Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 100 of 129
Found at i:18143269 original size:24 final size:23
Alignment explanation
Indices: 18143234--18143288 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
18143224 TTTTTATTGC
*
18143234 ATGATAATATTGCATGGTTTAATT
1 ATGAT-ATATTGCATGATTTAATT
*
18143258 ATGATATGATTGCATGATTTGATT
1 ATGATAT-ATTGCATGATTTAATT
18143282 ATGATAT
1 ATGATAT
18143289 TCTTGATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (23 bp):
ATGATATATTGCATGATTTAATT
Found at i:18144790 original size:19 final size:19
Alignment explanation
Indices: 18144766--18144870 Score: 106
Period size: 19 Copynumber: 5.5 Consensus size: 19
18144756 TTTCAAATTC
18144766 CAAACCCTAAACCACCCTA
1 CAAACCCTAAACCACCCTA
* *
18144785 CAAACCATAAACCATCC-A
1 CAAACCCTAAACCACCCTA
18144803 TCAAACCCTAAACCACCC-A
1 -CAAACCCTAAACCACCCTA
* * *
18144822 TGAAACCCTAAACCACCATC
1 -CAAACCCTAAACCACCCTA
* * *
18144842 CAAACCCTAAATCACCATC
1 CAAACCCTAAACCACCCTA
18144861 CAAACCCTAA
1 CAAACCCTAA
18144871 CCTTGACCCC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
18 1 0.01
19 74 0.99
ACGTcount: A:0.44, C:0.43, G:0.01, T:0.12
Consensus pattern (19 bp):
CAAACCCTAAACCACCCTA
Found at i:18144867 original size:38 final size:38
Alignment explanation
Indices: 18144764--18144870 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
18144754 AATTTCAAAT
* *
18144764 TCCAAACCCTAAACCACCCTACAAACCATAAACCATCCA
1 TCCAAACCCTAAACCACCAT-CAAACCCTAAACCATCCA
*
18144803 T-CAAACCCTAAACCACCCATGAAACCCTAAACCA-CCA
1 TCCAAACCCTAAACCA-CCATCAAACCCTAAACCATCCA
*
18144840 TCCAAACCCTAAATCACCATCCAAACCCTAA
1 TCCAAACCCTAAACCACCAT-CAAACCCTAA
18144871 CCTTGACCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
37 8 0.13
38 48 0.80
39 4 0.07
ACGTcount: A:0.43, C:0.43, G:0.01, T:0.13
Consensus pattern (38 bp):
TCCAAACCCTAAACCACCATCAAACCCTAAACCATCCA
Found at i:18144885 original size:57 final size:55
Alignment explanation
Indices: 18144765--18144870 Score: 133
Period size: 57 Copynumber: 1.9 Consensus size: 55
18144755 ATTTCAAATT
*
18144765 CCAAACCCTAAACCACCCTACAAACCATAAACCATCCATCAAACCCTAAACCACC
1 CCAAACCCTAAACCACCATACAAACCATAAACCATCCATCAAACCCTAAACCACC
* * * *
18144820 CATGAAACCCTAAACCACCATCCAAACCCTAAATCA-CCATCCAAACCCTAA
1 C--CAAACCCTAAACCACCATACAAACCATAAACCATCCAT-CAAACCCTAA
18144871 CCTTGACCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
55 1 0.02
56 4 0.09
57 38 0.88
ACGTcount: A:0.43, C:0.43, G:0.01, T:0.12
Consensus pattern (55 bp):
CCAAACCCTAAACCACCATACAAACCATAAACCATCCATCAAACCCTAAACCACC
Found at i:18145870 original size:7 final size:8
Alignment explanation
Indices: 18145853--18145879 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18145843 AAGTGATAAG
18145853 AAAAAGAA
1 AAAAAGAA
18145861 AAAAAGAA
1 AAAAAGAA
18145869 AAAAAGAA
1 AAAAAGAA
18145877 AAA
1 AAA
18145880 TTGATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:18145927 original size:20 final size:20
Alignment explanation
Indices: 18145902--18145973 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
18145892 TATAGTTTAG
18145902 TTGCATGATTATTTATTTGT
1 TTGCATGATTATTTATTTGT
* * *
18145922 TTGCATGATTAATAATTTAT
1 TTGCATGATTATTTATTTGT
*
18145942 TTGTATGATTGATACTT-TTTG-
1 TTGCATGATT-AT--TTATTTGT
18145963 TTGCATGATTA
1 TTGCATGATTA
18145974 ATATTATTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
20 27 0.66
21 10 0.24
22 3 0.07
23 1 0.02
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (20 bp):
TTGCATGATTATTTATTTGT
Found at i:18145983 original size:17 final size:17
Alignment explanation
Indices: 18145963--18146004 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
18145953 ATACTTTTTG
18145963 TTGCATGATTAATATTA
1 TTGCATGATTAATATTA
18145980 TTGCATGATTAATATTA
1 TTGCATGATTAATATTA
18145997 TTGCATGA
1 TTGCATGA
18146005 CTACATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (17 bp):
TTGCATGATTAATATTA
Found at i:18146075 original size:24 final size:23
Alignment explanation
Indices: 18146040--18146094 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
18146030 TTTTTATTGC
**
18146040 ATGATAATATTGCATTGTTTAATT
1 ATGAT-ATATTGCATAATTTAATT
* *
18146064 ATGATATGATTGTATAATTTGATT
1 ATGATAT-ATTGCATAATTTAATT
18146088 ATGATAT
1 ATGATAT
18146095 TCTTGATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.49
Consensus pattern (23 bp):
ATGATATATTGCATAATTTAATT
Found at i:18146081 original size:19 final size:19
Alignment explanation
Indices: 18146053--18146092 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18146043 ATAATATTGC
*
18146053 ATTGTTTAATTATGA-TATG
1 ATTGTATAATT-TGATTATG
18146072 ATTGTATAATTTGATTATG
1 ATTGTATAATTTGATTATG
18146091 AT
1 AT
18146093 ATTCTTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
ATTGTATAATTTGATTATG
Found at i:18151291 original size:1 final size:1
Alignment explanation
Indices: 18151285--18151323 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
18151275 CCTCATACTT
18151285 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18151324 CTCATCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18155664 original size:19 final size:21
Alignment explanation
Indices: 18155627--18155668 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
18155617 AATTAATTAA
18155627 TTAATTCTTATTGTGATTATT
1 TTAATTCTTATTGTGATTATT
*
18155648 TTAATT-TT-TTGTTATTATT
1 TTAATTCTTATTGTGATTATT
18155667 TT
1 TT
18155669 TTGTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTAATTCTTATTGTGATTATT
Found at i:18155669 original size:13 final size:14
Alignment explanation
Indices: 18155649--18155683 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18155639 GTGATTATTT
18155649 TAATTTTTTG-TTA
1 TAATTTTTTGTTTA
*
18155662 TTATTTTTTGTTTA
1 TAATTTTTTGTTTA
18155676 TAATTTTT
1 TAATTTTT
18155684 ATCTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
TAATTTTTTGTTTA
Found at i:18155867 original size:24 final size:24
Alignment explanation
Indices: 18155839--18155886 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
18155829 TCCATTATCA
18155839 TTATTATTAT-TTTTTATATTGTTT
1 TTATT-TTATATTTTTATATTGTTT
*
18155863 TTATTTTTTATTTTTATATTGTTT
1 TTATTTTATATTTTTATATTGTTT
18155887 AAATAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (24 bp):
TTATTTTATATTTTTATATTGTTT
Found at i:18157399 original size:3 final size:3
Alignment explanation
Indices: 18157393--18157427 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18157383 TTATTTTTCT
18157393 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18157428 TATGTTAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18157795 original size:40 final size:39
Alignment explanation
Indices: 18157744--18157852 Score: 157
Period size: 40 Copynumber: 2.7 Consensus size: 39
18157734 TCATAGCTGA
*
18157744 AGGCAATGAAACTTTAAATTTAAAAGTTTCCTCTGACCAG
1 AGGCGATGAAACTTTAAATTTAAAAGTTT-CTCTGACCAG
* *
18157784 ATGCTG-TGAAACTTTAAATTTAAAATGTTTCTCTGATCAG
1 AGGC-GATGAAACTTTAAATTTAAAA-GTTTCTCTGACCAG
18157824 AGGCGATGAAACTTTAAATTTAAAAGTTT
1 AGGCGATGAAACTTTAAATTTAAAAGTTT
18157853 AAGAGGATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
39 5 0.08
40 53 0.85
41 4 0.06
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (39 bp):
AGGCGATGAAACTTTAAATTTAAAAGTTTCTCTGACCAG
Found at i:18157985 original size:34 final size:34
Alignment explanation
Indices: 18157911--18158082 Score: 157
Period size: 34 Copynumber: 4.9 Consensus size: 34
18157901 TTTAATGGAG
* * * * **
18157911 TCCTCTAACTAAAGGCTTTTAAA-TTTAAAAAGC
1 TCCTCTGACCAAAGGCTATGAAACTTTAAATGGC
* *
18157944 TCTTCTGACCAAAAGCTATGAAACTTTAAATGGC
1 TCCTCTGACCAAAGGCTATGAAACTTTAAATGGC
* * *
18157978 TCCTCTGACCAAAGGTTATGACACTTTAAATTTACAAAGC
1 TCCTCTGACCAAAGGCTATGAAACTTTAAA--T----GGC
*
18158018 TCCTCTGACCAAAGGCAATGAAACTTTAAATGGC
1 TCCTCTGACCAAAGGCTATGAAACTTTAAATGGC
* *
18158052 TCATCTAACCAAAGGCTATGAAACTTTAAAT
1 TCCTCTGACCAAAGGCTATGAAACTTTAAAT
18158083 TTAAAAAGCT
Statistics
Matches: 112, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
33 17 0.15
34 64 0.57
36 1 0.01
38 1 0.01
40 29 0.26
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (34 bp):
TCCTCTGACCAAAGGCTATGAAACTTTAAATGGC
Found at i:18158019 original size:74 final size:74
Alignment explanation
Indices: 18157928--18158122 Score: 268
Period size: 74 Copynumber: 2.6 Consensus size: 74
18157918 ACTAAAGGCT
* *
18157928 TTTAAATTTAAAAAGCTCTTCTGACCAAAAGCTATGAAACTTTAAATGGCTCCTCTGACCAAAGG
1 TTTAAATTTAAAAAGCTCTTCTGACCAAAAGCTATGAAACTTTAAATGGCTCATCTAACCAAAGG
* *
18157993 TTATGACAC
66 CTATGAAAC
* * * *
18158002 TTTAAATTTACAAAGCTCCTCTGACCAAAGGCAATGAAACTTTAAATGGCTCATCTAACCAAAGG
1 TTTAAATTTAAAAAGCTCTTCTGACCAAAAGCTATGAAACTTTAAATGGCTCATCTAACCAAAGG
18158067 CTATGAAAC
66 CTATGAAAC
* *
18158076 TTTAAATTTAAAAAGCTCATT-TGACC-AGAGATAATGAAACTTTAAAT
1 TTTAAATTTAAAAAGCTC-TTCTGACCAAAAGCT-ATGAAACTTTAAAT
18158123 TTAAATGTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
73 2 0.02
74 102 0.97
75 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (74 bp):
TTTAAATTTAAAAAGCTCTTCTGACCAAAAGCTATGAAACTTTAAATGGCTCATCTAACCAAAGG
CTATGAAAC
Found at i:18158031 original size:40 final size:39
Alignment explanation
Indices: 18157928--18158127 Score: 170
Period size: 40 Copynumber: 5.3 Consensus size: 39
18157918 ACTAAAGGCT
* *
18157928 TTTAAATTTAAAAAGCTCTTCTGACCAAAAGCTATGAAAC
1 TTTAAATTT-AAAAGCTCATCTGACCAAAGGCTATGAAAC
* * * *
18157968 TTTAAA--T---GGCTCCTCTGACCAAAGGTTATGACAC
1 TTTAAATTTAAAAGCTCATCTGACCAAAGGCTATGAAAC
* *
18158002 TTTAAATTTACAAAGCTCCTCTGACCAAAGGCAATGAAAC
1 TTTAAATTTA-AAAGCTCATCTGACCAAAGGCTATGAAAC
* *
18158042 TTTAAA--T---GGCTCATCTAACCAAAGGCTATGAAAC
1 TTTAAATTTAAAAGCTCATCTGACCAAAGGCTATGAAAC
* * *
18158076 TTTAAATTTAAAAAGCTCATTTGACCAGA-GATAATGAAAC
1 TTTAAATTT-AAAAGCTCATCTGACCAAAGGCT-ATGAAAC
18158116 TTTAAATTTAAA
1 TTTAAATTTAAA
18158128 TGTTTGAAAG
Statistics
Matches: 129, Mismatches: 18, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
34 57 0.44
36 2 0.02
38 2 0.02
39 5 0.04
40 63 0.49
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (39 bp):
TTTAAATTTAAAAGCTCATCTGACCAAAGGCTATGAAAC
Found at i:18167826 original size:8 final size:8
Alignment explanation
Indices: 18167813--18167838 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18167803 CGCACGTATG
18167813 ATGCATGA
1 ATGCATGA
18167821 ATGCATGA
1 ATGCATGA
18167829 ATGCATGA
1 ATGCATGA
18167837 AT
1 AT
18167839 ATAAATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (8 bp):
ATGCATGA
Found at i:18171290 original size:20 final size:21
Alignment explanation
Indices: 18171252--18171293 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18171242 AATTAATGAA
18171252 TTAATTATTATTGTGATTATT
1 TTAATTATTATTGTGATTATT
* *
18171273 TTAATT-TTTTTGTTATTATT
1 TTAATTATTATTGTGATTATT
18171293 T
1 T
18171294 ACTATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
TTAATTATTATTGTGATTATT
Found at i:18171688 original size:17 final size:17
Alignment explanation
Indices: 18171657--18171699 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
18171647 CTTAAATAAT
*
18171657 TTATCATTTCCTTTTTA
1 TTATTATTTCCTTTTTA
18171674 TT-TTATTTACCTTTTTA
1 TTATTATTT-CCTTTTTA
18171691 TTATTATTT
1 TTATTATTT
18171700 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 12 0.52
18 6 0.26
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTTCCTTTTTA
Found at i:18171973 original size:11 final size:11
Alignment explanation
Indices: 18171959--18172041 Score: 51
Period size: 11 Copynumber: 7.1 Consensus size: 11
18171949 ATAATATGAT
18171959 ATAAATAAAAA
1 ATAAATAAAAA
*
18171970 ATAAACAAAAA
1 ATAAATAAAAA
* *
18171981 ATAACTTAAAA
1 ATAAATAAAAA
* * *
18171992 ATCAACACAAA
1 ATAAATAAAAA
18172003 ATAAATCAAATCAAA
1 ATAAAT--AA--AAA
18172018 ATCAAATCAAAAA
1 AT-AAAT-AAAAA
18172031 ATAAA-AAAAA
1 ATAAATAAAAA
18172041 A
1 A
18172042 AAGAAAAACC
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
10 6 0.11
11 28 0.52
12 3 0.06
13 6 0.11
15 7 0.13
16 4 0.07
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:18172010 original size:15 final size:16
Alignment explanation
Indices: 18171990--18172028 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
18171980 AATAACTTAA
18171990 AAATCAACA-CAAAAT-
1 AAATCAA-ATCAAAATC
18172005 AAATCAAATCAAAATC
1 AAATCAAATCAAAATC
18172021 AAATCAAA
1 AAATCAAA
18172029 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATCAAATCAAAATC
Found at i:18172952 original size:8 final size:7
Alignment explanation
Indices: 18172935--18172981 Score: 55
Period size: 6 Copynumber: 6.9 Consensus size: 7
18172925 CTTTTTTTCT
18172935 TTATTT-
1 TTATTTA
18172941 TTATTTA
1 TTATTTA
18172948 CTTATTTA
1 -TTATTTA
18172956 TTATTTTA
1 TTA-TTTA
18172964 TTA-TTA
1 TTATTTA
18172970 TTA-TTA
1 TTATTTA
18172976 TTATTT
1 TTATTT
18172982 TGTGTGGACC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 18 0.49
7 5 0.14
8 14 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:18179411 original size:73 final size:72
Alignment explanation
Indices: 18179334--18179515 Score: 188
Period size: 73 Copynumber: 2.5 Consensus size: 72
18179324 AAAAACAATC
* * * *
18179334 GATCCGTT-CAAAATGTGATTGATCAGTTTTTCTT-ATAGAATGGTCTTGAATTTAAAAGTGGTA
1 GATCCATTACAAAATG-GATTGATCAGTTTTTCTTAATAAAAT-GTCTCGAATTTAAAACTGG-A
18179397 AAAATGGATT
63 AAAATGGATT
* ** *
18179407 GATCCATTATAAAATGGATTGATGGGTTTTTCTTAGATAAAATGTCTCGAATTTAAAACTGGCAA
1 GATCCATTACAAAATGGATTGATCAGTTTTTCTTA-ATAAAATGTCTCGAATTTAAAACTGGAAA
18179472 AATGGATT
65 AATGGATT
* * * **
18179480 GATCCACTATAAGAATGGATTAATTGGTTTTTCTTA
1 GATCCATTACAA-AATGGATTGATCAGTTTTTCTTA
18179516 TAGAAACAAC
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
73 44 0.47
74 44 0.47
75 6 0.06
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (72 bp):
GATCCATTACAAAATGGATTGATCAGTTTTTCTTAATAAAATGTCTCGAATTTAAAACTGGAAAA
ATGGATT
Found at i:18179512 original size:74 final size:74
Alignment explanation
Indices: 18179359--18179515 Score: 212
Period size: 74 Copynumber: 2.1 Consensus size: 74
18179349 TGATTGATCA
* * * *
18179359 GTTTTTCTT-ATAGAATGGTCTTGAATTTAAAAGTGGTAAAAATGGATTGATCCATTATAAAATG
1 GTTTTTCTTAATAAAATGGTCTCGAATTTAAAACTGGTAAAAATGGATTGATCCACTATAAAATG
*
18179423 GATTGATGG
66 GATTAATGG
*
18179432 GTTTTTCTTAGATAAAAT-GTCTCGAATTTAAAACTGG-CAAAATGGATTGATCCACTATAAGAA
1 GTTTTTCTTA-ATAAAATGGTCTCGAATTTAAAACTGGTAAAAATGGATTGATCCACTATAA-AA
*
18179495 TGGATTAATTG
64 TGGATTAATGG
18179506 GTTTTTCTTA
1 GTTTTTCTTA
18179516 TAGAAACAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
73 30 0.41
74 38 0.51
75 6 0.08
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (74 bp):
GTTTTTCTTAATAAAATGGTCTCGAATTTAAAACTGGTAAAAATGGATTGATCCACTATAAAATG
GATTAATGG
Found at i:18179547 original size:73 final size:73
Alignment explanation
Indices: 18179381--18179551 Score: 177
Period size: 73 Copynumber: 2.3 Consensus size: 73
18179371 GAATGGTCTT
* * * *
18179381 GAATTTAAAAGTGGTAAAAATGGATTGATCCATTATAAAATGGATTGATGGGTTTTTCTTAGATA
1 GAATTTAAAACTGGCAAAAATGGATTGATCCACTATAAAATGGATTAATGGGTTTTTCTTA-ATA
*** *
18179446 AAATGTCTC
65 AAACAACAC
*
18179455 GAATTTAAAACTGGC-AAAATGGATTGATCCACTATAAGAATGGATTAATTGGTTTTTCTT-ATA
1 GAATTTAAAACTGGCAAAAATGGATTGATCCACTATAA-AATGGATTAATGGGTTTTTCTTAATA
18179518 GAAACAACAC
65 -AAACAACAC
** * *
18179528 TTA-TTCAAATTGGCAAAAATGGAT
1 GAATTTAAAACTGGCAAAAATGGAT
18179552 CGATAGGTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
72 12 0.15
73 36 0.44
74 33 0.41
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (73 bp):
GAATTTAAAACTGGCAAAAATGGATTGATCCACTATAAAATGGATTAATGGGTTTTTCTTAATAA
AACAACAC
Found at i:18183637 original size:34 final size:34
Alignment explanation
Indices: 18183583--18183651 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
18183573 CCAAAAGGGG
* *
18183583 GAACACATATTGATCTAAAACAAAGAATTGAGGT
1 GAACACATATCGATCAAAAACAAAGAATTGAGGT
*
18183617 GAACATATATCGATCAAAAACAAAGAATTGAGGT
1 GAACACATATCGATCAAAAACAAAGAATTGAGGT
18183651 G
1 G
18183652 GAGTTAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.22
Consensus pattern (34 bp):
GAACACATATCGATCAAAAACAAAGAATTGAGGT
Found at i:18191166 original size:12 final size:12
Alignment explanation
Indices: 18191151--18191175 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18191141 AATATTTTTC
18191151 TAAATTTGATTT
1 TAAATTTGATTT
18191163 TAAATTTGATTT
1 TAAATTTGATTT
18191175 T
1 T
18191176 TGGCAAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TAAATTTGATTT
Found at i:18205285 original size:14 final size:14
Alignment explanation
Indices: 18205266--18205300 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
18205256 GTTTGGCATG
18205266 TTTTGCTCGTTTTA
1 TTTTGCTCGTTTTA
18205280 TTTTGCTCGTTTTA
1 TTTTGCTCGTTTTA
18205294 TTTTGCT
1 TTTTGCT
18205301 TCTTTAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.14, G:0.14, T:0.66
Consensus pattern (14 bp):
TTTTGCTCGTTTTA
Found at i:18215351 original size:144 final size:142
Alignment explanation
Indices: 18214993--18215379 Score: 370
Period size: 144 Copynumber: 2.7 Consensus size: 142
18214983 CATCGTGAAG
* * * * *
18214993 GTCAAATTACGAAATTAACCCTTAAGGGCATTTTAGTAGTTTCACACCTTTTG-AGATGTGATCA
1 GTCAAATTACGAAA--AACCCTTAAGGGTATTTTAGTAATTTCACACATTCTGAAGA-GTAATCA
* * * *
18215057 AAGTTTTTAATGCACCAAAAATTATCAAATAATATGAGAACATGATCAAAATCGTTTAGTAAAAA
63 AAGTTTTTAATGCACTAAAAATTATAAAATAATATGAAAACATGATCAAAATCGTTTAGCAAAAA
* ** * *
18215122 ATTGACCTTGGGAAG
128 AGTGACCTCAGAAAA
* * * * * *
18215137 GTCAAATTACAAAAATACCCCTTAAGGGTATATTAGTAATTTCACACATTCAGAGGTGCAATCAA
1 GTCAAATTACGAAAA-A-CCCTTAAGGGTATTTTAGTAATTTCACACATTCTGAAGAGTAATCAA
* * ** *
18215202 AGTTTTTAATGCACTAAAAATTGTGAAATAATATGAAAACCATGATCTGGAGT-GTTTTA-CAAA
64 AGTTTTTAATGCACTAAAAATTATAAAATAATATGAAAA-CATGATC-AAAATCG-TTTAGCAAA
*
18215265 AAAGTGATCTCAGAAAA
126 AAAGTGACCTCAGAAAA
* *
18215282 GTCAAATTATGAAAAACTCCTTAAGGGTATTTTATTAATTTCACACATTCTGAAGAGTAAT-AAA
1 GTCAAATTACGAAAAAC-CCTTAAGGGTATTTTAGTAATTTCACACATTCTGAAGAGTAATCAAA
* *
18215346 GGTTTTTTCATGC-CTCAAAATTATAAAATAATAT
65 -G-TTTTTAATGCACTAAAAATTATAAAATAATAT
18215380 TTAAATTTGA
Statistics
Matches: 197, Mismatches: 37, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
142 1 0.01
143 5 0.03
144 140 0.71
145 45 0.23
146 6 0.03
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (142 bp):
GTCAAATTACGAAAAACCCTTAAGGGTATTTTAGTAATTTCACACATTCTGAAGAGTAATCAAAG
TTTTTAATGCACTAAAAATTATAAAATAATATGAAAACATGATCAAAATCGTTTAGCAAAAAAGT
GACCTCAGAAAA
Found at i:18215883 original size:7 final size:7
Alignment explanation
Indices: 18215867--18215930 Score: 67
Period size: 7 Copynumber: 9.0 Consensus size: 7
18215857 AGGTTTTTGC
*
18215867 TTGTTGT
1 TTGTTTT
18215874 TTGTTTT
1 TTGTTTT
18215881 TTGTTTT
1 TTGTTTT
*
18215888 TTATATTT
1 TTGT-TTT
*
18215896 TTGTTCT
1 TTGTTTT
18215903 TTGTTCTT
1 TTGTT-TT
18215911 TT-TTTT
1 TTGTTTT
18215917 TTGTTTT
1 TTGTTTT
*
18215924 TTCTTTT
1 TTGTTTT
18215931 AAAAAAATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 4 0.08
7 35 0.73
8 9 0.19
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.81
Consensus pattern (7 bp):
TTGTTTT
Found at i:18216226 original size:78 final size:78
Alignment explanation
Indices: 18216014--18216214 Score: 289
Period size: 78 Copynumber: 2.6 Consensus size: 78
18216004 GATGCATGTG
* ** * * *
18216014 ACTTGGATACTCAAATATCACCAACGAGTAAATGTAAATGA-TTTCGGATATCACCACTGAAGAG
1 ACTTGGATACTCAAATATCACTATTGAGTAAATGTAAATGACTTT-GGATATCACCATTAAAAAG
18216078 GAATGCAAATTCAA
65 GAATGCAAATTCAA
* *
18216092 ACTTGGATACTCGAATATCACTATTAAGTAAATGTAAATGACTTTGGATATCACCATTAAAAAGG
1 ACTTGGATACTCAAATATCACTATTGAGTAAATGTAAATGACTTTGGATATCACCATTAAAAAGG
18216157 AATGCAAATTCAA
66 AATGCAAATTCAA
*
18216170 ACTTGGATACTTC-AATATCACTATTGAGTAAATGCAAATGACTTT
1 ACTTGGATAC-TCAAATATCACTATTGAGTAAATGTAAATGACTTT
18216215 ATATATTACC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 106 0.95
79 5 0.05
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (78 bp):
ACTTGGATACTCAAATATCACTATTGAGTAAATGTAAATGACTTTGGATATCACCATTAAAAAGG
AATGCAAATTCAA
Found at i:18216401 original size:79 final size:81
Alignment explanation
Indices: 18216280--18216445 Score: 189
Period size: 79 Copynumber: 2.1 Consensus size: 81
18216270 GCTCTCATAA
* *
18216280 AAAAAATTTAATAAAATTCATATTTGAATACTCGGATATCACCACCAAG-TA-ACTTTGAAAAAG
1 AAAAAATTTAATAAAATTCATATATGAATACTCAGATATCACCACCAAGTTAGACTTTGAAAAAG
*
18216343 CTT-GGATATCACCACC
66 -TTCAGATATCACCACC
* * ** *
18216359 AAGAAAATTTAA-AGATATTCA-ATATGAATGCTCAGATATCACCATTAAGTTAGATTTTGAAAA
1 AA-AAAATTTAATA-AAATTCATATATGAATACTCAGATATCACCACCAAGTTAGACTTTGAAAA
*
18216422 AGTTCAGATATCATCACC
64 AGTTCAGATATCACCACC
18216440 AAAAAA
1 AAAAAA
18216446 GTCTTAATGA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
79 26 0.36
80 23 0.32
81 24 0.33
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (81 bp):
AAAAAATTTAATAAAATTCATATATGAATACTCAGATATCACCACCAAGTTAGACTTTGAAAAAG
TTCAGATATCACCACC
Found at i:18216667 original size:44 final size:44
Alignment explanation
Indices: 18216611--18216736 Score: 146
Period size: 44 Copynumber: 2.8 Consensus size: 44
18216601 TATCACTACT
* * *
18216611 AAGATTTAAAAAATTTTGACTTTGAACATTCAAATATCTCCAATC
1 AAGATTT-AAAAACTTAGACTTTGAACATTCAAATATCTCCAATA
* *
18216656 AAGATTTAAAAACTTAAACTTTGAACACTT-AACTATCTCCAATA
1 AAGATTTAAAAACTTAGACTTTGAACA-TTCAAATATCTCCAATA
* * * *
18216700 AAGATTTGAAACCTTAGACTTTGAACACTCGAATATC
1 AAGATTTAAAAACTTAGACTTTGAACATTCAAATATC
18216737 ACCACGGTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 58 0.85
45 9 0.13
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (44 bp):
AAGATTTAAAAACTTAGACTTTGAACATTCAAATATCTCCAATA
Found at i:18218245 original size:25 final size:25
Alignment explanation
Indices: 18218213--18218266 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
18218203 ATGAAAAAGA
*
18218213 TGAAAA-TTTTCTTTTCTAATGGAT
1 TGAAAATTTTTCTTTTCAAATGGAT
*
18218237 TGAACAATTTTTTTTTTCAAATGGAT
1 TGAA-AATTTTTCTTTTCAAATGGAT
18218263 TGAA
1 TGAA
18218267 TGGATCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 4 0.15
25 2 0.08
26 20 0.77
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (25 bp):
TGAAAATTTTTCTTTTCAAATGGAT
Found at i:18219125 original size:19 final size:20
Alignment explanation
Indices: 18219099--18219145 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
18219089 TTTTTTATCT
18219099 TTTC-TTTTGTTCTT-TTT-
1 TTTCATTTTGTTCTTCTTTC
*
18219116 TTGTCATTTTTTTCTTCTTTC
1 TT-TCATTTTGTTCTTCTTTC
18219137 TTTCATTTT
1 TTTCATTTT
18219146 CTTTCACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 9 0.36
20 10 0.40
21 2 0.08
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTCATTTTGTTCTTCTTTC
Found at i:18219128 original size:22 final size:21
Alignment explanation
Indices: 18219080--18219135 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
18219070 CAATCATTCA
*
18219080 TTTTTTTTC-TTTTTTATCTT
1 TTTTTTTTCTTTTTTTATCAT
*
18219100 TTCTTTTGTTCTTTTTTTGTCAT
1 TT-TTTT-TTCTTTTTTTATCAT
18219123 TTTTTTCTTCTTT
1 TTTTTT-TTCTTT
18219136 CTTTCATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 4 0.13
22 13 0.43
23 11 0.37
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTTATCAT
Found at i:18219652 original size:14 final size:14
Alignment explanation
Indices: 18219629--18219682 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
18219619 TTTTTTCATC
*
18219629 TCTTTCTTCTTTCT
1 TCTTTTTTCTTTCT
18219643 TCTTTTTTCTTTCTT
1 TCTTTTTTCTTTC-T
18219658 TCTATTTTT-TTTCT
1 TCT-TTTTTCTTTCT
*
18219672 ATTTTTTTTCT
1 -TCTTTTTTCT
18219683 CTTTGCATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 18 0.53
15 11 0.32
16 5 0.15
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.78
Consensus pattern (14 bp):
TCTTTTTTCTTTCT
Found at i:18219658 original size:18 final size:19
Alignment explanation
Indices: 18219631--18219671 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
18219621 TTTTCATCTC
18219631 TTTC-TTCTTTCT-TCTTT
1 TTTCTTTCTTTCTATCTTT
*
18219648 TTTCTTTCTTTCTATTTTT
1 TTTCTTTCTTTCTATCTTT
18219667 TTTCT
1 TTTCT
18219672 ATTTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 9 0.43
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCTTTCTTTCTATCTTT
Found at i:18219670 original size:11 final size:11
Alignment explanation
Indices: 18219656--18219682 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18219646 TTTTTCTTTC
18219656 TTTCTATTTTT
1 TTTCTATTTTT
18219667 TTTCTATTTTT
1 TTTCTATTTTT
18219678 TTTCT
1 TTTCT
18219683 CTTTGCATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCTATTTTT
Found at i:18219671 original size:26 final size:25
Alignment explanation
Indices: 18219619--18219682 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
18219609 AATTTTCTAT
*
18219619 TTTTTTCATCTCTTTCTTCTTTCTTC
1 TTTTTTC-TTTCTTTCTTCTTTCTTC
* *
18219645 TTTTTTCTTTCTTTCTATTTTTTTTC
1 TTTTTTCTTTCTTTCT-TCTTTCTTC
18219671 TATTTTT-TTTCT
1 T-TTTTTCTTTCT
18219683 CTTTGCATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 20 0.61
27 5 0.15
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTTTCTTTCTTTCTTCTTTCTTC
Found at i:18223623 original size:38 final size:38
Alignment explanation
Indices: 18223530--18223717 Score: 173
Period size: 38 Copynumber: 5.0 Consensus size: 38
18223520 TTCCACTAAA
* * * * *
18223530 ATGTGCATGAGATGAAGTACATGCACTATC-TATTAAG
1 ATGTGCGTAAGATAAAGTGCATGCATTATCTTATTAAG
* * * * *
18223567 ATGTGCATGAGATAGAGTGAATGCATTATTTTATTAAG
1 ATGTGCGTAAGATAAAGTGCATGCATTATCTTATTAAG
** * *
18223605 ATGTGCGTAAGATGGAGTGCATTCACTATCTTATTAAG
1 ATGTGCGTAAGATAAAGTGCATGCATTATCTTATTAAG
* * * *
18223643 ATGTG-GATGAGATAAAGTGCATGCATTATTTTGTAAAG
1 ATGTGCG-TAAGATAAAGTGCATGCATTATCTTATTAAG
* *
18223681 ATGTGCCTAAGATAAAGTGCATACATTATCTTATTAA
1 ATGTGCGTAAGATAAAGTGCATGCATTATCTTATTAA
18223718 AGTGCATGAA
Statistics
Matches: 121, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
37 25 0.21
38 96 0.79
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (38 bp):
ATGTGCGTAAGATAAAGTGCATGCATTATCTTATTAAG
Found at i:18223655 original size:76 final size:76
Alignment explanation
Indices: 18223526--18223726 Score: 248
Period size: 76 Copynumber: 2.7 Consensus size: 76
18223516 ATACTTCCAC
* * * *
18223526 TAAA-ATGTGCATGAGATGAAGTACATGCACTATC-TATTAAGATGTGCATGAGATAGAGTGAAT
1 TAAAGATGTGCATAAGATGAAGTGCATACACTATCTTATTAAGATGTGCATGAGATAAAGTGAAT
18223589 GCATTATTTTA
66 GCATTATTTTA
* * * * * *
18223600 TTAAGATGTGCGTAAGATGGAGTGCATTCACTATCTTATTAAGATGTGGATGAGATAAAGTGCAT
1 TAAAGATGTGCATAAGATGAAGTGCATACACTATCTTATTAAGATGTGCATGAGATAAAGTGAAT
*
18223665 GCATTATTTTG
66 GCATTATTTTA
* * *
18223676 TAAAGATGTGCCTAAGATAAAGTGCATACATTATCTTATTAA-A-GTGCATGA
1 TAAAGATGTGCATAAGATGAAGTGCATACACTATCTTATTAAGATGTGCATGA
18223727 AATATAACGC
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 10 0.09
75 26 0.24
76 72 0.67
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (76 bp):
TAAAGATGTGCATAAGATGAAGTGCATACACTATCTTATTAAGATGTGCATGAGATAAAGTGAAT
GCATTATTTTA
Found at i:18225368 original size:26 final size:27
Alignment explanation
Indices: 18225337--18225394 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
18225327 ATTTCAAAAA
*
18225337 TCAAATCCTTTTT-TTTTCTTTTAAAG
1 TCAAATCATTTTTATTTTCTTTTAAAG
*
18225363 TCAAATCATTTTTAGTTTTTTTTTAAAG
1 TCAAATCATTTTTA-TTTTCTTTTAAAG
18225391 -CAAA
1 TCAAA
18225395 ATAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 4 0.14
28 12 0.43
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.53
Consensus pattern (27 bp):
TCAAATCATTTTTATTTTCTTTTAAAG
Found at i:18225852 original size:21 final size:21
Alignment explanation
Indices: 18225832--18225871 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18225822 TCTAGGTTTA
*
18225832 AGATTTTA-GTTTTGGTTTTT
1 AGATTTAAGGTTTTGGTTTTT
*
18225852 AGGTTTAAGGTTTTGGTTTT
1 AGATTTAAGGTTTTGGTTTT
18225872 GGTTTAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (21 bp):
AGATTTAAGGTTTTGGTTTTT
Found at i:18225862 original size:7 final size:6
Alignment explanation
Indices: 18225849--18226180 Score: 90
Period size: 7 Copynumber: 51.7 Consensus size: 6
18225839 AGTTTTGGTT
* * * *
18225849 TTTAGG TTTAAGG TTTTGG TTTTGG TTTAGGG TTT-GT TTTAGGG TTTAGA
1 TTTAGG TTT-AGG TTTAGG TTTAGG TTTA-GG TTTAGG TTTA-GG TTTAGG
* *
18225899 TTTAGGG TTTAGG ATTAGG TTTTAGG TTTAGGG TTTAGAA TTTAGG TTTAAGG
1 TTTA-GG TTTAGG TTTAGG -TTTAGG TTTA-GG TTTAG-G TTTAGG TTT-AGG
* * * * *
18225952 ATTAGGG TTTTGG TTTAAGG TTTCA-T TTTAGAA TTTAAGG TTTAGG ATTT-GAT
1 TTTA-GG TTTAGG TTT-AGG TTT-AGG TTTAG-G TTT-AGG TTTAGG -TTTAG-G
* * * **
18226005 TTTATTG TTT-GG ATTAGG ATTTAGG ATTAAGG CTTGGGG TTTAGG TTTTAGG
1 TTTA-GG TTTAGG TTTAGG -TTTAGG -TTTAGG -TTTAGG TTTAGG -TTTAGG
* *
18226057 TTTAGG TTTTA-G TTTAAGA TTTAGTG TTTAGGG TTT-GG TTT--- TTTGGG
1 TTTAGG -TTTAGG TTT-AGG TTTAG-G TTTA-GG TTTAGG TTTAGG TTTAGG
* * * * *
18226104 TTTAAAG TTTAGGG TTTTGA TTTAGGG TTTAGC TTTAAGG TTTAGG ATCTTGGG
1 TTT-AGG TTTA-GG TTTAGG TTTA-GG TTTAGG TTT-AGG TTTAGG -T-TTAGG
*
18226158 TTT-GG CTTAGAG TTTAGGG TTTA
1 TTTAGG TTTAG-G TTTA-GG TTTA
18226181 TAGTTTGGTT
Statistics
Matches: 244, Mismatches: 44, Indels: 75
0.67 0.12 0.21
Matches are distributed among these distances:
3 3 0.01
5 20 0.08
6 84 0.34
7 129 0.53
8 8 0.03
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (6 bp):
TTTAGG
Found at i:18225865 original size:27 final size:27
Alignment explanation
Indices: 18225824--18225876 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18225814 ATTTAGGGTC
18225824 TAGGTTTAAGATTTTAGTTTTGGTTTT
1 TAGGTTTAAGATTTTAGTTTTGGTTTT
* *
18225851 TAGGTTTAAGGTTTTGGTTTTGGTTT
1 TAGGTTTAAGATTTTAGTTTTGGTTT
18225877 AGGGTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.58
Consensus pattern (27 bp):
TAGGTTTAAGATTTTAGTTTTGGTTTT
Found at i:18225875 original size:19 final size:21
Alignment explanation
Indices: 18225840--18225883 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
18225830 TAAGATTTTA
18225840 GTTTTGGTTTTTAGGTTTAAG
1 GTTTTGGTTTTTAGGTTTAAG
*
18225861 GTTTTGG-TTTT-GGTTTAGG
1 GTTTTGGTTTTTAGGTTTAAG
18225880 GTTT
1 GTTT
18225884 GTTTTAGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 4 0.18
21 7 0.32
ACGTcount: A:0.09, C:0.00, G:0.32, T:0.59
Consensus pattern (21 bp):
GTTTTGGTTTTTAGGTTTAAG
Found at i:18225882 original size:13 final size:13
Alignment explanation
Indices: 18225849--18226201 Score: 154
Period size: 13 Copynumber: 27.0 Consensus size: 13
18225839 AGTTTTGGTT
18225849 TTTA-GGTTTAAGG
1 TTTAGGGTTT-AGG
* *
18225862 TTT-TGGTTTTGG
1 TTTAGGGTTTAGG
*
18225874 TTTAGGGTTT-GT
1 TTTAGGGTTTAGG
*
18225886 TTTAGGGTTTAGA
1 TTTAGGGTTTAGG
18225899 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
* *
18225912 ATTAGGTTTTAGG
1 TTTAGGGTTTAGG
*
18225925 TTTAGGGTTTAGAA
1 TTTAGGGTTTAG-G
18225939 TTTA-GGTTTAAGG
1 TTTAGGGTTT-AGG
* *
18225952 ATTAGGGTTTTGG
1 TTTAGGGTTTAGG
* *
18225965 TTTAAGGTTTCA-T
1 TTTAGGGTTT-AGG
**
18225978 TTTAGAATTTAAGG
1 TTTAGGGTTT-AGG
* *
18225992 TTTAGGATTT-GAT
1 TTTAGGGTTTAG-G
**
18226005 TTTATTGTTT-GG
1 TTTAGGGTTTAGG
* *
18226017 ATTAGGATTTAGG
1 TTTAGGGTTTAGG
* * **
18226030 ATTAAGGCTTGGGG
1 -TTTAGGGTTTAGG
*
18226044 TTTAGGTTTTAGG
1 TTTAGGGTTTAGG
*
18226057 TTTAGGTTTTA-G
1 TTTAGGGTTTAGG
* *
18226069 TTTAAGATTTAGTG
1 TTTAGGGTTTAG-G
18226083 TTTAGGGTTT-GG
1 TTTAGGGTTTAGG
* *
18226095 TTTTTTGGGTTTAAAG
1 --TTTAGGGTTT-AGG
* *
18226111 TTTAGGGTTTTGA
1 TTTAGGGTTTAGG
*
18226124 TTTAGGGTTTAGC
1 TTTAGGGTTTAGG
*
18226137 TTTAAGGTTTAGG
1 TTTAGGGTTTAGG
18226150 ATCTT-GGGTTT-GG
1 -T-TTAGGGTTTAGG
* *
18226163 CTTAGAGTTTAGGG
1 TTTAGGGTTTA-GG
**
18226177 TTTATAGTTT-GG
1 TTTAGGGTTTAGG
*
18226189 TTTGGGGTTTAGG
1 TTTAGGGTTTAGG
18226202 GTTTTGGAAG
Statistics
Matches: 254, Mismatches: 63, Indels: 46
0.70 0.17 0.13
Matches are distributed among these distances:
11 2 0.01
12 48 0.19
13 130 0.51
14 71 0.28
15 2 0.01
16 1 0.00
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:18225911 original size:20 final size:19
Alignment explanation
Indices: 18225886--18225948 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
18225876 TAGGGTTTGT
18225886 TTTAGGGTTTAGATTTAGGG
1 TTTAGGGTTTAGATTTA-GG
* *
18225906 TTTA-GGATTAGGTTTTAGG
1 TTTAGGGTTTA-GATTTAGG
18225925 TTTAGGGTTTAGAATTTAGG
1 TTTAGGGTTTAG-ATTTAGG
18225945 TTTA
1 TTTA
18225949 AGGATTAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.33
20 24 0.67
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTTAGATTTAGG
Found at i:18225956 original size:20 final size:20
Alignment explanation
Indices: 18225897--18225971 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
18225887 TTAGGGTTTA
18225897 GATTTAGGGTTT-AGGATTAG
1 GATTTA-GGTTTAAGGATTAG
* * *
18225917 GTTTTAGGTTTAGGGTTTAG
1 GATTTAGGTTTAAGGATTAG
*
18225937 AATTTAGGTTTAAGGATTAG
1 GATTTAGGTTTAAGGATTAG
* *
18225957 GGTTTTGGTTTAAGG
1 GATTTAGGTTTAAGG
18225972 TTTCATTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
19 5 0.11
20 39 0.89
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (20 bp):
GATTTAGGTTTAAGGATTAG
Found at i:18226923 original size:18 final size:18
Alignment explanation
Indices: 18226885--18226924 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18226875 CTTTCCAAAA
* * *
18226885 TTTTTCTTTTTCTTTTTT
1 TTTTTCTTTTCCTTCTCT
18226903 TTTTTCTTTTCCTTCTCT
1 TTTTTCTTTTCCTTCTCT
18226921 TTTT
1 TTTT
18226925 CACTCCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTCCTTCTCT
Found at i:18227456 original size:143 final size:144
Alignment explanation
Indices: 18227302--18227562 Score: 319
Period size: 144 Copynumber: 1.8 Consensus size: 144
18227292 AGTTTTCATG
* *
18227302 AAAAATGGACCTCAAAAATATCAAATTACAAAATTA-CTTTTAAAGACATTTTAGTAATTTCACA
1 AAAAATGGACCTCAAAAAGATCAAATTACAAAATTAGCCTTTAAAGACATTTTAGTAATTTCACA
* *
18227366 CCTTCCAATGTGCGATCAAAGTTTTTAATACACCAAAAATCATCAAA-TAATATAAGAACATGAT
66 CCTTCCAAGGTGCAATCAAAGTTTTTAATACACCAAAAATCAT-AAAGTAATATAAGAACATGAT
18227430 ATGGAATGTTTCGCA
130 ATGGAATGTTTCGCA
* ** * * * * * **
18227445 AAAAATTGACCTTGAGAAGGTCAAATTATAAAATTAGCCTTTAAGGATATTTTAGTAATTTCGTA
1 AAAAATGGACCTCAAAAAGATCAAATTACAAAATTAGCCTTTAAAGACATTTTAGTAATTTCACA
*** * * *
18227510 CCTTTTGAGGTGCAATCAAAGTTTTTTATGCATCAAAAATCATAAAGTAATAT
66 CCTTCCAAGGTGCAATCAAAGTTTTTAATACACCAAAAATCATAAAGTAATAT
18227563 TTCAATGTGA
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
143 32 0.33
144 64 0.67
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (144 bp):
AAAAATGGACCTCAAAAAGATCAAATTACAAAATTAGCCTTTAAAGACATTTTAGTAATTTCACA
CCTTCCAAGGTGCAATCAAAGTTTTTAATACACCAAAAATCATAAAGTAATATAAGAACATGATA
TGGAATGTTTCGCA
Found at i:18228965 original size:30 final size:29
Alignment explanation
Indices: 18228896--18228967 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
18228886 TTTTATTTAC
*
18228896 ATAAATTTTTATACTTTTATTATATCCAA
1 ATAAATTTTTATTCTTTTATTATATCCAA
* *
18228925 ATAAACTTTTATTCTTTTATTTATATTCAA
1 ATAAATTTTTATTCTTTTA-TTATATCCAA
*
18228955 GTAAATTTTTATT
1 ATAAATTTTTATT
18228968 TTAAACAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (29 bp):
ATAAATTTTTATTCTTTTATTATATCCAA
Found at i:18229026 original size:30 final size:30
Alignment explanation
Indices: 18228990--18229077 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
18228980 TTTAGTTATT
**
18228990 TTAAGAGTTTATTTGCGTACAAATTAAAAA
1 TTAAGAGTTTATTTGAATACAAATTAAAAA
* *
18229020 TTAAGAGTTTATTTGAATGCAAATTAAAAT
1 TTAAGAGTTTATTTGAATACAAATTAAAAA
* * * *
18229050 TTAAAAATTTATTTAAATACAAAATAAA
1 TTAAGAGTTTATTTGAATACAAATTAAA
18229078 GTTTGAGGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (30 bp):
TTAAGAGTTTATTTGAATACAAATTAAAAA
Found at i:18231240 original size:57 final size:56
Alignment explanation
Indices: 18231073--18231247 Score: 194
Period size: 57 Copynumber: 3.1 Consensus size: 56
18231063 TTTTCTTTCC
* *
18231073 AAAAAAAAAGAATTTCTAAATAGGCCCAAAT--GATGATAAATTTAGAAATTCCAAAA
1 AAAAAAAAAGAATTTCTAAATAGACCCAAATGGGA-GA-AAATTTAGAAATTCAAAAA
* * * * * * * **
18231129 AAAAGAAAA-TATTTCTAAATTGATCCAAATGGTAAAAAATTTAGAGATAAAAAAA
1 AAAAAAAAAGAATTTCTAAATAGACCCAAATGGGAGAAAATTTAGAAATTCAAAAA
18231184 TAAAAAAAAAGAATTTCTAAATAGACCCAAATGGGAGAAAATTTAGAAATTCAAAAA
1 -AAAAAAAAAGAATTTCTAAATAGACCCAAATGGGAGAAAATTTAGAAATTCAAAAA
*
18231241 GAAAAAA
1 AAAAAAA
18231248 TATTTCTAAT
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
55 32 0.34
56 23 0.24
57 39 0.41
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.22
Consensus pattern (56 bp):
AAAAAAAAAGAATTTCTAAATAGACCCAAATGGGAGAAAATTTAGAAATTCAAAAA
Found at i:18235320 original size:9 final size:9
Alignment explanation
Indices: 18235295--18235392 Score: 96
Period size: 9 Copynumber: 10.9 Consensus size: 9
18235285 TGGGTGAAAG
*
18235295 AATGAAAGA
1 AATGAAAAA
*
18235304 AA-GGAAAA
1 AATGAAAAA
18235312 AAT-AAAAA
1 AATGAAAAA
*
18235320 AATAAAAAA
1 AATGAAAAA
18235329 AATGAAAAAAA
1 AATG--AAAAA
18235340 AATGAAAAA
1 AATGAAAAA
18235349 AATGAAAAA
1 AATGAAAAA
18235358 AATG-AAAA
1 AATGAAAAA
*
18235366 AATG-AAAG
1 AATGAAAAA
18235374 AATGGAAAAA
1 AAT-GAAAAA
18235384 AGATGAAAA
1 A-ATGAAAA
18235393 TGAGAGAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
8 27 0.36
9 29 0.38
10 9 0.12
11 11 0.14
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (9 bp):
AATGAAAAA
Found at i:18235340 original size:20 final size:20
Alignment explanation
Indices: 18235315--18235359 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
18235305 AGGAAAAAAT
18235315 AAAAAAATAAAAAAAATGAA
1 AAAAAAATAAAAAAAATGAA
*
18235335 AAAAAAATGAAAAAAATGAA
1 AAAAAAATAAAAAAAATGAA
18235355 AAAAA
1 AAAAA
18235360 TGAAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (20 bp):
AAAAAAATAAAAAAAATGAA
Found at i:18235344 original size:45 final size:45
Alignment explanation
Indices: 18235295--18235392 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
18235285 TGGGTGAAAG
* *
18235295 AATGAAAGAAA-GGAAAAAATAAAAAAATAAAAAAAATGAAAAAAA
1 AATGAAAAAAATGAAAAAAATAAAAAAAT-AAAAAAATGAAAAAAA
* * * *
18235340 AATGAAAAAAATGAAAAAAATGAAAAAATGAAAGAATGGAAAAAA
1 AATGAAAAAAATGAAAAAAATAAAAAAATAAAAAAATGAAAAAAA
*
18235385 GATGAAAA
1 AATGAAAA
18235393 TGAGAGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 30 0.67
46 15 0.33
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (45 bp):
AATGAAAAAAATGAAAAAAATAAAAAAATAAAAAAATGAAAAAAA
Found at i:18235350 original size:29 final size:28
Alignment explanation
Indices: 18235308--18235367 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 28
18235298 GAAAGAAAGG
18235308 AAAAAATAAAAAAATAAAAAAAATGAAA
1 AAAAAATAAAAAAATAAAAAAAATGAAA
*
18235336 AAAAAATGAAAAAAATGAAAAAAATGAAA
1 AAAAAAT-AAAAAAATAAAAAAAATGAAA
18235365 AAA
1 AAA
18235368 TGAAAGAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (28 bp):
AAAAAATAAAAAAATAAAAAAAATGAAA
Found at i:18235368 original size:17 final size:17
Alignment explanation
Indices: 18235289--18235372 Score: 89
Period size: 17 Copynumber: 4.8 Consensus size: 17
18235279 CAATAATGGG
* *
18235289 TGAAAGAATGAAAGAAA
1 TGAAAAAATGAAAAAAA
*
18235306 GGAAAAAAT-AAAAAAA
1 TGAAAAAATGAAAAAAA
*
18235322 TAAAAAAAATGAAAAAAAAA
1 T-GAAAAAATG--AAAAAAA
18235342 TGAAAAAAATGAAAAAAA
1 TG-AAAAAATGAAAAAAA
18235360 TGAAAAAATGAAA
1 TGAAAAAATGAAA
18235373 GAATGGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.11
17 25 0.45
18 9 0.16
20 16 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
TGAAAAAATGAAAAAAA
Found at i:18235381 original size:17 final size:17
Alignment explanation
Indices: 18235290--18235384 Score: 77
Period size: 17 Copynumber: 5.4 Consensus size: 17
18235280 AATAATGGGT
*
18235290 GAAAGAATGAAAGAAA-G
1 GAAAAAATGAAA-AAATG
* *
18235307 GAAAAAATAAAAAAATA
1 GAAAAAATGAAAAAATG
*
18235324 AAAAAAATGAAAAAAAAATG
1 GAAAAAATG---AAAAAATG
*
18235344 AAAAAAATGAAAAAAAT-
1 GAAAAAATG-AAAAAATG
*
18235361 GAAAAAATGAAAGAATG
1 GAAAAAATGAAAAAATG
18235378 GAAAAAA
1 GAAAAAA
18235385 GATGAAAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
16 9 0.14
17 32 0.49
18 8 0.12
20 16 0.25
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAAAAATGAAAAAATG
Found at i:18235395 original size:25 final size:24
Alignment explanation
Indices: 18235289--18235372 Score: 59
Period size: 25 Copynumber: 3.5 Consensus size: 24
18235279 CAATAATGGG
* *
18235289 TGAAAGAATGAAAGAAAGGAAAAAA
1 TGAAAGAATGAAAAAAATG-AAAAA
* * *
18235314 TAAAAAAATAAAAAAAATG-AAAA
1 TGAAAGAATGAAAAAAATGAAAAA
18235337 --AAA-AATGAAAAAAATGAAAAAAA
1 TGAAAGAATGAAAAAAATG--AAAAA
*
18235360 TGAAAAAATGAAA
1 TGAAAGAATGAAA
18235373 GAATGGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
20 12 0.26
21 3 0.06
23 8 0.17
25 17 0.36
26 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (24 bp):
TGAAAGAATGAAAAAAATGAAAAA
Found at i:18236590 original size:79 final size:79
Alignment explanation
Indices: 18236490--18236643 Score: 272
Period size: 79 Copynumber: 1.9 Consensus size: 79
18236480 TTAAGTTCTC
* * *
18236490 AAATGAGAATCTTTGAAGTGTGAAACCCAAATTTTATCGAATGTGAATCTTCGAACTCAAATGAG
1 AAATGAAAATCTTTGAAGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATGAG
18236555 AATCTTTGAATTTT
66 AATCTTTGAATTTT
*
18236569 AAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATGAG
1 AAATGAAAATCTTTGAAGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATGAG
18236634 AATCTTTGAA
66 AATCTTTGAA
18236644 GTGTGAAACC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (79 bp):
AAATGAAAATCTTTGAAGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATGAG
AATCTTTGAATTTT
Found at i:18236638 original size:58 final size:58
Alignment explanation
Indices: 18236569--18236731 Score: 227
Period size: 58 Copynumber: 2.8 Consensus size: 58
18236559 TTTGAATTTT
*
18236569 AAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTC
1 AAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTC
* * * * *
18236627 AAATGAGAATCTTTGAAGTGTGAAACCTAAAATTTATTGAATATTAATCTTCAAACTC
1 AAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTC
* * * *
18236685 AAATGAGAATCTTTAAGGGGTGAAACCCTAAAATTTGTCAAATGTGA
1 AAATGAGAATCTTTGAGGTGTGAAACCC-AAAATTTATCGAATGTGA
18236732 GCCTTTGGAC
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 76 0.85
59 13 0.15
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (58 bp):
AAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTC
Found at i:18237094 original size:41 final size:41
Alignment explanation
Indices: 18237037--18237336 Score: 261
Period size: 41 Copynumber: 7.2 Consensus size: 41
18237027 CAATGAGCCT
* * * * * *
18237037 TTTATTTTTCAAAAGTTATGGTACCTTTGTTTAAAAAAGCA
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATAAGAGCA
*
18237078 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATATGAGCA
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATAAGAGCA
*
18237119 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATATGAGCA
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATAAGAGCA
* * * * * *
18237160 TTTACTTTCCAAAAGTTATGGTGCCTCTGTTTAGAATAGCAA
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATAAGAGC-A
** * * * * **
18237202 TTTATTTTTCCAAAAGTTGTGGTGTTTTTGTTTAGAGGTTCA
1 TTTATTTTT-CAAAAGTTGTGGTGCCTCTGATTATAAGAGCA
18237244 TTTTATTTTTTC-AAAGTTGTGGTG-CTCCT-ATT-TAGAGGAGCAA
1 -TTTA-TTTTTCAAAAGTTGTGGTGCCT-CTGATTATA-A-GAGC-A
*
18237287 TTTACTTTTCAAAAGTTGTGGTGCCTCT-ATT-TAGAGGAGCA
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATA-A-GAGCA
18237328 TTTATTTTT
1 TTTATTTTT
18237337 TTACAAAGTC
Statistics
Matches: 216, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
40 1 0.00
41 125 0.58
42 54 0.25
43 31 0.14
44 5 0.02
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (41 bp):
TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATAAGAGCA
Found at i:18237246 original size:84 final size:83
Alignment explanation
Indices: 18237037--18237336 Score: 295
Period size: 82 Copynumber: 3.6 Consensus size: 83
18237027 CAATGAGCCT
* * * * * **
18237037 TTTATTTTTCAAAAGTTATGGTACCTTTGTTTAAAAAAGCATTTATTTTTCAAAAGTTGTGGTGC
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTAGAGGAGCATTTATTTTTCAAAAGTTGTGGTGC
* *
18237102 CTCTGATTA-TATGAGC-A
66 CTCTGTTTAGAAT-AGCAA
* * * * *
18237119 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTATATGAGCATTTACTTTCCAAAAGTTATGGTGC
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTAGAGGAGCATTTATTTTTCAAAAGTTGTGGTGC
18237184 CTCTGTTTAGAATAGCAA
66 CTCTGTTTAGAATAGCAA
** * * **
18237202 TTTATTTTTCCAAAAGTTGTGGTGTTTTTGTTTAGAGGTTCATTTTATTTTTTC-AAAGTTGTGG
1 TTTATTTTT-CAAAAGTTGTGGTGCCTCTGATTAGAGGAGCA-TTTA-TTTTTCAAAAGTTGTGG
* **
18237266 TG-CTCCTATTTAGAGGAGCAA
63 TGCCT-CTGTTTAGAATAGCAA
*
18237287 TTTACTTTTCAAAAGTTGTGGTGCCTCT-ATTTAGAGGAGCATTTATTTTT
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTGA-TTAGAGGAGCATTTATTTTT
18237337 TTACAAAGTC
Statistics
Matches: 178, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
82 71 0.40
83 16 0.09
84 51 0.29
85 36 0.20
86 4 0.02
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (83 bp):
TTTATTTTTCAAAAGTTGTGGTGCCTCTGATTAGAGGAGCATTTATTTTTCAAAAGTTGTGGTGC
CTCTGTTTAGAATAGCAA
Found at i:18237642 original size:12 final size:12
Alignment explanation
Indices: 18237625--18237669 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
18237615 CTATTTTGAC
18237625 ATTTTATTATTT
1 ATTTTATTATTT
*
18237637 ATTTTATT-TTA
1 ATTTTATTATTT
18237648 AGTTTTTATTATTT
1 A--TTTTATTATTT
18237662 ATTTTATT
1 ATTTTATT
18237670 TTAAGATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 15 0.54
13 7 0.25
14 3 0.11
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
ATTTTATTATTT
Found at i:18237654 original size:25 final size:25
Alignment explanation
Indices: 18237608--18237676 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
18237598 TGTTATTTAT
* *
18237608 TTTATTTCTATTTTGACATTTTATTA
1 TTTATTT-TATTTTAAGATTTTATTA
*
18237634 TTTATTTTATTTTAAGTTTTTATTA
1 TTTATTTTATTTTAAGATTTTATTA
18237659 TTTATTTTATTTTAAGAT
1 TTTATTTTATTTTAAGAT
18237677 AATAAGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 32 0.82
26 7 0.18
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTATTTTATTTTAAGATTTTATTA
Found at i:18237916 original size:12 final size:12
Alignment explanation
Indices: 18237896--18237931 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
18237886 AACACAACAG
18237896 CACA-AAAAAGAT
1 CACAGAAAAA-AT
18237908 CACAGAAAAAAT
1 CACAGAAAAAAT
18237920 CACAGAAAAAAT
1 CACAGAAAAAAT
18237932 AGAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.67, C:0.17, G:0.08, T:0.08
Consensus pattern (12 bp):
CACAGAAAAAAT
Found at i:18243474 original size:43 final size:43
Alignment explanation
Indices: 18243411--18243496 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
18243401 GATCAAGGAA
* *
18243411 ATATCTGTACCGATTAGATAATTATACTAGTATAAATAATATG
1 ATATCTGTACCCATTAGATAATTATACTAGAATAAATAATATG
*
18243454 ATATCTGTACCCATTTGATAATTATACTAGAATAAATAATATG
1 ATATCTGTACCCATTAGATAATTATACTAGAATAAATAATATG
18243497 GTCTAAGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (43 bp):
ATATCTGTACCCATTAGATAATTATACTAGAATAAATAATATG
Found at i:18246471 original size:21 final size:21
Alignment explanation
Indices: 18246447--18246486 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18246437 TTTTTCAGTA
18246447 TTGTTGAATAATTTTTTTTAT
1 TTGTTGAATAATTTTTTTTAT
*
18246468 TTGTTGAGTAATTTTTTTT
1 TTGTTGAATAATTTTTTTT
18246487 TAGTTGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (21 bp):
TTGTTGAATAATTTTTTTTAT
Found at i:18246483 original size:22 final size:22
Alignment explanation
Indices: 18246433--18246499 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
18246423 TTTTTAGGTT
*
18246433 TTTTTTTTTCAGTATTGTTGAATAA
1 TTTTTTTTT-A-T-TTGTTGAGTAA
18246458 -TTTTTTTTATTTGTTGAGTAA
1 TTTTTTTTTATTTGTTGAGTAA
* *
18246479 TTTTTTTTTAGTTGTAGAGTA
1 TTTTTTTTTATTTGTTGAGTA
18246500 TTGTTGAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 10 0.26
22 19 0.50
23 1 0.03
24 8 0.21
ACGTcount: A:0.21, C:0.01, G:0.15, T:0.63
Consensus pattern (22 bp):
TTTTTTTTTATTTGTTGAGTAA
Found at i:18248071 original size:16 final size:16
Alignment explanation
Indices: 18248052--18248118 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
18248042 TAATTACTTT
18248052 TAAAATAAATTAAAAA
1 TAAAATAAATTAAAAA
*
18248068 TAAAATAAAATAAAAA
1 TAAAATAAATTAAAAA
* * *
18248084 TGATATAAATTATAAA
1 TAAAATAAATTAAAAA
* *
18248100 TAAAATATATTAAATA
1 TAAAATAAATTAAAAA
18248116 TAA
1 TAA
18248119 TTAAAAAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (16 bp):
TAAAATAAATTAAAAA
Found at i:18248091 original size:21 final size:21
Alignment explanation
Indices: 18248067--18248125 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
18248057 TAAATTAAAA
18248067 ATAAAATA-AAATAAAAATGAT
1 ATAAAATATAAATAAAAAT-AT
*
18248088 ATAAATTATAAAT-AAAATAT
1 ATAAAATATAAATAAAAATAT
* *
18248108 ATTAAATATAATTAAAAA
1 ATAAAATATAAATAAAAA
18248126 ATAAATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.38
21 16 0.50
22 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAAAATATAAATAAAAATAT
Found at i:18248108 original size:11 final size:11
Alignment explanation
Indices: 18248054--18248132 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
18248044 ATTACTTTTA
* *
18248054 AAATAAATTAA
1 AAATAAAATAT
18248065 AAATAAAATA-
1 AAATAAAATAT
18248075 AAATAAAA-AT
1 AAATAAAATAT
* *
18248085 GATATAAATTAT
1 -AAATAAAATAT
18248097 AAATAAAATAT
1 AAATAAAATAT
*
18248108 --ATTAAATAT
1 AAATAAAATAT
* *
18248117 AATTAAAAAAT
1 AAATAAAATAT
18248128 AAATA
1 AAATA
18248133 TTACCAATGG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
9 9 0.17
10 8 0.15
11 34 0.64
12 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:18248922 original size:19 final size:20
Alignment explanation
Indices: 18248894--18248938 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
18248884 AATTATGCAT
18248894 ATATTATTTC-TATTA-AAAA
1 ATATTATTTCATA-TACAAAA
*
18248913 ATATTTTTTCATATACAAAA
1 ATATTATTTCATATACAAAA
18248933 ATATTA
1 ATATTA
18248939 AACGTGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTATTTCATATACAAAA
Found at i:18249677 original size:21 final size:22
Alignment explanation
Indices: 18249646--18249702 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
18249636 GGCATTAGAA
18249646 GAAA-ATTTTTTAAAAAAAATT
1 GAAATATTTTTTAAAAAAAATT
* * *
18249667 TAAAT-TTTTTT-AGAAAACTT
1 GAAATATTTTTTAAAAAAAATT
18249687 GAAATATTTTTTAAAA
1 GAAATATTTTTTAAAA
18249703 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 11 0.39
21 15 0.54
22 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
GAAATATTTTTTAAAAAAAATT
Found at i:18249683 original size:20 final size:20
Alignment explanation
Indices: 18249648--18249702 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
18249638 CATTAGAAGA
* *
18249648 AAATTTTTTAAAAAAAATTT
1 AAATTTTTTTAAAAAAATTG
* *
18249668 AAATTTTTTTAGAAAACTTG
1 AAATTTTTTTAAAAAAATTG
18249688 AAATATTTTTTAAAA
1 AAAT-TTTTTTAAAA
18249703 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (20 bp):
AAATTTTTTTAAAAAAATTG
Found at i:18249702 original size:19 final size:19
Alignment explanation
Indices: 18249668--18249738 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
18249658 AAAAAAATTT
* *
18249668 AAATTTTTTTAGAAAACTTG
1 AAATATTTTTA-AAAACTTA
*
18249688 AAATATTTTTTAAAA-TTA
1 AAATATTTTTAAAAACTTA
*
18249706 AAAAATATTTTAAAAAC-TA
1 AAATAT-TTTTAAAAACTTA
18249725 AAATA-TTTTAAAAA
1 AAATATTTTTAAAAA
18249739 TTTTAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 9 0.21
18 7 0.16
19 18 0.42
20 9 0.21
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
AAATATTTTTAAAAACTTA
Found at i:18249729 original size:37 final size:39
Alignment explanation
Indices: 18249674--18249774 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 39
18249664 ATTTAAATTT
* *
18249674 TTTTAGAAAACTTGAAATATTTTTTAAAA-TTAAAAAATA
1 TTTTAGAAAACTTAAAATA-TTTTAAAAATTTAAAAAATA
*
18249713 TTTTA-AAAAC-TAAAATATTTTAAAAATTTTAAAAATA
1 TTTTAGAAAACTTAAAATATTTTAAAAATTTAAAAAATA
* * *
18249750 -TAT-GAAAACATAAAA-ATTGTAAAAA
1 TTTTAGAAAACTTAAAATATTTTAAAAA
18249775 AAATCAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
36 24 0.44
37 20 0.37
38 5 0.09
39 5 0.09
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (39 bp):
TTTTAGAAAACTTAAAATATTTTAAAAATTTAAAAAATA
Found at i:18249745 original size:19 final size:19
Alignment explanation
Indices: 18249688--18249746 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 19
18249678 AGAAAACTTG
* *
18249688 AAATATTTTTTAAAATTAAA
1 AAATA-TTTTAAAAATTATA
*
18249708 AAATATTTTAAAAA--CTA
1 AAATATTTTAAAAATTATA
*
18249725 AAATATTTTAAAAATTTTA
1 AAATATTTTAAAAATTATA
18249744 AAA
1 AAA
18249747 ATATATGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 15 0.45
19 13 0.39
20 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATTTTAAAAATTATA
Found at i:18249862 original size:21 final size:20
Alignment explanation
Indices: 18249836--18249893 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
18249826 ATTGAAAATC
18249836 AAAAATAAAATTTTTTTTTCA
1 AAAAAT-AAATTTTTTTTTCA
*
18249857 AAAAATCAATTTTTTTTT-A
1 AAAAATAAATTTTTTTTTCA
***
18249876 AATTGTAAATTTTTTTTT
1 AAAAATAAATTTTTTTTT
18249894 AAATTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.47
20 11 0.34
21 6 0.19
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (20 bp):
AAAAATAAATTTTTTTTTCA
Found at i:18250017 original size:19 final size:19
Alignment explanation
Indices: 18249995--18250042 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
18249985 ATTTTTAAAA
* *
18249995 ATTTTTAATAAAATTTCAT
1 ATTTTTAAAAAAATTTAAT
18250014 ATTTATTAAAAAAATTTAAT
1 ATTT-TTAAAAAAATTTAAT
*
18250034 TTTTTTAAA
1 ATTTTTAAA
18250043 GTTTTTGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTAAAAAAATTTAAT
Found at i:18250106 original size:17 final size:18
Alignment explanation
Indices: 18250071--18250116 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
18250061 GAAATTTAAG
18250071 AAAATTTT-ATTTCTATT
1 AAAATTTTCATTTCTATT
*
18250088 AAAATTTTCATTT-TTTT
1 AAAATTTTCATTTCTATT
*
18250105 AAATTTTTCATT
1 AAAATTTTCATT
18250117 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (18 bp):
AAAATTTTCATTTCTATT
Found at i:18250198 original size:10 final size:10
Alignment explanation
Indices: 18250178--18250305 Score: 79
Period size: 10 Copynumber: 13.3 Consensus size: 10
18250168 ATTTGTTAAG
18250178 TTTTAATAATT
1 TTTTAA-AATT
18250189 TTTTAAAA-T
1 TTTTAAAATT
*
18250198 TTTTATAA-T
1 TTTTAAAATT
*
18250207 TTTTAAAAAT
1 TTTTAAAATT
* * *
18250217 ATTTCATATT
1 TTTTAAAATT
18250227 TTTT--AATT
1 TTTTAAAATT
* *
18250235 TTTTATAATA
1 TTTTAAAATT
* *
18250245 TATTAATA-T
1 TTTTAAAATT
* * *
18250254 GTTTCAGATT
1 TTTTAAAATT
18250264 TTTTAAAA-T
1 TTTTAAAATT
*
18250273 TTTAAAAATT
1 TTTTAAAATT
18250283 TTTTAAAATT
1 TTTTAAAATT
*
18250293 TTTTAATATT
1 TTTTAAAATT
18250303 TTT
1 TTT
18250306 ATTAATACTA
Statistics
Matches: 89, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
8 7 0.08
9 28 0.31
10 48 0.54
11 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:18250205 original size:19 final size:19
Alignment explanation
Indices: 18250178--18250306 Score: 104
Period size: 19 Copynumber: 6.8 Consensus size: 19
18250168 ATTTGTTAAG
*
18250178 TTTTAATAATTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
*
18250197 TTTTTATAATTTTTAAAAA
1 TTTTTATAATTTTTTAAAA
* *
18250216 TATTTCAT-ATTTTTT-AAT
1 T-TTTTATAATTTTTTAAAA
* * *
18250234 TTTTTATAATATATTAATA
1 TTTTTATAATTTTTTAAAA
* *
18250253 TGTTTCA-GATTTTTTAAAA
1 T-TTTTATAATTTTTTAAAA
* *
18250272 TTTTAAAAATTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
18250291 TTTTT-TAATATTTTTA
1 TTTTTATAAT-TTTTTA
18250307 TTAATACTAA
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
17 5 0.06
18 15 0.18
19 56 0.66
20 9 0.11
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTATAATTTTTTAAAA
Found at i:18250238 original size:28 final size:29
Alignment explanation
Indices: 18250191--18250271 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 29
18250181 TAATAATTTT
*
18250191 TTAAAATTTTTATAA-TTTTTAAAAATAT-
1 TTAATATTTTT-TAATTTTTTAAAAATATA
* *
18250219 TTCATATTTTTTAATTTTTT-ATAATATA
1 TTAATATTTTTTAATTTTTTAAAAATATA
* *
18250247 TTAATATGTTTCAGATTTTTTAAAA
1 TTAATATTTTTTA-ATTTTTTAAAA
18250272 TTTTAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
27 9 0.21
28 24 0.57
29 7 0.17
30 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
TTAATATTTTTTAATTTTTTAAAAATATA
Found at i:18254733 original size:632 final size:631
Alignment explanation
Indices: 18252936--18254811 Score: 3207
Period size: 631 Copynumber: 3.0 Consensus size: 631
18252926 ATATGTTTAA
*
18252936 CACGTTTAATATATTTTTCATATTTATTTTAATTTAATATAAACATACAAAGATTATTTTAATTT
1 CACGTTTAACATATTTTTCATATTTATTTTAATTTAATATAAACATACAAAGATTATTTTAATTT
*
18253001 TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAACATTATTTTAAATATTT
66 TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAAAATTATTTTAAATATTT
18253066 AATTATGATACTCATTTAATAATTATTATAAAATTATTTTTTATATTAATAATATAAATACAATA
131 AATTATGATACTCATTTAATAATTATTATAAAATTATTTTTTATATTAATAATATAAATACAATA
18253131 TAAATATTAATATTAGTCTTATAAATTATTATTTTATTCTTTAATCTTTAATAGTTTATCATTTT
196 TAAATATTAATATTAGTCTTATAAATTATTATTTTATTCTTTAATCTTTAATAGTTTATCATTTT
* *
18253196 GAATTTAATACTAAAATTTAATATAGTGATATATGTCATAATGTATAGATTCGTAGAACTATCAC
261 GAATTTAATACTAAAATTTAATATAGTGATATATGTCATAATGTATAGATCCGTAGAACTATCGC
* * * *
18253261 TAGACATGGATTAAAGGAGTCACGACCAATCTTTATTTGTTTAAGTATGATTGGCTACCTAACTA
326 TAGACATGGATTAAAGGAGTCGCGACCAATCTTTATTTGTTTAAGTATGATTGACCACCTAATTA
* * *
18253326 AATCTGATCCACGAAACTAGATTTAGGTTTGGGAGTGCAGTTACACGTGAAGAAGGTTATAGAAC
391 AATCTAATCCACGAAACTAGATTTAGGTTTGGGAGTGCAGTTACAAGTGAAGAAGGTTATAGCAC
* *
18253391 CCTTATAGTGCCCATTCAAAAGATGGTACCAGTTTGATTCCAAGTTATCCAAGCCTTAAAAATAT
456 CCTTACAGTGCCCATCCAAAAGATGGTACCAGTTTGATTCCAAGTTATCCAAGCCTT-AAAATAT
*
18253456 TTATATTTTATCCAAATATTTAATATTAAGAATTAACCTTAAAATGACCCCAATATTTTGGTAGT
520 TTATATTTTATCCAAATATTTAATATTGAGAATTAACCTTAAAATGACCCCAATATTTTGGTAGT
*
18253521 AGTTCAAGATCATTCTCTCACCTTATGAGTATTTATAGAGACTAGTG
585 AGTTCAAGATCATTCTCTCACCTTAAGAGTATTTATAGAGACTAGTG
18253568 CACGTTTAACATATTTTTCATATTTATTTTAATTTAATATAAACATACAAAGATTATTTTAATTT
1 CACGTTTAACATATTTTTCATATTTATTTTAATTTAATATAAACATACAAAGATTATTTTAATTT
18253633 TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAAAATTATTTTAAATATTT
66 TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAAAATTATTTTAAATATTT
18253698 AATTATGATACTCATTTAATAATTATTATAAAATTA-TTTTTATATTAATAATATAAATACAATA
131 AATTATGATACTCATTTAATAATTATTATAAAATTATTTTTTATATTAATAATATAAATACAATA
*
18253762 TAAATATTAATATTAGTTTTATAAATTATTATTTTATTCTTTAATCTTTAATAGTTTATCATTTT
196 TAAATATTAATATTAGTCTTATAAATTATTATTTTATTCTTTAATCTTTAATAGTTTATCATTTT
*
18253827 GAATTTAATACTAAAATTTAATATAGCGATATATGTCATAATGTATAGATCCGTAGAACTATCGC
261 GAATTTAATACTAAAATTTAATATAGTGATATATGTCATAATGTATAGATCCGTAGAACTATCGC
* * *
18253892 TAGACATGGATTAAAGAAGTCGTGACCAATCTTTATTTGTTTATGTATGATTGACCACCTAATTA
326 TAGACATGGATTAAAGGAGTCGCGACCAATCTTTATTTGTTTAAGTATGATTGACCACCTAATTA
* * * *
18253957 AATCTAATCCACGAAACTAGATTTAGGTTTAGGAGTGCAATTACAAGTGAAGAAGATTATAACAC
391 AATCTAATCCACGAAACTAGATTTAGGTTTGGGAGTGCAGTTACAAGTGAAGAAGGTTATAGCAC
* *
18254022 CCTTACAGTGCCCATCCAAAAGATGGTACCGGTTTGATTCCAAGTTATCCGAGCCTTAAAAGTAT
456 CCTTACAGTGCCCATCCAAAAGATGGTACCAGTTTGATTCCAAGTTATCCAAGCCTTAAAA-TAT
18254087 TTATATTTTATCCAAATATTTAATATTGAGAATTAACCTTAAAATGACCCCAATATTTTGGTAGT
520 TTATATTTTATCCAAATATTTAATATTGAGAATTAACCTTAAAATGACCCCAATATTTTGGTAGT
* *
18254152 AGTTCAAGATCATCCTCTCACCTTAAGAGTATTTATGGAGACTAGTG
585 AGTTCAAGATCATTCTCTCACCTTAAGAGTATTTATAGAGACTAGTG
* *
18254199 CACGTTTAACATATTTTTCATATTTATTTTAATTTAATATGAAGATACAAAGATTATTTTAATTT
1 CACGTTTAACATATTTTTCATATTTATTTTAATTTAATATAAACATACAAAGATTATTTTAATTT
18254264 TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAAAATTATTTTAAATATTT
66 TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAAAATTATTTTAAATATTT
* *
18254329 AATTATGATACTCATTTAATAATTATTACAAAATTATTTTTTATATTAATAATATGAATACAATA
131 AATTATGATACTCATTTAATAATTATTATAAAATTATTTTTTATATTAATAATATAAATACAATA
*
18254394 TAAATATTAATATTAGTCTTATAAATTATTATTTTATTCTTTAATCTTTGATAGTTTATCATTTT
196 TAAATATTAATATTAGTCTTATAAATTATTATTTTATTCTTTAATCTTTAATAGTTTATCATTTT
* *
18254459 GAATTTAATACTAAAATTTAATATAGTTATATATGTCATAATATATAGATCCGTAGAACTA-CTG
261 GAATTTAATACTAAAATTTAATATAGTGATATATGTCATAATGTATAGATCCGTAGAACTATC-G
* * * *
18254523 CTAGATATGGATTAAAGGAGTCGCGATCAATCTTTATTTGTTTAGGTGTGATTGACCACCTAATT
325 CTAGACATGGATTAAAGGAGTCGCGACCAATCTTTATTTGTTTAAGTATGATTGACCACCTAATT
* *** * *
18254588 AAATCTAATCCATGAAACTAGATTTAGGTTTGGGAGTATGGTTACATGTGAGGAAGGTTATAGCA
390 AAATCTAATCCACGAAACTAGATTTAGGTTTGGGAGTGCAGTTACAAGTGAAGAAGGTTATAGCA
* * * * * *
18254653 CCCTCACAATGACCATCCAAAAGATGGTACTAATTTGATTCCAAGTTATCCAAGCTTTAACAATA
455 CCCTTACAGTGCCCATCCAAAAGATGGTACCAGTTTGATTCCAAGTTATCCAAGCCTTAA-AATA
* * *
18254718 TTTATATTTTATCCAAATATTTAATATTGAGAATTAACTTTAAAATGACCCTACTATTTTGGTAG
519 TTTATATTTTATCCAAATATTTAATATTGAGAATTAACCTTAAAATGACCCCAATATTTTGGTAG
*
18254783 TAGTTCAAGATCATTCTCTCATCTTAAGA
584 TAGTTCAAGATCATTCTCTCACCTTAAGA
18254812 TATGGAGACC
Statistics
Matches: 1174, Mismatches: 66, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
630 4 0.00
631 598 0.51
632 570 0.49
633 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (631 bp):
CACGTTTAACATATTTTTCATATTTATTTTAATTTAATATAAACATACAAAGATTATTTTAATTT
TTAATCTTTTAATTATGATACTTAATTAGCTATTTAATTTCATATAAAAATTATTTTAAATATTT
AATTATGATACTCATTTAATAATTATTATAAAATTATTTTTTATATTAATAATATAAATACAATA
TAAATATTAATATTAGTCTTATAAATTATTATTTTATTCTTTAATCTTTAATAGTTTATCATTTT
GAATTTAATACTAAAATTTAATATAGTGATATATGTCATAATGTATAGATCCGTAGAACTATCGC
TAGACATGGATTAAAGGAGTCGCGACCAATCTTTATTTGTTTAAGTATGATTGACCACCTAATTA
AATCTAATCCACGAAACTAGATTTAGGTTTGGGAGTGCAGTTACAAGTGAAGAAGGTTATAGCAC
CCTTACAGTGCCCATCCAAAAGATGGTACCAGTTTGATTCCAAGTTATCCAAGCCTTAAAATATT
TATATTTTATCCAAATATTTAATATTGAGAATTAACCTTAAAATGACCCCAATATTTTGGTAGTA
GTTCAAGATCATTCTCTCACCTTAAGAGTATTTATAGAGACTAGTG
Found at i:18255305 original size:18 final size:18
Alignment explanation
Indices: 18255277--18255319 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18255267 AATAAAACTT
* *
18255277 AAAATAATGAAATC-AAA
1 AAAAAAATGAAAACGAAA
18255294 AAATAAAATGAAAACGAAA
1 AAA-AAAATGAAAACGAAA
18255313 AAAAAAA
1 AAAAAAA
18255320 ACCTGCGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAATGAAAACGAAA
Found at i:18255828 original size:19 final size:20
Alignment explanation
Indices: 18255791--18255828 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18255781 AAACTTAAAT
*
18255791 TCAAACCTAGAAAACCTAAG
1 TCAAACCCAGAAAACCTAAG
*
18255811 TCAAACCCA-AAAATCTAA
1 TCAAACCCAGAAAACCTAA
18255829 ATAAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (20 bp):
TCAAACCCAGAAAACCTAAG
Found at i:18256277 original size:18 final size:18
Alignment explanation
Indices: 18256254--18256339 Score: 50
Period size: 20 Copynumber: 5.2 Consensus size: 18
18256244 ATGCTATATT
18256254 ATACTATATACTATAATA
1 ATACTATATACTATAATA
18256272 ATAC----TA--ATAA-A
1 ATACTATATACTATAATA
18256283 ATACTATAT--TATAATA
1 ATACTATATACTATAATA
18256299 ATA-TATTATACTAT-ATA
1 ATACTA-TATACTATAATA
*
18256316 ATAACATATTATACTATAGTA
1 AT-AC-TA-TATACTATAATA
18256337 ATA
1 ATA
18256340 ATAAATATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 24
0.68 0.01 0.30
Matches are distributed among these distances:
11 5 0.09
12 4 0.07
14 2 0.04
15 7 0.13
16 7 0.13
17 5 0.09
18 8 0.15
20 12 0.22
21 4 0.07
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (18 bp):
ATACTATATACTATAATA
Found at i:18257756 original size:11 final size:11
Alignment explanation
Indices: 18257726--18257768 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
18257716 TAAGTTTTCC
18257726 TTTTTTTCTCAT
1 TTTTTTTCTC-T
18257738 TTTCTTTTCTCT
1 TTT-TTTTCTCT
*
18257750 TTTTTTTTTCT
1 TTTTTTTCTCT
18257761 TTCTTTTT
1 TT-TTTTT
18257769 TTCCCTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 9 0.32
12 12 0.43
13 7 0.25
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:18257767 original size:13 final size:13
Alignment explanation
Indices: 18257726--18257781 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
18257716 TAAGTTTTCC
*
18257726 TTTTTTTCTCATT
1 TTTTTTTCTCTTT
*
18257739 TTCTTTTCTCTTT
1 TTTTTTTCTCTTT
*
18257752 TTTTTTTCT-TTC
1 TTTTTTTCTCTTT
*
18257764 TTTTTTTCCCTCTT
1 TTTTTTTCTCT-TT
18257778 TTTT
1 TTTT
18257782 GCTTTTGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 10 0.29
13 20 0.57
14 5 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:18267589 original size:14 final size:14
Alignment explanation
Indices: 18267570--18267598 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18267560 CCAATCATAC
18267570 AACACTCATTCATG
1 AACACTCATTCATG
18267584 AACACTCATTCATG
1 AACACTCATTCATG
18267598 A
1 A
18267599 GTCAGGGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (14 bp):
AACACTCATTCATG
Found at i:18272332 original size:17 final size:17
Alignment explanation
Indices: 18272299--18272333 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18272289 ATATCAGTGT
* *
18272299 TAAGATCACCTTGGTAA
1 TAAGATCACCCTAGTAA
18272316 TAAGATCACCCTAGTAA
1 TAAGATCACCCTAGTAA
18272333 T
1 T
18272334 TACATTACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (17 bp):
TAAGATCACCCTAGTAA
Found at i:18274057 original size:13 final size:13
Alignment explanation
Indices: 18274039--18274063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18274029 GAACCTTGAA
18274039 ACCATCAAATTTT
1 ACCATCAAATTTT
18274052 ACCATCAAATTT
1 ACCATCAAATTT
18274064 ACTGATAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
ACCATCAAATTTT
Found at i:18274709 original size:15 final size:16
Alignment explanation
Indices: 18274674--18274706 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18274664 GAAGTAACCC
*
18274674 AAGTTTTATATTTTTA
1 AAGTTTTACATTTTTA
18274690 AAGTTTTACATTTTTA
1 AAGTTTTACATTTTTA
18274706 A
1 A
18274707 GTTCTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (16 bp):
AAGTTTTACATTTTTA
Found at i:18279474 original size:14 final size:13
Alignment explanation
Indices: 18279427--18279478 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
18279417 AAAATTTTGG
*
18279427 TATTTTTTT-TCT
1 TATTTTTTTATTT
18279439 TATTTTTGACTTATTT
1 TATTTTT---TTATTT
18279455 TATTTTTTTATTT
1 TATTTTTTTATTT
18279468 ATATTTTTTTA
1 -TATTTTTTTA
18279479 AAAAAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 10 0.29
15 2 0.06
16 9 0.26
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:18279579 original size:59 final size:64
Alignment explanation
Indices: 18279499--18279637 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 64
18279489 ATTTTTAGAT
* * *
18279499 AAAT-AAATCTTACCAACATATTGAAAAG-TTTAAAATTTGAAAATAATTTT-A-AATA-AT-A
1 AAATAAAACCTTACCAACATATTGAAAAGTTTTAAAATTTGAAAAGAATTTTGATAAAAGATAA
* * * *
18279557 AAATAAAACCTTACTAACATATTGAAAGGTTTTAAACTTTGAAAGGAATTTTGATAAAAGATAA
1 AAATAAAACCTTACCAACATATTGAAAAGTTTTAAAATTTGAAAAGAATTTTGATAAAAGATAA
18279621 AAATAAAACCTTACCAA
1 AAATAAAACCTTACCAA
18279638 TAAATTAGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.06
59 21 0.31
60 19 0.28
61 1 0.01
62 3 0.04
63 2 0.03
64 17 0.25
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (64 bp):
AAATAAAACCTTACCAACATATTGAAAAGTTTTAAAATTTGAAAAGAATTTTGATAAAAGATAA
Found at i:18279678 original size:15 final size:16
Alignment explanation
Indices: 18279660--18279701 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
18279650 TTTTAAATTT
18279660 TTTTAAAGAAAAT-AA
1 TTTTAAAGAAAATAAA
*
18279675 TTTT-AGGAAAATAAA
1 TTTTAAAGAAAATAAA
*
18279690 ATTTAAAGAAAA
1 TTTTAAAGAAAA
18279702 AAAAATCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (16 bp):
TTTTAAAGAAAATAAA
Found at i:18282017 original size:36 final size:36
Alignment explanation
Indices: 18281969--18282070 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 36
18281959 TAAAAAAAAA
* * * *
18281969 AAAGACTAAAGAGAACATATCTAGTCTTTCCACTAG
1 AAAGACTGAAGAGAATATATCTAGTCTTTCAACTAC
* *
18282005 AAAGACTGAAGAGAATATATATAGTTTTTCAACTAC
1 AAAGACTGAAGAGAATATATCTAGTCTTTCAACTAC
18282041 AAAGACTGAAGAGAATATATCTAGTCTTTC
1 AAAGACTGAAGAGAATATATCTAGTCTTTC
18282071 TTGATGATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
AAAGACTGAAGAGAATATATCTAGTCTTTCAACTAC
Found at i:18284418 original size:21 final size:21
Alignment explanation
Indices: 18284389--18284429 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18284379 CTCTAAGAAT
*
18284389 TTTCAAATGTAAATCTTTGAG
1 TTTCAAATGCAAATCTTTGAG
* *
18284410 TTTCGAATGCGAATCTTTGA
1 TTTCAAATGCAAATCTTTGA
18284430 AATTTTAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (21 bp):
TTTCAAATGCAAATCTTTGAG
Found at i:18284607 original size:24 final size:23
Alignment explanation
Indices: 18284580--18284651 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 23
18284570 AATTTTCAAG
*
18284580 TCTTTAAAACTTTTCGAATGCGAA
1 TCTTTAAAA-TTTTCGAATGAGAA
*
18284604 TCTTTAAAATTTT--ATATGTGAA
1 TCTTTAAAATTTTCGA-ATGAGAA
*
18284626 TCTTTAAAGTTTTTTCGAATGAGAA
1 TCTTTAAA--ATTTTCGAATGAGAA
18284651 T
1 T
18284652 TTTTTAGTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 1 0.03
22 14 0.35
23 4 0.10
24 13 0.32
25 7 0.17
26 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (23 bp):
TCTTTAAAATTTTCGAATGAGAA
Found at i:18284699 original size:20 final size:21
Alignment explanation
Indices: 18284674--18284735 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
18284664 ATGACTTTTC
*
18284674 GAATGTGTAT-TTGAAAATTT
1 GAATGTGAATCTTGAAAATTT
*
18284694 GAATGTGAATCTTTAAAATTTCT
1 GAATGTGAATCTTGAAAA-TT-T
18284717 CGAATGTGAATCTTTGAAA
1 -GAATGTGAATC-TTGAAA
18284736 TTCTTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.26
21 6 0.18
22 2 0.06
23 1 0.03
24 11 0.32
25 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (21 bp):
GAATGTGAATCTTGAAAATTT
Found at i:18285094 original size:17 final size:17
Alignment explanation
Indices: 18285037--18285218 Score: 88
Period size: 17 Copynumber: 10.9 Consensus size: 17
18285027 TGAATTTTTG
* *
18285037 AATTCTTGTGAATCTAA
1 AATTCTTGCGAATCTTA
* *
18285054 AAATCTTGCAAAT-TTGA
1 AATTCTTGCGAATCTT-A
* *
18285071 AAATCTTGCCAATCTTA
1 AATTCTTGCGAATCTTA
*
18285088 AATTCTTACGAATCTTA
1 AATTCTTGCGAATCTTA
* *
18285105 TATTCTTGCGAAT-TTG
1 AATTCTTGCGAATCTTA
* * *
18285121 ATTTCTTGCAAATTTTA
1 AATTCTTGCGAATCTTA
* *
18285138 AATTCTGGC-ATAT-TTT
1 AATTCTTGCGA-ATCTTA
*** *
18285154 AATTCTTATAAATCTAA
1 AATTCTTGCGAATCTTA
* * *
18285171 AAATCTTGTGACTC-TA
1 AATTCTTGCGAATCTTA
*
18285187 AATACTTGCGAAT-TTAA
1 AATTCTTGCGAATCTT-A
*
18285204 AATTCTTACGAATCT
1 AATTCTTGCGAATCT
18285219 GAAAATTGTG
Statistics
Matches: 122, Mismatches: 34, Indels: 17
0.71 0.20 0.10
Matches are distributed among these distances:
16 35 0.29
17 84 0.69
18 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (17 bp):
AATTCTTGCGAATCTTA
Found at i:18285276 original size:34 final size:34
Alignment explanation
Indices: 18285238--18285303 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
18285228 GAAATCATTG
* *
18285238 AATTCTTATGAATATAAAAATCTTGTGAATTTTT
1 AATTCTTACGAACATAAAAATCTTGTGAATTTTT
* *
18285272 AATTCTTACGAACCTAAATATCTTGTGAATTT
1 AATTCTTACGAACATAAAAATCTTGTGAATTT
18285304 GCAATTATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (34 bp):
AATTCTTACGAACATAAAAATCTTGTGAATTTTT
Found at i:18285320 original size:34 final size:34
Alignment explanation
Indices: 18285252--18285320 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
18285242 CTTATGAATA
** * *
18285252 TAAAAATCTTGTGAATTTTTAATTCTTACGAACC
1 TAAAAATCTTGTGAATTTGCAATTATTACAAACC
* *
18285286 TAAATATCTTGTGAATTTGCAATTATTGCAAACC
1 TAAAAATCTTGTGAATTTGCAATTATTACAAACC
18285320 T
1 T
18285321 TTGAAATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (34 bp):
TAAAAATCTTGTGAATTTGCAATTATTACAAACC
Found at i:18285462 original size:77 final size:77
Alignment explanation
Indices: 18285365--18285514 Score: 221
Period size: 77 Copynumber: 1.9 Consensus size: 77
18285355 TTTGAAATAT
* *
18285365 GAACCTTTGAGTCATTGAATTTCAAA-TGTGAATTTTTTAATTTCAAACTAAAAATCCCTTATTT
1 GAACCTTTGAATCATTGAATTTCAAATTGT-AATTTTTTAATTTCAAACTAAAAATCACTTATTT
18285429 TTATTTAAAGTAC
65 TTATTTAAAGTAC
* * * * *
18285442 GAACCTTTGAATCATTGAATTTTAAATTGTAATTTTTTAATTTCAAATTGAGAATCATTTATTTT
1 GAACCTTTGAATCATTGAATTTCAAATTGTAATTTTTTAATTTCAAACTAAAAATCACTTATTTT
18285507 TATTTAAA
66 TATTTAAA
18285515 ATAAAAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
77 62 0.95
78 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (77 bp):
GAACCTTTGAATCATTGAATTTCAAATTGTAATTTTTTAATTTCAAACTAAAAATCACTTATTTT
TATTTAAAGTAC
Found at i:18302556 original size:2 final size:2
Alignment explanation
Indices: 18302549--18302573 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18302539 ATTAGAAAGG
18302549 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 A
18302574 AACTTAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18308825 original size:26 final size:26
Alignment explanation
Indices: 18308795--18308844 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
18308785 TATTTGTATG
*
18308795 AAAAAATAGTTA-TATAAATATCATGT
1 AAAAAATACTTACT-TAAATATCATGT
18308821 AAAAAATACTTACTTAAATATCAT
1 AAAAAATACTTACTTAAATATCAT
18308845 ATGATAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (26 bp):
AAAAAATACTTACTTAAATATCATGT
Found at i:18308886 original size:20 final size:20
Alignment explanation
Indices: 18308861--18308901 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18308851 AAGTTATCAT
18308861 ATTATTTCATAT-ATTTTTAA
1 ATTATTT-ATATGATTTTTAA
*
18308881 ATTATTTATTTGATTTTTAA
1 ATTATTTATATGATTTTTAA
18308901 A
1 A
18308902 GAAATTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTATTTATATGATTTTTAA
Found at i:18308906 original size:24 final size:24
Alignment explanation
Indices: 18308879--18308925 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18308869 ATATATTTTT
*
18308879 AAATTATTTATTTGATTTT-TAAAG
1 AAATTATATATTT-ATTTTGTAAAG
*
18308903 AAATTGTATATTTATTTTGTAAA
1 AAATTATATATTTATTTTGTAAA
18308926 TTGTTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (24 bp):
AAATTATATATTTATTTTGTAAAG
Found at i:18311907 original size:41 final size:39
Alignment explanation
Indices: 18311846--18311926 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 39
18311836 TCAAATTAGA
*
18311846 TTTTAAGGTTTCAATACCTTTGTTTAAGAGGAGTTCTTTTC
1 TTTTAAAGTTTCAATACCTTTGTTTAA-AGGAGTT-TTTTC
* * *
18311887 TTTTAAAGTTTTAATGCCTTTGTTTAAATGAGTTTTTTC
1 TTTTAAAGTTTCAATACCTTTGTTTAAAGGAGTTTTTTC
18311926 T
1 T
18311927 AAGATGAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 6 0.17
40 6 0.17
41 24 0.67
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.53
Consensus pattern (39 bp):
TTTTAAAGTTTCAATACCTTTGTTTAAAGGAGTTTTTTC
Found at i:18311964 original size:50 final size:50
Alignment explanation
Indices: 18311887--18312041 Score: 120
Period size: 50 Copynumber: 3.1 Consensus size: 50
18311877 AGTTCTTTTC
* * * * *
18311887 TTTTAAAGTTTTAATGCCTTTGTTTAAATGAGTTTTTTCTAAGATGAGAT
1 TTTTAAAGTTTTAATGCCTTTCTTTAAAGGAGCTTTTCCCAAGATGAGAT
**
18311937 TTTTAAAGTATTT-ATGTTTTTCTTTAAAGGAGCTTTTCCCAAGATGAG--
1 TTTTAAAGT-TTTAATGCCTTTCTTTAAAGGAGCTTTTCCCAAGATGAGAT
* ** * * * * * *
18311985 GTTTAAAG-TTGCATAGCTTTTGTTTAAAGGAACTTTTCCTAAGATGAAAA
1 TTTTAAAGTTTTAAT-GCCTTTCTTTAAAGGAGCTTTTCCCAAGATGAGAT
18312035 TTTTAAA
1 TTTTAAA
18312042 CTTGCACATC
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
46 2 0.02
47 2 0.02
48 35 0.41
50 43 0.51
51 3 0.04
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.45
Consensus pattern (50 bp):
TTTTAAAGTTTTAATGCCTTTCTTTAAAGGAGCTTTTCCCAAGATGAGAT
Found at i:18312187 original size:16 final size:16
Alignment explanation
Indices: 18312166--18312203 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18312156 GGGAAAAGAG
*
18312166 TTTTCATCTTAATTTA
1 TTTTCATCTTAATTCA
*
18312182 TTTTCATCTTGATTCA
1 TTTTCATCTTAATTCA
18312198 TTTTCA
1 TTTTCA
18312204 AAAAGTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTCATCTTAATTCA
Found at i:18313633 original size:19 final size:18
Alignment explanation
Indices: 18313609--18313661 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
18313599 AGAATAAGGG
*
18313609 AGAAAGAAGAAAAAGGAAA
1 AGAAAGAAGAAAAA-AAAA
18313628 AGAAAGAAAGAAAAAAAAA
1 AGAAAG-AAGAAAAAAAAA
*
18313647 AAAAGAGAAGAAAAA
1 AGAA-AGAAGAAAAA
18313662 TGTGGGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AGAAAGAAGAAAAAAAAA
Found at i:18313635 original size:23 final size:23
Alignment explanation
Indices: 18313609--18313659 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
18313599 AGAATAAGGG
**
18313609 AGAAAGAAGAAAAAGGAAAAGA-A
1 AGAAAGAA-AAAAAAAAAAAGAGA
18313632 AGAAAGAAAAAAAAAAAAAGAGA
1 AGAAAGAAAAAAAAAAAAAGAGA
18313655 AGAAA
1 AGAAA
18313660 AATGTGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AGAAAGAAAAAAAAAAAAAGAGA
Found at i:18324195 original size:186 final size:185
Alignment explanation
Indices: 18323644--18324313 Score: 867
Period size: 186 Copynumber: 3.6 Consensus size: 185
18323634 TCATAAGGAA
* * * *
18323644 TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCTTATGATTTACGTACATAATAA
1 TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTA
** * * * *
18323709 TTGAAGGTGTTTTTTTAGAACCAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
66 TTGAAGGCATTTTTTTAGAACAAATGCCTTCAATAA-TTTCTTTTAAAATTTTTGGGATTATTAA
* * * *
18323774 AAGCATCTTCCAGTGAAAAACGCCTTTAATTTTCTATAACTCAAATTTTAAAACGG
130 AAGCATCTTCCAGTGAAAAATGCCTTCAATTTTCCATAACTCAAATTTTAAGACGG
* * * * * * **
18323830 TTAATGAAGTCATTTATTCTAAAAAAATGCCTTCGCTAATTTC-TCTTAATTTACGTACATTTTT
1 TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCTTC-TAATTTACATACATAATT
*
18323894 ATTGAAGGCATTTTTTTTAGAATAAATGCCTTCAATAATTTCTTATTAAAATTTTTGGGATTATT
65 ATTGAAGGCA-TTTTTTTAGAACAAATGCCTTCAATAATTTCTT-TTAAAATTTTTGGGATTATT
* * * * *
18323959 AAAGGCGTCTTCCATTGAAAAATGCCTTCAATTTTTCACAACTCAAATTTTAAGACGG
128 AAAAGCATCTTCCAGTGAAAAATGCCTTCAATTTTCCATAACTCAAATTTTAAGACGG
*** ** *
18324017 TTAGTGAAGGCATTTATTCTAGAAAAACAACTTCACTAATTTTTTCTAATTTACATACGTAATTA
1 TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTA
* * *
18324082 TTGAAGGTATTTTTTTAGAATAAATGCCTTCACTAATTTTCTTTTAAAATTTTTGGGATTATTAA
66 TTGAAGGCATTTTTTTAGAACAAATGCCTTCAATAA-TTTCTTTTAAAATTTTTGGGATTATTAA
* * * *
18324147 AAGCATCTTCTAGTGAAAAATGCCTTGAATTTTCCATAACTTAAATTTTAAGACAG
130 AAGCATCTTCCAGTGAAAAATGCCTTCAATTTTCCATAACTCAAATTTTAAGACGG
*
18324203 TTAGTGAAGGCATTTATTCTAGAAAAAGGCCTTCACTAATTCCTTCTAATTTACATACATAATTA
1 TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTA
* * *
18324268 TTAAAGGCA-TTTTTTAGGAACAAATGCCTTCACTAATTCCTTTTAA
66 TTGAAGGCATTTTTTTA-GAACAAATGCCTTCAATAATTTCTTTTAA
18324314 TTTTTGTACA
Statistics
Matches: 419, Mismatches: 59, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
185 17 0.04
186 244 0.58
187 156 0.37
188 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (185 bp):
TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTA
TTGAAGGCATTTTTTTAGAACAAATGCCTTCAATAATTTCTTTTAAAATTTTTGGGATTATTAAA
AGCATCTTCCAGTGAAAAATGCCTTCAATTTTCCATAACTCAAATTTTAAGACGG
Done.