0.53
34 33 0.15
35 65 0.29
36 6 0.03
37 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (33 bp):
TGGTTAGAGGAGTTTTTCAAGTATCATAGCCTT
Found at i:7649980 original size:100 final size:100
Alignment explanation
Indices: 7649742--7649984 Score: 224
Period size: 100 Copynumber: 2.4 Consensus size: 100
7649732 ATAGGAGTTT
* * * * * * ** *
7649742 ATTTAAAGTCTCATAGCTTTTGGTTATAAGAGTTTATTTAAAGTTTCATAACCTCTGGTTAAAGG
1 ATTTAAAGTCTCAAAGCCTCTGGATAAAAGAG-TT-TTTAAAATGCCATAACCTCTAGTTAAAGG
* *
7649807 AGTTTTTCAAGTATCATTACCTTTGATTTGAGGAGTT
64 AGTTTTTCAAGTATCATTACCTTTGAGTTGAGGAGTA
* * * * *
7649844 ATTTAAAGTCTCATAGCCTCTGGTTAAAGGAGTTTTTAAAATGCCATAGCCTCTAGTTAGAGGAG
1 ATTTAAAGTCTCAAAGCCTCTGGATAAAAGAGTTTTTAAAATGCCATAACCTCTAGTTAAAGGAG
*
7649909 TTTTTCAAGTATCATTGCCTTT-AGTT-A-GAGTA
66 TTTTTCAAGTATCATTACCTTTGAGTTGAGGAGTA
* * * *
7649941 ACTTTTAAA-TTTCAAAAGCCTTTGGATAAAAGACTTTTTTAAAT
1 A--TTTAAAGTCTC-AAAGCCTCTGGATAAAAGAGTTTTTAAAAT
7649985 TAGGCATGAT
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
97 5 0.04
98 4 0.03
99 33 0.28
100 46 0.39
101 2 0.02
102 28 0.24
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (100 bp):
ATTTAAAGTCTCAAAGCCTCTGGATAAAAGAGTTTTTAAAATGCCATAACCTCTAGTTAAAGGAG
TTTTTCAAGTATCATTACCTTTGAGTTGAGGAGTA
Found at i:7650126 original size:33 final size:35
Alignment explanation
Indices: 7650049--7650138 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 35
7650039 TTTTCTCAAA
*
7650049 TGCCATAGCCTCTAGTTAGAGGAGTTTTCTTTAAAAG
1 TGCCATTGCCTCTAGTTAGAGGAG--TTCTTTAAAAG
7650086 TGCCATTGCCTCTAGTTAGAGGAG-T-TTTAAAAG
1 TGCCATTGCCTCTAGTTAGAGGAGTTCTTTAAAAG
7650119 T-CTCATTGCCT-TCAGTTAGA
1 TGC-CATTGCCTCT-AGTTAGA
7650139 AAAGTTTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
32 2 0.04
33 24 0.48
34 1 0.02
37 23 0.46
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (35 bp):
TGCCATTGCCTCTAGTTAGAGGAGTTCTTTAAAAG
Found at i:7650145 original size:33 final size:33
Alignment explanation
Indices: 7650078--7650146 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
7650068 AGGAGTTTTC
**
7650078 TTTAAAAGTGCCATTGCCTCTAGTTAGAGGAGT
1 TTTAAAAGTGCCATTGCCTCTAGTTAGAAAAGT
7650111 TTTAAAAGT-CTCATTGCCT-TCAGTTAGAAAAGT
1 TTTAAAAGTGC-CATTGCCTCT-AGTTAGAAAAGT
7650144 TTT
1 TTT
7650147 TCAAGATCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (33 bp):
TTTAAAAGTGCCATTGCCTCTAGTTAGAAAAGT
Found at i:7650672 original size:3 final size:3
Alignment explanation
Indices: 7650664--7650758 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
7650654 TTTTAAACTT
7650664 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7650712 TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7650759 TTGTCTTTTC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7657449 original size:3 final size:3
Alignment explanation
Indices: 7657441--7657472 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7657431 TTTAAATTGA
*
7657441 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7657473 ATGCTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7657851 original size:94 final size:94
Alignment explanation
Indices: 7657658--7657852 Score: 243
Period size: 96 Copynumber: 2.1 Consensus size: 94
7657648 AGAAATTTTA
* * *
7657658 AATTATGAATTCTACCAAACGATTGGAGAATTTCATAATGATTTTTTTAAAAAGAAATTTTCAAT
1 AATTATAAATTCTACCAAACGATTGAAGAATTTCATAATGA--TATTTAAAAAGAAATTTTCAAT
*
7657723 CCTACCAAAATATTGGAGGATTTAAATCTTG
64 CCTACCAAAATATTGGAGGATTCAAATCTTG
* **
7657754 AATTATAAATTCTACCAAATGATTGAAGAATTTCATAATGA-ATTTAAAAA-AATTATTTTTGAT
1 AATTATAAATTCTACCAAACGATTGAAGAATTTCATAATGATATTTAAAAAGAA--ATTTTCAAT
* *
7657817 CCTAGC-AAATGATTGGTGGATTCAAATCTTG
64 CCTACCAAAAT-ATTGGAGGATTCAAATCTTG
7657848 AATTA
1 AATTA
7657853 AGTACTATCA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
92 2 0.02
93 12 0.14
94 35 0.40
96 38 0.44
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (94 bp):
AATTATAAATTCTACCAAACGATTGAAGAATTTCATAATGATATTTAAAAAGAAATTTTCAATCC
TACCAAAATATTGGAGGATTCAAATCTTG
Found at i:7658909 original size:42 final size:42
Alignment explanation
Indices: 7658862--7658946 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
7658852 CTAGTTTGTG
7658862 ATAGACAATGATGTAAGGAACAATTTGAGAACCCTTAGAATT
1 ATAGACAATGATGTAAGGAACAATTTGAGAACCCTTAGAATT
7658904 ATAGACAATGATGTAAGGAACAATTTGAGAACCCTTAGAATT
1 ATAGACAATGATGTAAGGAACAATTTGAGAACCCTTAGAATT
7658946 A
1 A
7658947 AACTCAAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (42 bp):
ATAGACAATGATGTAAGGAACAATTTGAGAACCCTTAGAATT
Found at i:7670951 original size:12 final size:13
Alignment explanation
Indices: 7670928--7670962 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
7670918 TCTACCTTAA
7670928 AGAAAGAAAATAG
1 AGAAAGAAAATAG
7670941 AGAAA-AAAATAG
1 AGAAAGAAAATAG
*
7670953 AGAGAGAAAA
1 AGAAAGAAAA
7670963 AGAATGCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (13 bp):
AGAAAGAAAATAG
Found at i:7673387 original size:304 final size:302
Alignment explanation
Indices: 7672933--7673538 Score: 926
Period size: 304 Copynumber: 2.0 Consensus size: 302
7672923 CTAAAAAATC
* *
7672933 AACCATTTATAATTTTCTTAGGATTTCATCATTACATAATTGTTATATATTTTCAAACAAATTTA
1 AACCATTTATAATTTTCTTAGGATTTCATCATTACATAATTATCATATATTTTCAAACAAATTTA
* *
7672998 TAAGTTATTTTTTTATTTGATTTGGAAATGAATACAATTACCTTTTTTGAAATTTTTGTTTAAAT
66 TAAGTTATTTTTTTATTTGATTTGGAAATGAATACAATTACCTTTATTGAAAATTTTGTTTAAAT
* * *
7673063 TATTCCACAATTTAGGCTAAATTTAGAAAATTTCTTCACCTAAAGTTTTCTTAGAAAATTGACTA
131 TATTCCACAATTCAGGCTAAATTTAGAAAATTTCTTCACCTAAAGATTTCTTAGAAAATTGACCA
* ** *
7673128 TTTATAATTTCTAAAAATCTCATCATTGAAGAATTGCTATTCATTCCCAAAATTTTATAAAGTTT
196 TTTATAATTTATAAAAATCTCATCATTGAAGAATCACTAATCATTCCCAAAATTTTATAAAGTTT
*
7673193 ATTATTATCATTATTTTACTTTGAAAATAAATACTAATTATT
261 ATAATTATCATTATTTTACTTTGAAAATAAATACTAATTATT
* * * * *
7673235 AACCATTTATGATTTTTTTGGGATTTCATCATTAGATAATTATCATATATTTTCAAACAAATTTG
1 AACCATTTATAATTTTCTTAGGATTTCATCATTACATAATTATCATATATTTTCAAACAAATTTA
*
7673300 TGAGTTATATTTTTTTGATTTGATTTGGAAATGAATACAATTACCTTTATT-AAAATTTTGTTTA
66 TAAG-T-TATTTTTTT-ATTTGATTTGGAAATGAATACAATTACCTTTATTGAAAATTTTGTTTA
* * ** * *
7673364 AATTATTCCACAATTCGGGCTAAATTTAGAGAATTTCTTCATTTAGAGATTTCTTAGAGAATTGA
128 AATTATTCCACAATTCAGGCTAAATTTAGAAAATTTCTTCACCTAAAGATTTCTTAGAAAATTGA
* * *
7673429 CCATTTTTAATTTATAAAAGTCTCATCATTGAAGAATCACTAATCATTCCCAAAGTTTTATAAAG
193 CCATTTATAATTTATAAAAATCTCATCATTGAAGAATCACTAATCATTCCCAAAATTTTATAAAG
*
7673494 TTTATAATTATCATTATTTTTCTTTGAAAATAAATACTAATTATT
258 TTTATAATTATCATTATTTTACTTTGAAAATAAATACTAATTATT
7673539 GTTATTAAAA
Statistics
Matches: 273, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
302 61 0.22
303 1 0.00
304 178 0.65
305 33 0.12
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (302 bp):
AACCATTTATAATTTTCTTAGGATTTCATCATTACATAATTATCATATATTTTCAAACAAATTTA
TAAGTTATTTTTTTATTTGATTTGGAAATGAATACAATTACCTTTATTGAAAATTTTGTTTAAAT
TATTCCACAATTCAGGCTAAATTTAGAAAATTTCTTCACCTAAAGATTTCTTAGAAAATTGACCA
TTTATAATTTATAAAAATCTCATCATTGAAGAATCACTAATCATTCCCAAAATTTTATAAAGTTT
ATAATTATCATTATTTTACTTTGAAAATAAATACTAATTATT
Found at i:7673417 original size:16 final size:17
Alignment explanation
Indices: 7673387--7673418 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7673377 TTCGGGCTAA
7673387 ATTTAGAGAATTTCTTC
1 ATTTAGAGAATTTCTTC
7673404 ATTTAGAG-ATTTCTT
1 ATTTAGAGAATTTCTT
7673419 AGAGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (17 bp):
ATTTAGAGAATTTCTTC
Found at i:7673804 original size:25 final size:26
Alignment explanation
Indices: 7673762--7673818 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
7673752 TTAATCACAC
7673762 AAAATATATTAAATAAATAAATAATA
1 AAAATATATTAAATAAATAAATAATA
*
7673788 AAAAT-TATATAAA-AAATAGATAA-A
1 AAAATATAT-TAAATAAATAAATAATA
7673812 CAAAATA
1 -AAAATA
7673819 AAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 1 0.04
25 17 0.63
26 9 0.33
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAATATATTAAATAAATAAATAATA
Found at i:7675366 original size:21 final size:21
Alignment explanation
Indices: 7675342--7675625 Score: 241
Period size: 21 Copynumber: 13.9 Consensus size: 21
7675332 TAATAACAAG
*
7675342 TATTAATTTAATAATATTAAC
1 TATTAATTTAATAATATTAAA
**
7675363 TATT-ATTTAATAATATTCCA
1 TATTAATTTAATAATATTAAA
7675383 TATTAATTTAATAATATTAAA
1 TATTAATTTAATAATATTAAA
* * *
7675404 TAGTAATTTCATATTATTAAA
1 TATTAATTTAATAATATTAAA
* *
7675425 TTTTAATTTAATAATATTAAC
1 TATTAATTTAATAATATTAAA
* *
7675446 TATT-ATTGAATAACATTAAA
1 TATTAATTTAATAATATTAAA
* *
7675466 TATTAA--T-ATAACAATAAA
1 TATTAATTTAATAATATTAAA
*
7675484 TATTAATTT-AT-GTATTAAA
1 TATTAATTTAATAATATTAAA
*
7675503 T-TTAATTTAA-AATATTGAA
1 TATTAATTTAATAATATTAAA
*
7675522 TATTGATTTAATAATATTAAA
1 TATTAATTTAATAATATTAAA
* * *
7675543 TACTAATATGATAATATTAAA
1 TATTAATTTAATAATATTAAA
* *
7675564 TCTGTAA-TTAATAATATTTTAA
1 TAT-TAATTTAATAATA-TTAAA
* *
7675586 TAAT-ATGTTAATAATATTTTAA
1 TATTAAT-TTAATAATA-TTAAA
7675608 TATT-ATTTAAATAATATT
1 TATTAATTT-AATAATATT
7675626 TTATAGTAAT
Statistics
Matches: 212, Mismatches: 38, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
18 23 0.11
19 14 0.07
20 46 0.22
21 94 0.44
22 35 0.17
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
TATTAATTTAATAATATTAAA
Found at i:7675377 original size:41 final size:40
Alignment explanation
Indices: 7675332--7675624 Score: 147
Period size: 41 Copynumber: 7.2 Consensus size: 40
7675322 AAAATATTAG
*
7675332 TAATAACAAGTATTAATTTAATAATATTAACTATTATTTAA
1 TAATATCAA-TATTAATTTAATAATATTAACTATTATTTAA
* * * *
7675373 TAATATTCCATATTAATTTAATAATATTAAATAGTAATTTCA
1 TAATA-TCAATATTAATTTAATAATATTAACTA-TTATTTAA
* * * *
7675415 TATTATTAAATTTTAATTTAATAATATTAACTATTATTGAA
1 TAATA-TCAATATTAATTTAATAATATTAACTATTATTTAA
* * * *
7675456 TAACATTAAATATTAATATAACAATA--AA-TATTAATTT-A
1 TAATA-TCAATATTAATTTAATAATATTAACTATT-ATTTAA
* *
7675494 T-GTATTAA-ATTTAATTTAA-AATATTGAA-TATTGATTTAA
1 TAATATCAATA-TTAATTTAATAATATT-AACTATT-ATTTAA
* * * * * * *
7675533 TAATATTAAATACTAATATGATAATATTAAATCTGTAATTAA
1 TAATA-TCAATATTAATTTAATAATATTAACTAT-TATTTAA
* *
7675575 TAATATTTTAATAAT-ATGTTAATAATATTTTAA-TATTATTTAAA
1 TAATA--TCAATATTAAT-TTAATAATA--TTAACTATTATTT-AA
7675619 TAATAT
1 TAATAT
7675625 TTTATAGTAA
Statistics
Matches: 196, Mismatches: 37, Indels: 37
0.73 0.14 0.14
Matches are distributed among these distances:
35 5 0.03
36 11 0.06
37 1 0.01
38 16 0.08
39 7 0.04
40 2 0.01
41 64 0.33
42 58 0.30
43 19 0.10
44 9 0.05
45 4 0.02
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (40 bp):
TAATATCAATATTAATTTAATAATATTAACTATTATTTAA
Found at i:7675379 original size:10 final size:10
Alignment explanation
Indices: 7675347--7675442 Score: 50
Period size: 10 Copynumber: 9.3 Consensus size: 10
7675337 ACAAGTATTA
7675347 ATTTAATAAT
1 ATTTAATAAT
*
7675357 A-TTAACTATT
1 ATTTAA-TAAT
7675367 ATTTAATAAT
1 ATTTAATAAT
** *
7675377 ATTCCATATT
1 ATTTAATAAT
7675387 AATTTAATAAT
1 -ATTTAATAAT
* *
7675398 ATTAAATAGT
1 ATTTAATAAT
* *
7675408 AATTTCATATT
1 -ATTTAATAAT
* **
7675419 ATTAAATTTT
1 ATTTAATAAT
7675429 AATTTAATAAT
1 -ATTTAATAAT
7675440 ATT
1 ATT
7675443 AACTATTATT
Statistics
Matches: 62, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
9 4 0.06
10 33 0.53
11 25 0.40
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (10 bp):
ATTTAATAAT
Found at i:7675386 original size:17 final size:19
Alignment explanation
Indices: 7675347--7675401 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
7675337 ACAAGTATTA
*
7675347 ATTTAATAATATTAACTATT
1 ATTTAATAATATT-ACCATT
7675367 ATTTAATAATATT-CCATATT
1 ATTTAATAATATTACC--ATT
7675387 AATTTAATAATATTA
1 -ATTTAATAATATTA
7675402 AATAGTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATAATATTACCATT
Found at i:7675404 original size:83 final size:83
Alignment explanation
Indices: 7675298--7675564 Score: 198
Period size: 83 Copynumber: 3.3 Consensus size: 83
7675288 TTATTATAAA
*
7675298 AAATATTAA-TTAATGAA-AATAAATA-AAATATT-AGTAATAACAAGTATTAATTTAATAATAT
1 AAATATTAATTTAAT-AATAATAAATAGAAAT-TTCA-TAATAACAAATATTAATTTAATAATAT
* *
7675359 TAACTATTATTTAATAATATT
63 TAACTATTATTGAATAACATT
** * * * ** *
7675380 CCATATTAATTTAATAATATTAAATAGTAATTTCATATTATTAAATTTTAATTTAATAATATTAA
1 AAATATTAATTTAATAATAATAAATAGAAATTTCATAATAACAAATATTAATTTAATAATATTAA
7675445 CTATTATTGAATAACATT
66 CTATTATTGAATAACATT
* ** * **
7675463 AAATATTAA--T-ATAACAATAAATATTAATTT-AT-GTATTAAAT-TTAATTTAA-AATATTGA
1 AAATATTAATTTAATAATAATAAATAGAAATTTCATAATAACAAATATTAATTTAATAATATT-A
* *
7675521 A-TATTGATTTAATAATATT
65 ACTATT-ATTGAATAACATT
* * * *
7675540 AAATACTAATATGATAATATTAAAT
1 AAATATTAATTTAATAATAATAAAT
7675565 CTGTAATTAA
Statistics
Matches: 154, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
76 10 0.06
77 30 0.19
78 8 0.05
79 3 0.02
80 27 0.18
81 1 0.01
82 9 0.06
83 62 0.40
84 4 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (83 bp):
AAATATTAATTTAATAATAATAAATAGAAATTTCATAATAACAAATATTAATTTAATAATATTAA
CTATTATTGAATAACATT
Found at i:7675478 original size:18 final size:18
Alignment explanation
Indices: 7675455--7675490 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7675445 CTATTATTGA
*
7675455 ATAACATTAAATATTAAT
1 ATAACAATAAATATTAAT
7675473 ATAACAATAAATATTAAT
1 ATAACAATAAATATTAAT
7675491 TTATGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAACAATAAATATTAAT
Found at i:7675587 original size:11 final size:11
Alignment explanation
Indices: 7675571--7675662 Score: 107
Period size: 11 Copynumber: 8.4 Consensus size: 11
7675561 AAATCTGTAA
7675571 TTAATAATATT
1 TTAATAATATT
*
7675582 TTAATAATATG
1 TTAATAATATT
7675593 TTAATAATATT
1 TTAATAATATT
*
7675604 TTAATATTATT
1 TTAATAATATT
*
7675615 TAAATAATATT
1 TTAATAATATT
*
7675626 TT-ATAGTAATT
1 TTAATAAT-ATT
*
7675637 TT-ATATTATT
1 TTAATAATATT
7675647 TTAATAATATT
1 TTAATAATATT
7675658 CTTAA
1 -TTAA
7675663 ATTAAATGTT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
10 9 0.13
11 56 0.81
12 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (11 bp):
TTAATAATATT
Found at i:7675615 original size:33 final size:33
Alignment explanation
Indices: 7675571--7675657 Score: 115
Period size: 32 Copynumber: 2.7 Consensus size: 33
7675561 AAATCTGTAA
*
7675571 TTAATAATATTTTAATAATATGTTAATAAT-ATT
1 TTAATATTATTTTAATAATAT-TTAATAATAATT
* * *
7675604 TTAATATTATTTAAATAATATTTTATAGTAATT
1 TTAATATTATTTTAATAATATTTAATAATAATT
7675637 TT-ATATTATTTTAATAATATT
1 TTAATATTATTTTAATAATATT
7675658 CTTAAATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 24 0.50
33 24 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (33 bp):
TTAATATTATTTTAATAATATTTAATAATAATT
Found at i:7676396 original size:10 final size:10
Alignment explanation
Indices: 7676334--7676409 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 10
7676324 AGTAATATCT
7676334 TATTATTAAA
1 TATTATTAAA
**
7676344 TATTAATTTGA
1 TATT-ATTAAA
* *
7676355 TAATATTAAC
1 TATTATTAAA
*
7676365 TATTATTTAA
1 TATTATTAAA
* *
7676375 TAATGTTAAA
1 TATTATTAAA
*
7676385 TATTATTGAA
1 TATTATTAAA
**
7676395 TAACATTAAA
1 TATTATTAAA
7676405 TATTA
1 TATTA
7676410 ATATAATAAT
Statistics
Matches: 45, Mismatches: 20, Indels: 2
0.67 0.30 0.03
Matches are distributed among these distances:
10 38 0.84
11 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (10 bp):
TATTATTAAA
Found at i:7676417 original size:41 final size:41
Alignment explanation
Indices: 7676339--7676419 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
7676329 TATCTTATTA
* * *
7676339 TTAAATATTAATTTGATAATATTAACTATTATTTAATAATG
1 TTAAATATTAATTTGATAACATTAAATATTATATAATAATG
7676380 TTAAATATT-A-TTGAATAACATTAAATATTAATATAATAAT
1 TTAAATATTAATTTG-ATAACATTAAATATT-ATATAATAAT
7676420 AAATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 3 0.09
40 14 0.40
41 18 0.51
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (41 bp):
TTAAATATTAATTTGATAACATTAAATATTATATAATAATG
Found at i:7676443 original size:19 final size:18
Alignment explanation
Indices: 7676399--7676452 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
7676389 ATTGAATAAC
* *
7676399 ATTAAATATTAATATAAT
1 ATTAAATTTTAATTTAAT
*
7676417 AATAAATTTTAATTTATAT
1 ATTAAATTTTAATTTA-AT
7676436 ATTAAATTTTAATTTAA
1 ATTAAATTTTAATTTAA
7676453 AAATCTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAAATTTTAATTTAAT
Found at i:7676476 original size:79 final size:79
Alignment explanation
Indices: 7676340--7676499 Score: 191
Period size: 79 Copynumber: 2.0 Consensus size: 79
7676330 ATCTTATTAT
* * *
7676340 TAAATATTAATTTGATAATATTAACTATTATTTAATAATGTTAAATATTATTGAATAACATTAAA
1 TAAATATTAATTTGATAATATTAAATATTATTTAAAAATGCTAAATATTATTGAATAACATTAAA
*
7676405 TATTAATATAATAA
66 TACTAATATAATAA
* * * *
7676419 TAAATTTTAATTT-AT-ATATTAAATTTTAATTTAAAAAT-CTAGAATATTGATTTAATAATATT
1 TAAATATTAATTTGATAATATTAAATATT-ATTTAAAAATGCTA-AATATT-ATTGAATAACATT
*
7676481 AAATACTAATATGATAA
63 AAATACTAATATAATAA
7676498 TA
1 TA
7676500 TTAAATCCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 12 0.17
78 17 0.25
79 40 0.58
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (79 bp):
TAAATATTAATTTGATAATATTAAATATTATTTAAAAATGCTAAATATTATTGAATAACATTAAA
TACTAATATAATAA
Found at i:7676485 original size:21 final size:21
Alignment explanation
Indices: 7676239--7676544 Score: 206
Period size: 21 Copynumber: 14.9 Consensus size: 21
7676229 TAATAAGAGG
* *
7676239 TATTAATTTAA-ATATAATTCAC
1 TATTAATTTAATA-AT-ATTAAA
7676261 TATT-ATTTAATAATATTCAAA
1 TATTAATTTAATAATATT-AAA
* *
7676282 -ATTAATTTAAAAATATTCAA
1 TATTAATTTAATAATATTAAA
**
7676302 TATTAATTTAATGTTATTAAA
1 TATTAATTTAATAATATTAAA
* * ** *
7676323 TAGTAATATCTTATTATTAAA
1 TATTAATTTAATAATATTAAA
* *
7676344 TATTAATTTGATAATATTAAC
1 TATTAATTTAATAATATTAAA
*
7676365 TATT-ATTTAATAATGTTAAA
1 TATTAATTTAATAATATTAAA
* *
7676385 TATT-ATTGAATAACATTAAA
1 TATTAATTTAATAATATTAAA
*
7676405 TATTAA--T-ATAATAATAAA
1 TATTAATTTAATAATATTAAA
*
7676423 TTTTAATTT-AT-ATATTAAA
1 TATTAATTTAATAATATTAAA
*
7676442 TTTTAATTTAA-AA-ATCTAGAA
1 TATTAATTTAATAATAT-TA-AA
*
7676463 TATTGATTTAATAATATTAAA
1 TATTAATTTAATAATATTAAA
* * *
7676484 TACTAATATGATAATATTAAA
1 TATTAATTTAATAATATTAAA
*** *
7676505 TCCAAATTTAATAATATTTTAA
1 TATTAATTTAATAATA-TTAAA
*
7676527 TATT-ATGTAAATAATATT
1 TATTAAT-TTAATAATATT
7676545 TTAATAATAT
Statistics
Matches: 224, Mismatches: 45, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
18 14 0.06
19 18 0.08
20 49 0.22
21 119 0.53
22 22 0.10
23 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (21 bp):
TATTAATTTAATAATATTAAA
Found at i:7676543 original size:14 final size:11
Alignment explanation
Indices: 7676511--7676613 Score: 104
Period size: 11 Copynumber: 9.5 Consensus size: 11
7676501 TAAATCCAAA
7676511 TTTAATAATAT
1 TTTAATAATAT
*
7676522 TTTAATATTAT
1 TTTAATAATAT
* *
7676533 GTAAATAATAT
1 TTTAATAATAT
7676544 TTTAATAATAT
1 TTTAATAATAT
*
7676555 TTAAAT-ATCAT
1 TTTAATAAT-AT
7676566 TTTAATAATAT
1 TTTAATAATAT
*
7676577 TTT-ATAGGTA-
1 TTTAATA-ATAT
*
7676587 TTTAATATTAT
1 TTTAATAATAT
*
7676598 TTTAATAGTAT
1 TTTAATAATAT
7676609 TTTAA
1 TTTAA
7676614 AATTAATTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
10 10 0.13
11 64 0.84
12 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:7676548 original size:33 final size:33
Alignment explanation
Indices: 7676511--7676613 Score: 129
Period size: 33 Copynumber: 3.2 Consensus size: 33
7676501 TAAATCCAAA
* *
7676511 TTTAATAATATTTTAATATTATGTAAATAATAT
1 TTTAATAATATTTTAATATTATTTTAATAATAT
* *
7676544 TTTAATAATATTTAAATATCATTTTAATAATAT
1 TTTAATAATATTTTAATATTATTTTAATAATAT
* *
7676577 TTT-ATAGGTA-TTTAATATTATTTTAATAGTAT
1 TTTAATA-ATATTTTAATATTATTTTAATAATAT
7676609 TTTAA
1 TTTAA
7676614 AATTAATTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 25 0.42
33 35 0.58
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (33 bp):
TTTAATAATATTTTAATATTATTTTAATAATAT
Found at i:7676946 original size:20 final size:20
Alignment explanation
Indices: 7676879--7676955 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
7676869 TGTTATTTGA
*
7676879 TAATATTTCAATATTA-TTT
1 TAATATTTTAATATTATTTT
* **
7676898 T-A-ATTTTAAAATTAATTGAG
1 TAATATTTTAATATT-ATT-TT
* *
7676918 TAATGTTTTACTATTATTTT
1 TAATATTTTAATATTATTTT
7676938 TAATATTTTAATATTATT
1 TAATATTTTAATATTATT
7676956 GGTCATGAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 9
0.68 0.18 0.15
Matches are distributed among these distances:
17 9 0.21
18 2 0.05
19 2 0.05
20 17 0.40
21 4 0.10
22 8 0.19
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (20 bp):
TAATATTTTAATATTATTTT
Found at i:7676955 original size:11 final size:11
Alignment explanation
Indices: 7676760--7676901 Score: 63
Period size: 11 Copynumber: 13.8 Consensus size: 11
7676750 ACTTGGATAA
*
7676760 TATTTCAATAT
1 TATTTTAATAT
*
7676771 TATTTTAATAA
1 TATTTTAATAT
* *
7676782 AATTTTAATCT
1 TATTTTAATAT
*
7676793 TATATTAATGA-
1 TATTTTAAT-AT
7676804 TA-TTT--TA-
1 TATTTTAATAT
*
7676811 -ATTTTCATAT
1 TATTTTAATAT
7676821 TATTTTAATAT
1 TATTTTAATAT
* * *
7676832 TACTTGAGTAT
1 TATTTTAATAT
7676843 TA----AATAT
1 TATTTTAATAT
*
7676850 TAATTTAATAT
1 TATTTTAATAT
* *
7676861 TATTTTCATGT
1 TATTTTAATAT
* *
7676872 TA-TTTGATAA
1 TATTTTAATAT
*
7676882 TATTTCAATAT
1 TATTTTAATAT
7676893 TATTTTAAT
1 TATTTTAAT
7676902 TTTAAAATTA
Statistics
Matches: 96, Mismatches: 24, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
6 1 0.01
7 10 0.10
8 1 0.01
9 2 0.02
10 9 0.09
11 73 0.76
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (11 bp):
TATTTTAATAT
Found at i:7677136 original size:11 final size:10
Alignment explanation
Indices: 7677113--7677143 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
7677103 AAGAATAGTT
7677113 TAATATTTAA
1 TAATATTTAA
7677123 TAATATTATAA
1 TAATATT-TAA
7677134 TAATATTTAA
1 TAATATTTAA
7677144 ATATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATATTTAA
Found at i:7677139 original size:21 final size:20
Alignment explanation
Indices: 7677113--7677167 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
7677103 AAGAATAGTT
7677113 TAATATTTAATAATATTATAA
1 TAATATTTAATAATATTA-AA
7677134 TAATATTT-A-AATATTAAA
1 TAATATTTAATAATATTAAA
* *
7677152 TATTAACTTAATAATA
1 TAAT-ATTTAATAATA
7677168 CTAATCTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 2 0.07
21 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATTTAATAATATTAAA
Found at i:7677141 original size:59 final size:59
Alignment explanation
Indices: 7677005--7677141 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 59
7676995 TATGATTTTG
* * * * * * * *
7677005 ATAAGATTTTAATAATA-TTTTCTTATAAAATATTAATATTATAATATTTTATTTTTTA
1 ATAATATTATAATAATATTTTTATTATAAAATATTAATATAAGAATAGTTTAATATTTA
* ** *
7677063 ATAATATTGTAATGTTATTTTTATTATGAAATATTAAT-TGAAGAATAGTTTAATATTTA
1 ATAATATTATAATAATATTTTTATTATAAAATATTAATAT-AAGAATAGTTTAATATTTA
7677122 ATAATATTATAATAATATTT
1 ATAATATTATAATAATATTT
7677142 AAATATTAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
58 14 0.22
59 49 0.78
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (59 bp):
ATAATATTATAATAATATTTTTATTATAAAATATTAATATAAGAATAGTTTAATATTTA
Found at i:7677420 original size:30 final size:28
Alignment explanation
Indices: 7677386--7677442 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
7677376 TGAAATATTA
* *
7677386 AAAATATTTATATTTAATAATATACAAAAT
1 AAAATATTTAAAATTAA-AATAT-CAAAAT
*
7677416 AAAATTTTTAAAATTAAAATATCAAAA
1 AAAATATTTAAAATTAAAATATCAAAA
7677443 GACTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 5 0.21
30 14 0.58
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATATTTAAAATTAAAATATCAAAAT
Found at i:7677617 original size:23 final size:24
Alignment explanation
Indices: 7677571--7677616 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7677561 TTTATTTAAG
7677571 TAAAACTATAAAAATATTTAAAAT
1 TAAAACTATAAAAATATTTAAAAT
*
7677595 TAAAA-TATTAAAATACTTTAAA
1 TAAAACTATAAAAATA-TTTAAA
7677617 TATTGATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAACTATAAAAATATTTAAAAT
Found at i:7678329 original size:45 final size:45
Alignment explanation
Indices: 7678278--7678371 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
7678268 AGCTTTAGCC
*
7678278 TTTTGTAAAACAATTATAATACCATTTAAGTCTTACCTGACACTA
1 TTTTGTAAAACAATTATAATACCACTTAAGTCTTACCTGACACTA
* * * *
7678323 TTTTGTAGAACAATTATAATACTACTTAGGTCTTACGTGACACTA
1 TTTTGTAAAACAATTATAATACCACTTAAGTCTTACCTGACACTA
7678368 TTTT
1 TTTT
7678372 AACTCTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (45 bp):
TTTTGTAAAACAATTATAATACCACTTAAGTCTTACCTGACACTA
Found at i:7680830 original size:20 final size:21
Alignment explanation
Indices: 7680805--7680847 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
7680795 GTAGGAAGTT
7680805 AAACAAAGAGGTGA-TAAAAC
1 AAACAAAGAGGTGATTAAAAC
7680825 AAACAAAGAGGTGATTAAAAC
1 AAACAAAGAGGTGATTAAAAC
7680846 AA
1 AA
7680848 CTATAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.60, C:0.09, G:0.19, T:0.12
Consensus pattern (21 bp):
AAACAAAGAGGTGATTAAAAC
Found at i:7681807 original size:32 final size:33
Alignment explanation
Indices: 7681771--7681844 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
7681761 AGGTTTGGGG
* *
7681771 TAGGTTTAGG-ATTTAA-GTTAGGGTTTAAGGTT
1 TAGGTTTAGGTA-CTAAGGTTAGGGTTTAAGGAT
*
7681803 TAGGTTTAGGTACTAAGGTTAGGGTTTAGGGAT
1 TAGGTTTAGGTACTAAGGTTAGGGTTTAAGGAT
7681836 T-GGTTTAGG
1 TAGGTTTAGG
7681845 GGTTAGGGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 21 0.57
33 16 0.43
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (33 bp):
TAGGTTTAGGTACTAAGGTTAGGGTTTAAGGAT
Found at i:7681843 original size:19 final size:18
Alignment explanation
Indices: 7681821--7681892 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
7681811 GGTACTAAGG
7681821 TTAGGGTTTAGGGATTGGT
1 TTAGGGTTTAGGG-TTGGT
* *
7681840 TTAGGGGTTAGGGTTTGT
1 TTAGGGTTTAGGGTTGGT
* *
7681858 GTTATGGTTTCGGGCTTGGT
1 -TTAGGGTTTAGGG-TTGGT
**
7681878 TTAGTATTTAGGGTT
1 TTAGGGTTTAGGGTT
7681893 TCAAGCTTGG
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 6 0.15
19 31 0.76
20 4 0.10
ACGTcount: A:0.12, C:0.03, G:0.39, T:0.46
Consensus pattern (18 bp):
TTAGGGTTTAGGGTTGGT
Found at i:7681889 original size:38 final size:38
Alignment explanation
Indices: 7681820--7681893 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
7681810 AGGTACTAAG
*
7681820 GTTAGGGTTTAGGGATTGGTTTAGGGGTTAGGGTTTGT
1 GTTAGGGTTTAGGGATTGGTTTAGGAGTTAGGGTTTGT
* * * * *
7681858 GTTATGGTTTCGGGCTTGGTTTAGTATTTAGGGTTT
1 GTTAGGGTTTAGGGATTGGTTTAGGAGTTAGGGTTT
7681894 CAAGCTTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.12, C:0.03, G:0.39, T:0.46
Consensus pattern (38 bp):
GTTAGGGTTTAGGGATTGGTTTAGGAGTTAGGGTTTGT
Found at i:7681978 original size:19 final size:19
Alignment explanation
Indices: 7681956--7682002 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
7681946 CATGGGTGTT
7681956 TTAAGGTTTGGCTTT-AGGG
1 TTAAGGTTTGG-TTTAAGGG
* * *
7681975 TTAAAGATTGGTTTAAGGT
1 TTAAGGTTTGGTTTAAGGG
7681994 TTAAGGTTT
1 TTAAGGTTT
7682003 CATGGGTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (19 bp):
TTAAGGTTTGGTTTAAGGG
Found at i:7682053 original size:19 final size:19
Alignment explanation
Indices: 7682031--7682078 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
7682021 TGGAAGGTGG
* *
7682031 TTTAGAGTTTTATGGATGC
1 TTTAGGGTTTTATCGATGC
* *
7682050 TTTAGGGTGTTATCGATGG
1 TTTAGGGTTTTATCGATGC
7682069 TTTAGGGTTT
1 TTTAGGGTTT
7682079 AGATTTGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.31, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTTTATCGATGC
Found at i:7682206 original size:49 final size:48
Alignment explanation
Indices: 7682129--7682273 Score: 209
Period size: 49 Copynumber: 3.0 Consensus size: 48
7682119 TTTGACAAAA
* * *
7682129 GCAAATAACAAAAATACCATTGGTAAAAATGTAACTATTGATGCATGT
1 GCAAATAACAAAAATGCCATTGGCAAAAATGTAAATATTGATGCATGT
7682177 GGCAAATAACAAAAATGCCATTGGCAAAAATGTAAATATTGATGCATGT
1 -GCAAATAACAAAAATGCCATTGGCAAAAATGTAAATATTGATGCATGT
* * * *
7682226 GAAGAATAATAAAAATGCTATTGGCAAAAATATAAATATTGATGCATG
1 GCA-AATAACAAAAATGCCATTGGCAAAAATGTAAATATTGATGCATG
7682274 AAGAATGCAT
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
48 2 0.02
49 86 0.98
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (48 bp):
GCAAATAACAAAAATGCCATTGGCAAAAATGTAAATATTGATGCATGT
Found at i:7682270 original size:27 final size:26
Alignment explanation
Indices: 7682146--7682272 Score: 69
Period size: 22 Copynumber: 5.1 Consensus size: 26
7682136 ACAAAAATAC
* * *
7682146 CATTGGTAAAAATGTAACTATTGATG
1 CATTGGCAAAAATATAAATATTGATG
* *
7682172 CATGTGGCAAATAACA-AAA-A-TG--C
1 CAT-TGGCAAA-AATATAAATATTGATG
*
7682195 CATTGGCAAAAATGTAAATATTGATG
1 CATTGGCAAAAATATAAATATTGATG
*
7682221 CA-TGTG-AAGAATAATAAA-A---ATG
1 CATTG-GCAAAAAT-ATAAATATTGATG
7682243 CTATTGGCAAAAATATAAATATTGATG
1 C-ATTGGCAAAAATATAAATATTGATG
7682270 CAT
1 CAT
7682273 GAAGAATGCA
Statistics
Matches: 74, Mismatches: 11, Indels: 32
0.63 0.09 0.27
Matches are distributed among these distances:
21 2 0.03
22 14 0.19
23 11 0.15
24 10 0.14
25 10 0.14
26 13 0.18
27 12 0.16
28 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.28
Consensus pattern (26 bp):
CATTGGCAAAAATATAAATATTGATG
Found at i:7683772 original size:144 final size:143
Alignment explanation
Indices: 7683618--7683921 Score: 339
Period size: 143 Copynumber: 2.1 Consensus size: 143
7683608 CTACCTTGCG
* * * *
7683618 AAGGTCAAATTATGAAATTA-CCCTTAAAAGGTATTTTAGTAATTTCT-CACCTCTTGATGTGCT
1 AAGGTCAAATTATAAAATTATACC-TAAAAGGTATTTTAGTAATTT-TACACCTCTCGAGGTG-T
* * * *
7683681 GT-CAAGATTTGTAATGTACTAAAAATCATTAAATAATTTAAAAACATGACTTGA-AATGTTTTG
63 -TACAAGATTTGTAATGCACCAAAAATCATT-AATAACTTAAAAACATGA-TTGAGAATGTTTCG
7683744 TG-AAAAATCAACTTCGAA
125 TGAAAAAATCAACTTCGAA
* * ** * *
7683762 AAGGTAAAATTACAAAATTATACCTAAGGGGTATTTTAGTAATTTTATACTTCTCGAGGTGTTAC
1 AAGGTCAAATTATAAAATTATACCTAAAAGGTATTTTAGTAATTTTACACCTCTCGAGGTGTTAC
* * * *
7683827 AAGGTTTTTAATGCACCAAAAATTATTAATAACTTAAAAACATGATTTAGAATGTTTCGTGAAAA
66 AAGATTTGTAATGCACCAAAAATCATTAATAACTTAAAAACATGATTGAGAATGTTTCGTGAAAA
*
7683892 AATCGACTTCGAA
131 AATCAACTTCGAA
*
7683905 AAAGTCAAATTATAAAA
1 AAGGTCAAATTATAAAA
7683922 ATATCTTTAA
Statistics
Matches: 133, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
141 3 0.02
142 28 0.21
143 54 0.41
144 46 0.35
145 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (143 bp):
AAGGTCAAATTATAAAATTATACCTAAAAGGTATTTTAGTAATTTTACACCTCTCGAGGTGTTAC
AAGATTTGTAATGCACCAAAAATCATTAATAACTTAAAAACATGATTGAGAATGTTTCGTGAAAA
AATCAACTTCGAA
Found at i:7683942 original size:142 final size:143
Alignment explanation
Indices: 7683683--7683948 Score: 306
Period size: 143 Copynumber: 1.9 Consensus size: 143
7683673 GATGTGCTGT
* * * *
7683683 CAAGATTTGTAATGTACTAAAAATCATTAAATAATTTAAAAACATGACTTGAAATGTTTTGTGAA
1 CAAGATTTGTAATGCACCAAAAATCATTAAATAACTTAAAAACATGACTTGAAATGTTTCGTGAA
* * ****
7683748 AAATCAACTTCGAAAAGGTAAAATTACAAAATTATACCTAAGGGGTATTTTAGTAATTTTATACT
66 AAATCAACTTCGAAAAAGTAAAATTACAAAAATATACCTAAGAAAAATTTTAGTAATTTTATACT
7683813 TCTCGAGGTGTTA
131 TCTCGAGGTGTTA
* * * *
7683826 CAAGGTTTTTAATGCACCAAAAATTATT-AATAACTTAAAAACATGA-TTTAGAATGTTTCGTGA
1 CAAGATTTGTAATGCACCAAAAATCATTAAATAACTTAAAAACATGACTTGA-AATGTTTCGTG-
* * * * *
7683889 AAAAATCGACTTCGAAAAAGTCAAATTATAAAAATAT-CTTTAA-AAAAATTTTAGTGATTT
64 AAAAATCAACTTCGAAAAAGTAAAATTACAAAAATATAC-CTAAGAAAAATTTTAGTAATTT
7683949 CACACCTTCT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
141 3 0.03
142 40 0.40
143 58 0.57
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (143 bp):
CAAGATTTGTAATGCACCAAAAATCATTAAATAACTTAAAAACATGACTTGAAATGTTTCGTGAA
AAATCAACTTCGAAAAAGTAAAATTACAAAAATATACCTAAGAAAAATTTTAGTAATTTTATACT
TCTCGAGGTGTTA
Found at i:7683958 original size:143 final size:143
Alignment explanation
Indices: 7683650--7683958 Score: 304
Period size: 143 Copynumber: 2.2 Consensus size: 143
7683640 CTTAAAAGGT
* * * * * *
7683650 ATTTTAGTAATTTCTCACCTCTTGATGTGCTGT-CAAGATTTGTAATGTACTAAAAATCATTAAA
1 ATTTTAGTAATTTCACACTTCTCGAGGTG-T-TACAAGATTTGTAATGCACCAAAAATCATTAAA
* * *
7683714 TAATTTAAAAACATGACTTGAAATGTTTTGTGAAAAATCAACTTCGAAAAGGTAAAATTACAAAA
64 TAACTTAAAAACATGACTTGAAATGTTTCGTGAAAAATCAACTTCGAAAAAGTAAAATTACAAAA
* ****
7683779 TTATACCTAAGGGGT
129 ATATACCTAAGAAAA
* * * * *
7683794 ATTTTAGTAATTTTATACTTCTCGAGGTGTTACAAGGTTTTTAATGCACCAAAAATTATT-AATA
1 ATTTTAGTAATTTCACACTTCTCGAGGTGTTACAAGATTTGTAATGCACCAAAAATCATTAAATA
* * * *
7683858 ACTTAAAAACATGA-TTTAGAATGTTTCGTGAAAAAATCGACTTCGAAAAAGTCAAATTATAAAA
66 ACTTAAAAACATGACTTGA-AATGTTTCGTG-AAAAATCAACTTCGAAAAAGTAAAATTACAAAA
*
7683922 ATAT-CTTTAA-AAAA
129 ATATAC-CTAAGAAAA
*
7683936 ATTTTAGTGATTTCACACCTTCT
1 ATTTTAGTAATTTCACA-CTTCT
7683959 AAAGCACGAT
Statistics
Matches: 133, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
141 3 0.02
142 43 0.32
143 64 0.48
144 23 0.17
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (143 bp):
ATTTTAGTAATTTCACACTTCTCGAGGTGTTACAAGATTTGTAATGCACCAAAAATCATTAAATA
ACTTAAAAACATGACTTGAAATGTTTCGTGAAAAATCAACTTCGAAAAAGTAAAATTACAAAAAT
ATACCTAAGAAAA
Found at i:7694209 original size:13 final size:12
Alignment explanation
Indices: 7694184--7694217 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
7694174 TACCTTAGCC
7694184 AAACTATAAAGA
1 AAACTATAAAGA
7694196 AAACTATGAAAGA
1 AAACTAT-AAAGA
7694209 AAACTATAA
1 AAACTATAA
7694218 GAATTGCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (12 bp):
AAACTATAAAGA
Found at i:7699547 original size:32 final size:32
Alignment explanation
Indices: 7699497--7699559 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
7699487 TTAAACAAAA
* * *
7699497 TTTATTTATTTATTTATTATATAATAATAAAG
1 TTTAGTTATTAATGTATTATATAATAATAAAG
7699529 TTTAGTTATTAATGTATTATATAATAATAAA
1 TTTAGTTATTAATGTATTATATAATAATAAA
7699560 AAATCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
TTTAGTTATTAATGTATTATATAATAATAAAG
Found at i:7703351 original size:14 final size:14
Alignment explanation
Indices: 7703318--7703353 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7703308 TTTATCATAT
7703318 TAAAAATAATTTAA
1 TAAAAATAATTTAA
7703332 -ATAAAATAATTTAA
1 TA-AAAATAATTTAA
7703346 TAAAAATA
1 TAAAAATA
7703354 TTCAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 18 0.90
15 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAATAATTTAA
Found at i:7704098 original size:13 final size:13
Alignment explanation
Indices: 7704058--7704099 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
7704048 CAAAATAATG
7704058 AAATATTTTTA-A
1 AAATATTTTTATA
*
7704070 AAATATTTAATATA
1 AAATATTT-TTATA
7704084 AAATATTTTTATA
1 AAATATTTTTATA
7704097 AAA
1 AAA
7704100 AAATAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 9 0.35
14 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATATTTTTATA
Found at i:7709846 original size:20 final size:20
Alignment explanation
Indices: 7709818--7709866 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
7709808 ATTAAATAAA
* *
7709818 TATATATAAACAAATATATT
1 TATAAATAAACAAACATATT
* *
7709838 TATAAATAAATACACATATT
1 TATAAATAAACAAACATATT
7709858 TATAAATAA
1 TATAAATAA
7709867 TAAATAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAATAAACAAACATATT
Found at i:7709902 original size:29 final size:25
Alignment explanation
Indices: 7709840--7709925 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
7709830 AATATATTTA
* *
7709840 TAAATAAATACACATATT-TATAAATAA
1 TAAATAAATA-A-ATATTAAATAAAT-T
* *
7709867 TAAATAAAT-TATAATCAAATAAATT
1 TAAATAAATAAAT-ATTAAATAAATT
*
7709892 TAAATAAATAAATCTTAAATAAATT
1 TAAATAAATAAATATTAAATAAATT
7709917 TAAATAAAT
1 TAAATAAAT
7709926 TTTAAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 2 0.04
25 30 0.61
26 8 0.16
27 9 0.18
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATAAATAAATATTAAATAAATT
Found at i:7709909 original size:15 final size:14
Alignment explanation
Indices: 7709865--7709915 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 14
7709855 ATTTATAAAT
7709865 AATAAATAAA-TTA
1 AATAAATAAATTTA
7709878 TAATCAAATAAATTTA
1 -AAT-AAATAAATTTA
7709894 AATAAATAAATCTTA
1 AATAAATAAAT-TTA
7709909 AATAAAT
1 AATAAAT
7709916 TTAAATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.32
15 20 0.59
16 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAATAAATTTA
Found at i:7709911 original size:25 final size:24
Alignment explanation
Indices: 7709867--7709925 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 24
7709857 TTATAAATAA
7709867 TAAATAAATTATAATCAAATAAATT
1 TAAATAAA-TATAATCAAATAAATT
7709892 TAAATAAATA-AATCTTAAATAAATT
1 TAAATAAATATAATC--AAATAAATT
7709917 TAAATAAAT
1 TAAATAAAT
7709926 TTTAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 26 0.81
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAATAAATATAATCAAATAAATT
Found at i:7709929 original size:11 final size:11
Alignment explanation
Indices: 7709896--7709947 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
7709886 TAAATTTAAA
*
7709896 TAAATAAATCT
1 TAAATAAATTT
7709907 TAAATAAA-TT
1 TAAATAAATTT
7709917 TAAATAAATTT
1 TAAATAAATTT
*
7709928 TAAAATAAAATT
1 T-AAATAAATTT
*
7709940 AAAATAAA
1 TAAATAAA
7709948 AGATAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 9 0.25
11 18 0.50
12 9 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAATAAATTT
Found at i:7711160 original size:11 final size:10
Alignment explanation
Indices: 7711146--7711191 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
7711136 TTGTTAAAAA
7711146 ATTTTTAATTT
1 ATTTTT-ATTT
7711157 ATTTTTATTT
1 ATTTTTATTT
7711167 A--TTTATTT
1 ATTTTTATTT
*
7711175 ATTATTATTTT
1 ATTTTTA-TTT
7711186 ATTTTT
1 ATTTTT
7711192 TATCTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 8 0.27
10 8 0.27
11 14 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:7711167 original size:15 final size:15
Alignment explanation
Indices: 7711149--7711191 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
7711139 TTAAAAAATT
7711149 TTTAATTTATTTTTA
1 TTTAATTTATTTTTA
7711164 TTT-ATTTATTTATTA
1 TTTAATTTATTT-TTA
*
7711179 -TTATTTTATTTTT
1 TTTAATTTATTTTT
7711192 TATCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTAATTTATTTTTA
Found at i:7711170 original size:14 final size:13
Alignment explanation
Indices: 7711153--7711191 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
7711143 AAAATTTTTA
7711153 ATTTATTTTTATTT
1 ATTTATTTTTA-TT
7711167 ATTTATTTATTATT
1 ATTTATTT-TTATT
7711181 ATTTTATTTTT
1 A-TTTATTTTT
7711192 TATCTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTATTTTTATT
Found at i:7711176 original size:18 final size:18
Alignment explanation
Indices: 7711153--7711200 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7711143 AAAATTTTTA
7711153 ATTTATTTTTATTTATTT
1 ATTTATTTTTATTTATTT
*
7711171 ATTTATTATTATTTTATTT
1 ATTTATTTTTA-TTTATTT
*
7711190 -TTTATCTTTAT
1 ATTTATTTTTAT
7711201 ATATCTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 18 0.69
19 7 0.27
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTATTTTTATTTATTT
Found at i:7715200 original size:21 final size:20
Alignment explanation
Indices: 7715166--7715215 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
7715156 TAAAATTTTT
* * *
7715166 TAAAAAATTCAAAACAATTC
1 TAAAAATTTCAAAAAAATTA
7715186 TAAAAATTTCAAAAAAAATTA
1 TAAAAATTTC-AAAAAAATTA
7715207 TAACAAATT
1 TAA-AAATT
7715216 CCTTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.36
21 11 0.44
22 5 0.20
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAATTTCAAAAAAATTA
Found at i:7715201 original size:30 final size:30
Alignment explanation
Indices: 7715102--7715202 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 30
7715092 ATACAGCTAA
*
7715102 AAAAATTT-AAAAAATTCAAAA-ATA-T-T
1 AAAAATTTAAAAAAATTCAAAACAGATTCT
* ** *
7715128 -ACAATTTAAAAAAATTCTCAATAGATTCT
1 AAAAATTTAAAAAAATTCAAAACAGATTCT
* *
7715157 AAAATTTTTTAAAAAATTCAAAACA-ATTCT
1 AAAA-ATTTAAAAAAATTCAAAACAGATTCT
7715187 AAAAATTTCAAAAAAA
1 AAAAATTT-AAAAAAA
7715203 ATTATAACAA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
25 6 0.11
26 11 0.20
27 2 0.04
28 1 0.02
29 4 0.07
30 17 0.30
31 15 0.27
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.32
Consensus pattern (30 bp):
AAAAATTTAAAAAAATTCAAAACAGATTCT
Found at i:7715300 original size:37 final size:34
Alignment explanation
Indices: 7715251--7715348 Score: 106
Period size: 37 Copynumber: 2.7 Consensus size: 34
7715241 AAGTTTTAAA
*
7715251 AAAATTTTAAAATTTATAAAAATTTGACAATATG
1 AAAATTTTAAAAATTATAAAAATTTGACAATATG
* * *
7715285 AAATATTTGTAAAAATTATAAAAAATTATGATAATTTT
1 AAA-ATTT-TAAAAATTAT-AAAAATT-TGACAATATG
*
7715323 AAAATTTTAAAAAATTATGAAAATTT
1 AAAATTTT-AAAAATTATAAAAATTT
7715349 TAACAAAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
34 3 0.06
35 5 0.09
36 16 0.30
37 20 0.37
38 10 0.19
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (34 bp):
AAAATTTTAAAAATTATAAAAATTTGACAATATG
Done.