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 126 of 129
Found at i:23067701 original size:16 final size:16
Alignment explanation
Indices: 23067650--23067717 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
23067640 AGTTTCGAAA
*
23067650 TTTAGGATTTGAAGCGT
1 TTTAGG-TTTGAAGGGT
* * *
23067667 TTAAGGTTTGAAAGAT
1 TTTAGGTTTGAAGGGT
*
23067683 TTTAGGTTTGCAGGGT
1 TTTAGGTTTGAAGGGT
*
23067699 TTTAGGGTTTCAAGGGT
1 TTTA-GGTTTGAAGGGT
23067716 TT
1 TT
23067718 AAAAAGATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 23 0.57
17 17 0.43
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.43
Consensus pattern (16 bp):
TTTAGGTTTGAAGGGT
Found at i:23067765 original size:43 final size:43
Alignment explanation
Indices: 23067677--23067764 Score: 119
Period size: 41 Copynumber: 2.1 Consensus size: 43
23067667 TTAAGGTTTG
23067677 AAAGATTTTAGGTTTGCAGGGTTTTAGGGTTTCAAGGGTTTAA
1 AAAGATTTTAGGTTTGCAGGGTTTTAGGGTTTCAAGGGTTTAA
* *
23067720 AAAGATTTTGAGTTTTG-A-GGTTTTA-GGTTTCAAGGTTTTGAA
1 AAAGATTTT-AGGTTTGCAGGGTTTTAGGGTTTCAAGGGTTT-AA
23067762 AAA
1 AAA
23067765 AAAATGAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
41 13 0.32
42 12 0.29
43 10 0.24
44 6 0.15
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.41
Consensus pattern (43 bp):
AAAGATTTTAGGTTTGCAGGGTTTTAGGGTTTCAAGGGTTTAA
Found at i:23067901 original size:14 final size:13
Alignment explanation
Indices: 23067872--23067906 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
23067862 TTTTATAAAA
*
23067872 ATTTATTATTATT
1 ATTTAATATTATT
23067885 ATTTAATATTAATT
1 ATTTAATATT-ATT
23067899 ATTTAATA
1 ATTTAATA
23067907 ATTCTCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTAATATTATT
Found at i:23069972 original size:12 final size:12
Alignment explanation
Indices: 23069944--23069984 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
23069934 CTCTTCAAAA
*
23069944 GTTTTTTTTTTA
1 GTTTTTTTTTTG
*
23069956 CTTTTTTTTTTG
1 GTTTTTTTTTTG
*
23069968 GTTTTTTCTTTG
1 GTTTTTTTTTTG
23069980 GTTTT
1 GTTTT
23069985 GGTTTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.80
Consensus pattern (12 bp):
GTTTTTTTTTTG
Found at i:23070062 original size:36 final size:36
Alignment explanation
Indices: 23070022--23070100 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
23070012 GAGTCAAGTG
* *
23070022 ATAAAGAATGATCGGGA-AGACATTGTAAGTCAAAAA
1 ATAAAGAATGATCAGGACA-ACATAGTAAGTCAAAAA
* *
23070058 ATAAAGAATGATTAGGACAACATAGTAAGTTAAAAA
1 ATAAAGAATGATCAGGACAACATAGTAAGTCAAAAA
23070094 ATAAAGA
1 ATAAAGA
23070101 GCAACCGGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.20
Consensus pattern (36 bp):
ATAAAGAATGATCAGGACAACATAGTAAGTCAAAAA
Found at i:23071119 original size:86 final size:85
Alignment explanation
Indices: 23070995--23071224 Score: 221
Period size: 85 Copynumber: 2.7 Consensus size: 85
23070985 TATTAGTGCT
* ** * * * * *
23070995 AAATAATTTGAGCTTGCATGTTAGCTATATTAGACTTAAATCTTATTGATGTCAGTTAAACTA-A
1 AAATAATTTGGGCTTGCATGCCAGCTATACTAGGCTTAAAT-TCATTGATGCCAGCTAAAC-AGA
*
23071059 GTTTAAA-ATTTCATTGAAGGCC
64 GCTTAAATA-TTCATTGAAGGCC
* * * *
23071081 AGATAATTTGGGCTTGCATGCCAGCTACACTGGGCTTAAATTCATTGGTGCCAGCTAAACAGAGC
1 AAATAATTTGGGCTTGCATGCCAGCTATACTAGGCTTAAATTCATTGATGCCAGCTAAACAGAGC
** *
23071146 TTAAATATTCATTGGTGGCT
66 TTAAATATTCATTGAAGGCC
* ** * *
23071166 AAATAATTAGGGCTTGCATGCCTTCTATACTAGGCTTAAATTTCATTAATGCTAGCTAA
1 AAATAATTTGGGCTTGCATGCCAGCTATACTAGGCTTAAA-TTCATTGATGCCAGCTAA
23071225 CTTAGGTTTA
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
84 1 0.01
85 66 0.57
86 49 0.42
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (85 bp):
AAATAATTTGGGCTTGCATGCCAGCTATACTAGGCTTAAATTCATTGATGCCAGCTAAACAGAGC
TTAAATATTCATTGAAGGCC
Found at i:23071135 original size:30 final size:32
Alignment explanation
Indices: 23071099--23071162 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
23071089 TGGGCTTGCA
* * *
23071099 TGCCAGCTACACTGGGCTT-AA-ATTCATTGG
1 TGCCAGCTAAACAGAGCTTAAATATTCATTGG
23071129 TGCCAGCTAAACAGAGCTTAAATATTCATTGG
1 TGCCAGCTAAACAGAGCTTAAATATTCATTGG
23071161 TG
1 TG
23071163 GCTAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.55
31 2 0.07
32 11 0.38
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (32 bp):
TGCCAGCTAAACAGAGCTTAAATATTCATTGG
Found at i:23071262 original size:86 final size:85
Alignment explanation
Indices: 23071080--23071262 Score: 203
Period size: 85 Copynumber: 2.2 Consensus size: 85
23071070 CATTGAAGGC
* **
23071080 CAGATAATTT-GGGCTTGCATGCCAGCTACACTGGGCTTAAATTCATTGGTGCCAGCTAAACAGA
1 CAGATAATTTAGGGCTTGCATGCCAGCTACACTAGGCTTAAATTCATTAATGCCAGCTAAACAGA
23071144 GCTTAAATATTCATTGGTGG
66 GCTTAAATATTCATTGGTGG
* ** * *
23071164 CTAAATAA-TTAGGGCTTGCATGCCTTCTATACTAGGCTTAAATTTCATTAATGCTAGCT-AACT
1 C-AGATAATTTAGGGCTTGCATGCCAGCTACACTAGGCTTAAA-TTCATTAATGCCAGCTAAAC-
* * *
23071227 TAG-GTTTAAATCTTCATTGGTGT
63 -AGAGCTTAAATATTCATTGGTGG
23071250 CAGATAATTTAGG
1 CAGATAATTTAGG
23071263 CTTAAATTCT
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
84 3 0.04
85 40 0.49
86 36 0.44
87 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (85 bp):
CAGATAATTTAGGGCTTGCATGCCAGCTACACTAGGCTTAAATTCATTAATGCCAGCTAAACAGA
GCTTAAATATTCATTGGTGG
Found at i:23072182 original size:34 final size:35
Alignment explanation
Indices: 23072104--23072194 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 35
23072094 TTGAGGTATA
*
23072104 TTCCTTTTTGCTTTTCATTCATTCATTTCATTTTTT
1 TTCCTTTTT-ATTTTCATTCATTCATTTCATTTTTT
23072140 TTCC---TTATTTT-ATTC-TTCATTTC-TTTTCATT
1 TTCCTTTTTATTTTCATTCATTCATTTCATTTT--TT
* *
23072171 TTCCTTTTTATTTGCATTCTTTCA
1 TTCCTTTTTATTTTCATTCATTCA
23072195 CTAAGTGGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
29 4 0.09
30 8 0.17
31 10 0.22
32 4 0.09
33 2 0.04
34 6 0.13
35 4 0.09
36 8 0.17
ACGTcount: A:0.12, C:0.20, G:0.02, T:0.66
Consensus pattern (35 bp):
TTCCTTTTTATTTTCATTCATTCATTTCATTTTTT
Found at i:23072667 original size:11 final size:11
Alignment explanation
Indices: 23072643--23072699 Score: 78
Period size: 11 Copynumber: 5.0 Consensus size: 11
23072633 ATAACCATTC
23072643 TTCTTTTCTTTT
1 TTCTTTT-TTTT
23072655 TTCTTTTTTTT
1 TTCTTTTTTTT
23072666 TTCTTTTTTTT
1 TTCTTTTTTTT
*
23072677 GTTATTTTTTTT
1 -TTCTTTTTTTT
*
23072689 CTCTTTTTTTT
1 TTCTTTTTTTT
23072700 ACATGTACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
11 24 0.59
12 17 0.41
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.86
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:23072693 original size:23 final size:22
Alignment explanation
Indices: 23072644--23072699 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
23072634 TAACCATTCT
* *
23072644 TCTTTTCTTTTTTCTTTTTTTTT
1 TCTTTT-TTTTTTATTTTTTTTC
23072667 TCTTTTTTTTGTTATTTTTTTTC
1 TCTTTTTTTT-TTATTTTTTTTC
23072690 TCTTTTTTTT
1 TCTTTTTTTT
23072700 ACATGTACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.86
Consensus pattern (22 bp):
TCTTTTTTTTTTATTTTTTTTC
Found at i:23073406 original size:11 final size:11
Alignment explanation
Indices: 23073390--23073427 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
23073380 ATTCAAAACT
23073390 TTTTTTTTCTC
1 TTTTTTTTCTC
*
23073401 TTTTTTGTCT-
1 TTTTTTTTCTC
23073411 TTTTTTTTC-C
1 TTTTTTTTCTC
23073421 TTTTTTT
1 TTTTTTT
23073428 AGGTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:23073427 original size:21 final size:21
Alignment explanation
Indices: 23073388--23073426 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23073378 AGATTCAAAA
23073388 CTTTTTTTTTCTCTTTTTTGT
1 CTTTTTTTTTCTCTTTTTTGT
23073409 CTTTTTTTTTC-CTTTTTT
1 CTTTTTTTTTCTCTTTTTT
23073427 TAGGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (21 bp):
CTTTTTTTTTCTCTTTTTTGT
Found at i:23076787 original size:22 final size:19
Alignment explanation
Indices: 23076739--23076796 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
23076729 CCCATTCGAT
23076739 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23076758 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23076777 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23076796 G
1 G
23076797 AACCCATTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (19 bp):
GTTTGCAGCAGCTTCAACA
Found at i:23076813 original size:32 final size:32
Alignment explanation
Indices: 23076722--23076828 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
23076712 CCCGATCTTG
*
23076722 AACAGAACCCATTCGATGTTTGCAGCAGCTTC
1 AACAGAACCCATTCGACGTTTGCAGCAGCTTC
** * *
23076754 AACAGTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
1 AACAG--AAC-CCA--TTCGAC-GTTTGCAGCAGCTTC
* *
23076792 AACAGAACCCATTCGACGTTTGTAGCAGCTTT
1 AACAGAACCCATTCGACGTTTGCAGCAGCTTC
23076824 AACAG
1 AACAG
23076829 TTTGCAGATC
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
32 23 0.40
33 5 0.09
34 1 0.02
35 4 0.07
36 1 0.02
37 4 0.07
38 20 0.34
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (32 bp):
AACAGAACCCATTCGACGTTTGCAGCAGCTTC
Found at i:23076908 original size:57 final size:57
Alignment explanation
Indices: 23076815--23077332 Score: 386
Period size: 57 Copynumber: 8.9 Consensus size: 57
23076805 CGACGTTTGT
* *
23076815 AGCAGCTTTAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGGAGCTTGC
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
*
23076872 AGCAGCTTCAACAGTTTGCAGATCTTGAACAAAACCCATTCGACG--T-----TTGC
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
* * **** * *
23076922 AGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCA---GA--TCTTGAACAGTTTAC
1 AGCAGCTTCAACAGTTTGCAG-ATCTTGAACAGAACCCATTCGACGT-TTG--CAGCTTGC
**
23076978 AGCAGCTTCAACAGTTTATAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
* * ** * *
23077035 AGCAGCTTCAACATTTTACAGATCTTGAACA-ATTTACAGTAGCTTCAACAGTTTACAGATCTTG
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGA---AC-CCA--TTCGAC-GTTTGCAG--CTTG
23077099 AAC
57 --C
* * * ** * * *
23077102 AGAACCCATTCGAC-GTTTGCAG--CTTGCAACAGCTTCAACAGTTTGTA-GATCTTGAACAGTT
1 AGCA-GC-TTCAACAGTTTGCAGATCTTG-AACAG-AAC-CCA-TTCG-ACG-T-TTG--CAGCT
23077163 TGC
55 TGC
* *
23077166 AGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTACAGCTTGC
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
*
23077223 AGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
* * *
23077280 AGCAGCTTCAACAGTTTGCAGATCTTGAATAGAACCCCTTCGATGTTTGCAGC
1 AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGC
23077333 AGCTTCAACA
Statistics
Matches: 365, Mismatches: 55, Indels: 82
0.73 0.11 0.16
Matches are distributed among these distances:
48 2 0.01
49 1 0.00
50 25 0.07
51 10 0.03
55 12 0.03
56 23 0.06
57 190 0.52
58 2 0.01
59 7 0.02
60 4 0.01
61 4 0.01
62 12 0.03
63 16 0.04
64 10 0.03
65 11 0.03
66 13 0.04
67 8 0.02
68 10 0.03
69 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (57 bp):
AGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGC
Found at i:23076920 original size:31 final size:31
Alignment explanation
Indices: 23076828--23077331 Score: 109
Period size: 37 Copynumber: 16.3 Consensus size: 31
23076818 AGCTTTAACA
23076828 GTTTGCAGATCTTGAACAGAACCCATTCGAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * * *
23076859 GTTTG--GAGCTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
*
23076884 AGTTTGCAGATCTTGAACAAAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * ** * *
23076916 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAAC
1 GTTTGCAG-ATCTTGAACAG--AAC-CCA--TTCGAC
* * *
23076953 AGTTTGCAGATCTTGAACAGTTTACAGCAGCTTCAAC
1 -GTTTGCAGATCTTGAACAG--AAC-CCA--TTCGAC
**
23076990 AGTTTATAGATCTTGAACAGAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * *
23077022 GTTTGCAG--CTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * ** *
23077047 ATTTTACAGATCTTGAACA-ATTTACAGTAGCTTCAAC
1 -GTTTGCAGATCTTGAACAGA---AC-CCA--TTCGAC
*
23077084 AGTTTACAGATCTTGAACAGAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
*
23077116 GTTTGCAG--CTTGCAACAG----C-TTCAAC
1 GTTTGCAGATCTTG-AACAGAACCCATTCGAC
* ** * *
23077141 AGTTTGTAGATCTTGAACAGTTTGCAGCAGCTTCAAC
1 -GTTTGCAGATCTTGAACAG--AAC-CCA--TTCGAC
*
23077178 AGTTTACAGATCTTGAACAGAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * * *
23077210 GTTTACAG--CTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
*
23077235 AGTTTACAGATCTTGAACAGAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * *
23077267 GTTTGCAG--CTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * *
23077292 AGTTTGCAGATCTTGAATAGAACCCCTTCGAT
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
23077324 GTTTGCAG
1 GTTTGCAG
23077332 CAGCTTCAAC
Statistics
Matches: 356, Mismatches: 61, Indels: 112
0.67 0.12 0.21
Matches are distributed among these distances:
25 25 0.07
26 39 0.11
27 21 0.06
28 22 0.06
29 22 0.06
30 17 0.05
31 52 0.15
32 38 0.11
34 8 0.02
35 7 0.02
37 96 0.27
38 9 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (31 bp):
GTTTGCAGATCTTGAACAGAACCCATTCGAC
Found at i:23076975 original size:37 final size:37
Alignment explanation
Indices: 23076871--23077009 Score: 146
Period size: 37 Copynumber: 3.9 Consensus size: 37
23076861 TTGGAGCTTG
**
23076871 CAGCAGCTTCAACAGTTTGCAGATCTTGAACA--AAA
1 CAGCAGCTTCAACAGTTTGCAGATCTTGAACAGTTTA
* * * * *
23076906 C-CCA--TTCGAC-GTTTGCAGCAGCTTCAACAGTTTG
1 CAGCAGCTTCAACAGTTTGCAG-ATCTTGAACAGTTTA
23076940 CAGCAGCTTCAACAGTTTGCAGATCTTGAACAGTTTA
1 CAGCAGCTTCAACAGTTTGCAGATCTTGAACAGTTTA
**
23076977 CAGCAGCTTCAACAGTTTATAGATCTTGAACAG
1 CAGCAGCTTCAACAGTTTGCAGATCTTGAACAG
23077010 AACCCATTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
31 8 0.10
32 13 0.16
34 3 0.04
35 3 0.04
37 48 0.58
38 8 0.10
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (37 bp):
CAGCAGCTTCAACAGTTTGCAGATCTTGAACAGTTTA
Found at i:23076995 original size:19 final size:19
Alignment explanation
Indices: 23076916--23076994 Score: 124
Period size: 19 Copynumber: 4.2 Consensus size: 19
23076906 CCCATTCGAC
23076916 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23076935 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
* *
23076954 GTTTGCAG-ATCTTGAACA
1 GTTTGCAGCAGCTTCAACA
*
23076972 GTTTACAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23076991 GTTT
1 GTTT
23076995 ATAGATCTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
18 15 0.28
19 39 0.72
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (19 bp):
GTTTGCAGCAGCTTCAACA
Found at i:23077023 original size:163 final size:158
Alignment explanation
Indices: 23076758--23077066 Score: 456
Period size: 163 Copynumber: 1.9 Consensus size: 158
23076748 AGCTTCAACA
* **
23076758 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGACGTTTGTAGCAGCTT
1 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACACATTCGACGTTTACAGCAGCTT
* * *
23076823 TAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGGAGCTTGCAGCAGCTTCAACAGTT
66 CAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGCAGCAGCTTCAACAGTT
*
23076888 TGCAGATCTTGAACAAAACCCATTCGAC
131 TACAGATCTTGAACAAAACCCATTCGAC
** * *
23076916 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCAGATCTTGAACAGTTTACAGC
1 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAG--AACACAT-TCG-AC-GTTTACAGC
*
23076981 AGCTTCAACAGTTTATAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGCAGCAGCTTCAA
61 AGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGCAGCAGCTTCAA
*
23077046 CATTTTACAGATCTTGAACAA
126 CAGTTTACAGATCTTGAACAA
23077067 TTTACAGTAG
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
158 39 0.29
160 3 0.02
161 2 0.02
162 2 0.02
163 87 0.65
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (158 bp):
GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACACATTCGACGTTTACAGCAGCTT
CAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGCTTGCAGCAGCTTCAACAGTT
TACAGATCTTGAACAAAACCCATTCGAC
Found at i:23077047 original size:94 final size:94
Alignment explanation
Indices: 23076937--23077254 Score: 546
Period size: 94 Copynumber: 3.4 Consensus size: 94
23076927 CTTCAACAGT
* *
23076937 TTGCAGCAGCTTCAACAGTTTGCAGATCTTGAACAGTTTACAGCAGCTTCAACAGTTTATAGATC
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGTTTACAGCAGCTTCAACAGTTTACAGATC
23077002 TTGAACAGAACCCATTCGACGTTTGCAGC
66 TTGAACAGAACCCATTCGACGTTTGCAGC
* * *
23077031 TTGCAGCAGCTTCAACATTTTACAGATCTTGAACAATTTACAGTAGCTTCAACAGTTTACAGATC
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGTTTACAGCAGCTTCAACAGTTTACAGATC
23077096 TTGAACAGAACCCATTCGACGTTTGCAGC
66 TTGAACAGAACCCATTCGACGTTTGCAGC
* ** *
23077125 TTGCAACAGCTTCAACAGTTTGTAGATCTTGAACAGTTTGCAGCAGCTTCAACAGTTTACAGATC
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGTTTACAGCAGCTTCAACAGTTTACAGATC
*
23077190 TTGAACAGAACCCATTCGACGTTTACAGC
66 TTGAACAGAACCCATTCGACGTTTGCAGC
23077219 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAG
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAG
23077255 AACCCATTCG
Statistics
Matches: 208, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 208 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (94 bp):
TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGTTTACAGCAGCTTCAACAGTTTACAGATC
TTGAACAGAACCCATTCGACGTTTGCAGC
Found at i:23077070 original size:18 final size:18
Alignment explanation
Indices: 23077044--23077102 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
23077034 CAGCAGCTTC
*
23077044 AACATTTTACAGATCTTG
1 AACAATTTACAGATCTTG
* *
23077062 AACAATTTACAGTAGCTTC
1 AACAATTTACAG-ATCTTG
*
23077081 AACAGTTTACAGATCTTG
1 AACAATTTACAGATCTTG
23077099 AACA
1 AACA
23077103 GAACCCATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (18 bp):
AACAATTTACAGATCTTG
Found at i:23077084 original size:19 final size:18
Alignment explanation
Indices: 23077038--23077093 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
23077028 AGCTTGCAGC
*
23077038 AGCTTCAACATTTTACAG
1 AGCTTCAACAATTTACAG
* *
23077056 ATCTTGAACAATTTACAG
1 AGCTTCAACAATTTACAG
*
23077074 TAGCTTCAACAGTTTACAG
1 -AGCTTCAACAATTTACAG
23077093 A
1 A
23077094 TCTTGAACAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (18 bp):
AGCTTCAACAATTTACAG
Found at i:23077161 original size:18 final size:18
Alignment explanation
Indices: 23077138--23077197 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
23077128 CAACAGCTTC
*
23077138 AACAGTTTGTAGATCTTG
1 AACAGTTTGCAGATCTTG
* *
23077156 AACAGTTTGCAGCAGCTTC
1 AACAGTTTGCAG-ATCTTG
*
23077175 AACAGTTTACAGATCTTG
1 AACAGTTTGCAGATCTTG
23077193 AACAG
1 AACAG
23077198 AACCCATTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.57
19 15 0.43
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (18 bp):
AACAGTTTGCAGATCTTG
Found at i:23077166 original size:37 final size:37
Alignment explanation
Indices: 23077125--23077197 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
23077115 CGTTTGCAGC
**
23077125 TTGCAACAGCTTCAACAGTTTGTAGATCTTGAACAGT
1 TTGCAACAGCTTCAACAGTTTACAGATCTTGAACAGT
*
23077162 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAG
1 TTGCAACAGCTTCAACAGTTTACAGATCTTGAACAG
23077198 AACCCATTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (37 bp):
TTGCAACAGCTTCAACAGTTTACAGATCTTGAACAGT
Found at i:23077300 original size:26 final size:26
Alignment explanation
Indices: 23077157--23077296 Score: 86
Period size: 26 Copynumber: 5.0 Consensus size: 26
23077147 TAGATCTTGA
*
23077157 ACAGTTTGCAGCAGCTTCAACAGTTT
1 ACAGCTTGCAGCAGCTTCAACAGTTT
* * *
23077183 ACAGATCTTGAACAGAACCCATTCGAC-GTTT
1 ACAG--CTTG--CAGCA-GC-TTCAACAGTTT
23077214 ACAGCTTGCAGCAGCTTCAACAGTTT
1 ACAGCTTGCAGCAGCTTCAACAGTTT
* * *
23077240 ACAGATCTTGAACAGAACCCATTCGAC-GTTT
1 ACAG--CTTG--CAGCA-GC-TTCAACAGTTT
*
23077271 GCAGCTTGCAGCAGCTTCAACAGTTT
1 ACAGCTTGCAGCAGCTTCAACAGTTT
23077297 GCAGATCTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
25 10 0.12
26 18 0.21
27 8 0.09
28 7 0.08
29 8 0.09
30 8 0.09
31 17 0.20
32 10 0.12
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (26 bp):
ACAGCTTGCAGCAGCTTCAACAGTTT
Found at i:23077372 original size:22 final size:19
Alignment explanation
Indices: 23077324--23077381 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
23077314 CCCCTTCGAT
23077324 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23077343 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
*
23077362 GTTTACAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
23077381 G
1 G
23077382 AACTCATTCG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (19 bp):
GTTTGCAGCAGCTTCAACA
Found at i:23077404 original size:70 final size:69
Alignment explanation
Indices: 23077276--23077413 Score: 204
Period size: 70 Copynumber: 2.0 Consensus size: 69
23077266 CGTTTGCAGC
* * * * * *
23077276 TTGCAGCAGCTTCAACAGTTTGCAGATCTTGAATAGAACCCCTTCGATGTTTGCAGCAGCTTCAA
1 TTGCAGCAGCTTCAACAGTTTACAGAGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCAA
23077341 CAGT
66 CAGT
*
23077345 TTGCAGCAGCTTCAACAGTTTACAGCAGCTTCAACAGAACTCATTCGACGTTTGCAGCAGCTTCA
1 TTGCAGCAGCTTCAACAGTTTACAG-AGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCA
23077410 ACAG
65 ACAG
23077414 AACCCGATCC
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
69 24 0.39
70 37 0.61
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (69 bp):
TTGCAGCAGCTTCAACAGTTTACAGAGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCAA
CAGT
Found at i:23077641 original size:25 final size:25
Alignment explanation
Indices: 23077613--23077666 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
23077603 GTTTAAATAA
* *
23077613 GAATGCCTTAATTAAATACCTTTAT
1 GAATGCCTAAATTAAATACCCTTAT
23077638 GAATGCCTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
23077663 GAAT
1 GAAT
23077667 ATTATGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCCTTAT
Found at i:23083273 original size:22 final size:24
Alignment explanation
Indices: 23083245--23083295 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
23083235 CGAGTTTTGA
*
23083245 ATTTTAAGG-TTTGGGGTTCTA-G
1 ATTTTAAGGTTTTGGGGGTCTATG
23083267 ATTTTAAGGTTTTGGGGGTCTATG
1 ATTTTAAGGTTTTGGGGGTCTATG
23083291 ATTTT
1 ATTTT
23083296 GGTGTTTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
23 11 0.42
24 6 0.23
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (24 bp):
ATTTTAAGGTTTTGGGGGTCTATG
Found at i:23083407 original size:17 final size:17
Alignment explanation
Indices: 23083385--23083443 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
23083375 TAAGATTCAG
23083385 AGGTTTAAGGGTTTGAA
1 AGGTTTAAGGGTTTGAA
*
23083402 AGGTTT-AGGGTTTG-G
1 AGGTTTAAGGGTTTGAA
* *
23083417 AGAGTTTTAGGGTTTTAA
1 AG-GTTTAAGGGTTTGAA
23083435 A-GTTTAAGG
1 AGGTTTAAGG
23083444 TTTTAAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.06
16 19 0.54
17 13 0.37
18 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (17 bp):
AGGTTTAAGGGTTTGAA
Found at i:23083413 original size:16 final size:16
Alignment explanation
Indices: 23083385--23083461 Score: 68
Period size: 17 Copynumber: 4.8 Consensus size: 16
23083375 TAAGATTCAG
23083385 AGGTTTAAGGGTTTGAA
1 AGGTTT-AGGGTTTGAA
*
23083402 AGGTTTAGGGTTTGGAG
1 AGGTTTAGGGTTT-GAA
* *
23083419 AGTTTTAGGGTTTTAA
1 AGGTTTAGGGTTTGAA
* *
23083435 A-GTTTAAGGTTT-TA
1 AGGTTTAGGGTTTGAA
*
23083449 AGTTTTAGGGTTT
1 AGGTTTAGGGTTT
23083462 TAAGGGTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 2 0.04
15 18 0.37
16 9 0.18
17 20 0.41
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.44
Consensus pattern (16 bp):
AGGTTTAGGGTTTGAA
Found at i:23083433 original size:8 final size:8
Alignment explanation
Indices: 23083405--23083472 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
23083395 GTTTGAAAGG
23083405 TTTAGGGT
1 TTTAGGGT
* *
23083413 TTGGAGAGT
1 TT-TAGGGT
23083422 TTTAGGGT
1 TTTAGGGT
**
23083430 TTTAAAG-
1 TTTAGGGT
*
23083437 TTTAAGGT
1 TTTAGGGT
*
23083445 TTTA-AGT
1 TTTAGGGT
23083452 TTTAGGGT
1 TTTAGGGT
23083460 TTTAAGGGT
1 TTT-AGGGT
23083469 TTTA
1 TTTA
23083473 AGTTTTAGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
7 12 0.26
8 21 0.45
9 14 0.30
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (8 bp):
TTTAGGGT
Found at i:23083445 original size:15 final size:16
Alignment explanation
Indices: 23083387--23083464 Score: 79
Period size: 15 Copynumber: 4.9 Consensus size: 16
23083377 AGATTCAGAG
* *
23083387 GTTTAAGGGTTTGAAA
1 GTTTTAGGGTTTTAAA
* * *
23083403 GGTTTAGGGTTTGGAGA
1 GTTTTAGGGTTT-TAAA
23083420 GTTTTAGGGTTTTAAA
1 GTTTTAGGGTTTTAAA
*
23083436 G-TTTAAGGTTTT-AA
1 GTTTTAGGGTTTTAAA
23083450 GTTTTAGGGTTTTAA
1 GTTTTAGGGTTTTAA
23083465 GGGTTTTAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
14 3 0.06
15 20 0.39
16 14 0.27
17 14 0.27
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (16 bp):
GTTTTAGGGTTTTAAA
Found at i:23083446 original size:7 final size:8
Alignment explanation
Indices: 23083420--23083479 Score: 63
Period size: 7 Copynumber: 7.8 Consensus size: 8
23083410 GGTTTGGAGA
*
23083420 GTTTTAGG
1 GTTTTAAG
*
23083428 GTTTTAAA
1 GTTTTAAG
23083436 G-TTTAAG
1 GTTTTAAG
23083443 GTTTTAA-
1 GTTTTAAG
*
23083450 GTTTTAGG
1 GTTTTAAG
23083458 GTTTTAAGG
1 GTTTTAA-G
23083467 GTTTTAA-
1 GTTTTAAG
23083474 GTTTTA
1 GTTTTA
23083480 GAAAGTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
7 18 0.41
8 18 0.41
9 8 0.18
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (8 bp):
GTTTTAAG
Found at i:23083469 original size:9 final size:9
Alignment explanation
Indices: 23083388--23083474 Score: 57
Period size: 9 Copynumber: 10.7 Consensus size: 9
23083378 GATTCAGAGG
23083388 TTTAAGGGT
1 TTTAAGGGT
* *
23083397 TTGAAAGG-
1 TTTAAGGGT
23083405 TTT-AGGGT
1 TTTAAGGGT
** *
23083413 TTGGAGAGT
1 TTTAAGGGT
23083422 TTT-AGGGT
1 TTTAAGGGT
*
23083430 TTTAA-AG-
1 TTTAAGGGT
23083437 TTTAA-GGT
1 TTTAAGGGT
23083445 TTTAA--GT
1 TTTAAGGGT
23083452 TTT-AGGGT
1 TTTAAGGGT
23083460 TTTAAGGGT
1 TTTAAGGGT
23083469 TTTAAG
1 TTTAAG
23083475 TTTTAGAAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
6 1 0.02
7 14 0.23
8 22 0.36
9 24 0.39
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (9 bp):
TTTAAGGGT
Found at i:23083472 original size:17 final size:16
Alignment explanation
Indices: 23083385--23083472 Score: 74
Period size: 15 Copynumber: 5.5 Consensus size: 16
23083375 TAAGATTCAG
* *
23083385 AGGTTTAAGGGTTTGAA
1 AGGTTTTAGGGTTT-TA
**
23083402 AGG-TTTAGGGTTTGG
1 AGGTTTTAGGGTTTTA
23083417 AGAGTTTTAGGGTTTTA
1 AG-GTTTTAGGGTTTTA
* *
23083434 AAG-TTTAAGGTTTTA
1 AGGTTTTAGGGTTTTA
23083449 A-GTTTTAGGGTTTTA
1 AGGTTTTAGGGTTTTA
23083464 AGGGTTTTA
1 A-GGTTTTA
23083473 AGTTTTAGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
14 1 0.02
15 26 0.45
16 11 0.19
17 20 0.34
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (16 bp):
AGGTTTTAGGGTTTTA
Found at i:23083474 original size:24 final size:24
Alignment explanation
Indices: 23083388--23083480 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 24
23083378 GATTCAGAGG
* *
23083388 TTTAAGGGTTTGAAAGGTTTAGGGT
1 TTTAAGGGTTT-TAAGTTTTAGGGT
** * * **
23083413 TTGGAGAGTTTTAGGGTTTTAAAG-
1 TTTAAGGGTTTTA-AGTTTTAGGGT
23083437 TTTAA-GGTTTTAAGTTTTAGGGT
1 TTTAAGGGTTTTAAGTTTTAGGGT
23083460 TTTAAGGGTTTTAAGTTTTAG
1 TTTAAGGGTTTTAAGTTTTAG
23083481 AAAGTTTTAA
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
22 7 0.14
23 11 0.22
24 19 0.37
25 14 0.27
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (24 bp):
TTTAAGGGTTTTAAGTTTTAGGGT
Found at i:23083545 original size:16 final size:16
Alignment explanation
Indices: 23083526--23083576 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
23083516 TTTGAACGCC
23083526 TTAGGGTTTAGAGGGT
1 TTAGGGTTTAGAGGGT
* *
23083542 TTAGGGTTTGGAAAGGT
1 TTAGGGTTTAG-AGGGT
*
23083559 TTAAGGTTTAGAGGGT
1 TTAGGGTTTAGAGGGT
23083575 TT
1 TT
23083577 GAAAAGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (16 bp):
TTAGGGTTTAGAGGGT
Found at i:23083744 original size:3 final size:3
Alignment explanation
Indices: 23083736--23083765 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
23083726 TTATAAAAAT
23083736 TTA TTA TTA TTA TTA TTA TTA TTAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT
23083766 TAATAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23083864 original size:3 final size:3
Alignment explanation
Indices: 23083858--23083885 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23083848 GAAAAAAATC
23083858 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23083886 CACTTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23085551 original size:11 final size:11
Alignment explanation
Indices: 23085528--23085562 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
23085518 TTAATTAGAA
23085528 AATAATAATAAT
1 AATAATAA-AAT
23085540 AATAATAAAAT
1 AATAATAAAAT
*
23085551 AAAAATAAAAT
1 AATAATAAAAT
23085562 A
1 A
23085563 GTGGGTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:23089137 original size:17 final size:17
Alignment explanation
Indices: 23089099--23089139 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
23089089 AAAAATATAA
* *
23089099 TATTTAAAAATTTTTTG
1 TATTTAAAAATATTTCG
23089116 T-TTTAAAAATATTTCG
1 TATTTAAAAATATTTCG
23089132 TATTTAAA
1 TATTTAAA
23089140 TTTACTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TATTTAAAAATATTTCG
Found at i:23107330 original size:357 final size:355
Alignment explanation
Indices: 23106625--23107707 Score: 1357
Period size: 357 Copynumber: 3.0 Consensus size: 355
23106615 TATAACAATT
* * *
23106625 TATTGAAGGCGGTTTATAATAAAAGATGCCTTTAATAATCTGTGAAAATTTTTTGAGAAAAATTA
1 TATTGAAGGCAGTTTATAATAAAAGACG-CTTTAAAAATCTGTGAAAATTTTTTGAGAAAAATTA
* * * * *
23106690 TTGAAGGCATTGTTTTTTGCAA-CTGCCTTCAGTTATTATCTACAAACTATGATAAGAATTATTA
65 TTGAAGGCGTTGTTTTATGCAATC-GCCTTTAGTTATTATTTAAAAACTATGATAAGAATTATTA
* * * * * *
23106754 AAGGCATCTTTCTTAGATGTACGCCTTCAATAACAATGTTAGAATTTATGTGGCGGTATATAGAA
129 AAGGCGTCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTATGTGACGGTATATAGAA
* * * * **
23106819 GGCATTTTACTGTAGAAGACGCCTTTAATAA-TTCTCAAAATATTAAAAGAATAAATTTTGAAGG
194 GGCATTTGACAGTAGAAGATGCCTTTAATAATTTC-CAAAATATTTAGTGAA-AAATTTTGAAGG
* * * *
23106883 CGTCTATTATTAATAAACACCTTCACTAATTGATTACTAAGTTTGAAGGTATATTGAAGGCATCT
257 CGTCTATTATTAACAAACACCTTCACTAATGGATTACTAAGTTTAAAGGTATATTAAAGGCATCT
*
23106948 TTTCTAATAAATGCCTTCCATTACCATCATGGTA
322 TTTCTAATAAATGCCTTCCATTACCATCATAGTA
* * * * * * *
23106982 TCTTGAATGCCGTTTACAATAAGAGACGCATTTAAAAATCTATGAAAATTTTTTGAAAAAAATTA
1 TATTGAAGGCAGTTTATAATAAAAGACGC-TTTAAAAATCTGTGAAAATTTTTTGAGAAAAATTA
* * *
23107047 TTGAAGGCGTTGTTTTATGCAATCGTCTTTAGTTATTATTTATAAACTATGATAGGAATTATTAA
65 TTGAAGGCGTTGTTTTATGCAATCGCCTTTAGTTATTATTTAAAAACTATGATAAGAATTATTAA
* * * *
23107112 AGGCGTCTATCTTAAATATACGCCTTCAACAACAGTGTTAAAATTTGTGTGACAGTATATAGAAG
130 AGGCGTCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTATGTGACGGTATATAGAAG
23107177 GCATTTGACAGTAGAAGATGCCTTTAATAATTTCCAAAATATTTAGTGGAAAAATTTTGAAGGCG
195 GCATTTGACAGTAGAAGATGCCTTTAATAATTTCCAAAATATTTAGT-GAAAAATTTTGAAGGCG
* * *
23107242 TCTATTATTAACAAACACCTTCATTAATGGATTACTAAATTTAAAGGTATATTAAAGGCGTCTTT
259 TCTATTATTAACAAACACCTTCACTAATGGATTACTAAGTTTAAAGGTATATTAAAGGCATCTTT
* * * **
23107307 TCTAATACATGCTTTCTATTACCATTGTAGTA
324 TCTAATAAATGCCTTCCATTACCATCATAGTA
* * * * *
23107339 TATTGAAGGTAGTTTATAATAAAAGACATCTTTAAAAATCCGTAAAAATTTTTTGAGAGAAATTA
1 TATTGAAGGCAGTTTATAATAAAAGAC-GCTTTAAAAATCTGTGAAAATTTTTTGAGAAAAATTA
* * ** * *
23107404 TTAAAGGCGTTGTTTTCTTTAATCGCCTTTAGTTATTATTTACAAAATTGTGATAAGAATTATTA
65 TTGAAGGCGTTGTTTTATGCAATCGCCTTTAGTTATTATTTA-AAAACTATGATAAGAATTATTA
* * *
23107469 AAGGTGTCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTAT-TTAGCGGTATATAAA
129 AAGGCGTCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTATGTGA-CGGTATATAGA
* * * * * *
23107533 AAGTATTTGACAGTAGAAAATACCTTTAATAATTTCTAAAATATTTAGTGAAAATTTTTTGAAGG
193 AGGCATTTGACAGTAGAAGATGCCTTTAATAATTTCCAAAATATTTAGTGAAAA-ATTTTGAAGG
* * *
23107598 CGTTTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTAAAGGTACAT
257 CGTCTATTATTAACAAACACCTTCACTAATGGATTACTAAGTTTAAAGGTATATTAAAGG--CAT
* * *
23107663 -TTTT-TAATAAACGCCTTCCATTACCATCGTGGTA
320 CTTTTCTAATAAATGCCTTCCATTACCATCATAGTA
*
23107697 TATTAAAGGCA
1 TATTGAAGGCA
23107708 CCTTTTTTAA
Statistics
Matches: 623, Mismatches: 93, Indels: 19
0.85 0.13 0.03
Matches are distributed among these distances:
356 1 0.00
357 395 0.63
358 221 0.35
359 4 0.01
360 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (355 bp):
TATTGAAGGCAGTTTATAATAAAAGACGCTTTAAAAATCTGTGAAAATTTTTTGAGAAAAATTAT
TGAAGGCGTTGTTTTATGCAATCGCCTTTAGTTATTATTTAAAAACTATGATAAGAATTATTAAA
GGCGTCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTATGTGACGGTATATAGAAGG
CATTTGACAGTAGAAGATGCCTTTAATAATTTCCAAAATATTTAGTGAAAAATTTTGAAGGCGTC
TATTATTAACAAACACCTTCACTAATGGATTACTAAGTTTAAAGGTATATTAAAGGCATCTTTTC
TAATAAATGCCTTCCATTACCATCATAGTA
Found at i:23107705 original size:48 final size:48
Alignment explanation
Indices: 23107645--23107740 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
23107635 TAAGTTTAAA
*
23107645 GGTATATTAAAGGTACATTTTTTAATAAACGCCTTCCATTACCATCGT
1 GGTATATTAAAGGCACATTTTTTAATAAACGCCTTCCATTACCATCGT
*
23107693 GGTATATTAAAGGCACCTTTTTTAATAAACGCCTTCCATTACCATCGT
1 GGTATATTAAAGGCACATTTTTTAATAAACGCCTTCCATTACCATCGT
23107741 TGTTTTCTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (48 bp):
GGTATATTAAAGGCACATTTTTTAATAAACGCCTTCCATTACCATCGT
Found at i:23116176 original size:2 final size:2
Alignment explanation
Indices: 23116165--23116195 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23116155 TAATATTTAA
23116165 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23116196 GCGTTGGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:23116977 original size:22 final size:22
Alignment explanation
Indices: 23116952--23117021 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
23116942 ATTTTTAAAA
*
23116952 ATTTACTATTAAGTTATCATTT
1 ATTTATTATTAAGTTATCATTT
* * *
23116974 ATTTATTCTTAAGTTATCAATG
1 ATTTATTATTAAGTTATCATTT
* *
23116996 ATTAATTACTAAGTTATCATTT
1 ATTTATTATTAAGTTATCATTT
23117018 ATTT
1 ATTT
23117022 TTTCAATCTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.53
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCATTT
Found at i:23117344 original size:30 final size:30
Alignment explanation
Indices: 23117310--23117366 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
23117300 AGTTATCATG
*
23117310 ATTTATTACTAAGCTATTAATGATTTATTA
1 ATTTATTACTAAGCTATAAATGATTTATTA
**
23117340 ATTTATTACTAATTTATAAATGATTTA
1 ATTTATTACTAAGCTATAAATGATTTA
23117367 CTATTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (30 bp):
ATTTATTACTAAGCTATAAATGATTTATTA
Found at i:23117365 original size:22 final size:22
Alignment explanation
Indices: 23117340--23117389 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23117330 TGATTTATTA
* *
23117340 ATTTATTACTAATTTATAAATG
1 ATTTACTACTAAATTATAAATG
* *
23117362 ATTTACTATTAAATTATCAATG
1 ATTTACTACTAAATTATAAATG
23117384 ATTTAC
1 ATTTAC
23117390 CATTAAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTACTAAATTATAAATG
Found at i:23117394 original size:22 final size:22
Alignment explanation
Indices: 23117353--23117395 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23117343 TATTACTAAT
*
23117353 TTATAAATGATTTACTATTAAA
1 TTATAAATGATTTACCATTAAA
*
23117375 TTATCAATGATTTACCATTAA
1 TTATAAATGATTTACCATTAA
23117396 GAATGATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (22 bp):
TTATAAATGATTTACCATTAAA
Found at i:23117501 original size:33 final size:31
Alignment explanation
Indices: 23117442--23117535 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 31
23117432 AAGTTATTGA
* *
23117442 TAATTTATTATAAATTTAT-AATTGATTTACTAC
1 TAATTTACTA-AAAATTATCAA-TGATTTAC-AC
23117475 TAATTTACTAAAAAGTTATCAATGA-TTA-AC
1 TAATTTACTAAAAA-TTATCAATGATTTACAC
*
23117505 TAATTTAC-AACTAAATTATCATTGATTTACA
1 TAATTTACTAA--AAATTATCAATGATTTACA
23117536 ATTAAGCTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
29 2 0.04
30 19 0.37
31 6 0.12
32 7 0.13
33 16 0.31
34 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (31 bp):
TAATTTACTAAAAATTATCAATGATTTACAC
Found at i:23117589 original size:22 final size:22
Alignment explanation
Indices: 23117546--23117589 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23117536 ATTAAGCTAC
* * **
23117546 TAGTGATTTATTATTATGTTAT
1 TAGTGATTTAGTACTAAATTAT
23117568 TAGTGATTTAGTACTAAATTAT
1 TAGTGATTTAGTACTAAATTAT
23117590 CATTTTATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (22 bp):
TAGTGATTTAGTACTAAATTAT
Found at i:23117596 original size:19 final size:19
Alignment explanation
Indices: 23117574--23117610 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23117564 TTATTAGTGA
23117574 TTTAGTACTAAATTATCAT
1 TTTAGTACTAAATTATCAT
* *
23117593 TTTATTACTATATTATCA
1 TTTAGTACTAAATTATCA
23117611 ATGATTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAGTACTAAATTATCAT
Found at i:23117706 original size:22 final size:22
Alignment explanation
Indices: 23117571--23117908 Score: 146
Period size: 22 Copynumber: 15.7 Consensus size: 22
23117561 ATGTTATTAG
*
23117571 TGATTTAGTACTAAATTATCA-
1 TGATTTATTACTAAATTATCAT
* *
23117592 T--TTTATTACTATATTATCAA
1 TGATTTATTACTAAATTATCAT
* * ** * *
23117612 TGATTTACTATTTTATTGTTAT
1 TGATTTATTACTAAATTATCAT
* * *
23117634 AT-ATTTACTATTAAGTTATCAT
1 -TGATTTATTACTAAATTATCAT
* * * *
23117656 TGATTTAGTACTGAATTTTTTAT
1 TGATTTATTACT-AAATTATCAT
* *
23117679 T-CTTTATTACAAAATTATCAT
1 TGATTTATTACTAAATTATCAT
* *
23117700 TGATTTATCATTAAATTATCTAT
1 TGATTTATTACTAAATTATC-AT
* *
23117723 T-ATGTATTA-TCAAATTATTAT
1 TGATTTATTACT-AAATTATCAT
*
23117744 TGATTTA-TATTAAATTATGCA-
1 TGATTTATTACTAAATTAT-CAT
* * *
23117765 TGATTTATTATTAAGTTATCAC
1 TGATTTATTACTAAATTATCAT
* * * * *
23117787 T-ATTTAATATTAAGTTGTCAA
1 TGATTTATTACTAAATTATCAT
* *
23117808 TAATTTACTACTAAATTAT-AT
1 TGATTTATTACTAAATTATCAT
* * * *
23117829 TGATCTACTTTCAAAATT-TCAA
1 TGATTTA-TTACTAAATTATCAT
* *
23117851 TGA-CTACTACTAAATTATCAAT
1 TGATTTATTACTAAATTATC-AT
*
23117873 T-ATTTATTATTAAATTATCAT
1 TGATTTATTACTAAATTATCAT
*
23117894 TAATTTATTACTAAA
1 TGATTTATTACTAAA
23117909 GAGGCATTTG
Statistics
Matches: 240, Mismatches: 56, Indels: 41
0.71 0.17 0.12
Matches are distributed among these distances:
19 16 0.07
20 8 0.03
21 66 0.28
22 138 0.57
23 12 0.05
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
TGATTTATTACTAAATTATCAT
Found at i:23117791 original size:21 final size:21
Alignment explanation
Indices: 23117744--23117802 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
23117734 AAATTATTAT
*
23117744 TGATTTATATTAAATTATGCA
1 TGATTTATATTAAGTTATGCA
23117765 TGATTTATTATTAAGTTAT-CA
1 TGATTTA-TATTAAGTTATGCA
23117786 CT-ATTTAATATTAAGTT
1 -TGATTT-ATATTAAGTT
23117803 GTCAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 22 0.65
22 12 0.35
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (21 bp):
TGATTTATATTAAGTTATGCA
Found at i:23118866 original size:22 final size:22
Alignment explanation
Indices: 23118841--23118896 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
23118831 TACTAATAAA
* *
23118841 TTATTACTAATTTATTATTAAG
1 TTATCACTAATTTATTACTAAG
* *
23118863 TTATCATTGATTTATTACTAAG
1 TTATCACTAATTTATTACTAAG
*
23118885 TTATCAATAATT
1 TTATCACTAATT
23118897 AACAAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATCACTAATTTATTACTAAG
Found at i:23118896 original size:44 final size:44
Alignment explanation
Indices: 23118796--23118896 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
23118786 TATGTTCACT
*
23118796 ATTATAAATTATTTATTATTAAGCTAAAATTGATTTACTAATAA
1 ATTATAAATAATTTATTATTAAGCTAAAATTGATTTACTAATAA
* * * ** * *
23118840 ATTATTACTAATTTATTATTAAGTTATCATTGATTTATTACTAA
1 ATTATAAATAATTTATTATTAAGCTAAAATTGATTTACTAATAA
* *
23118884 GTTATCAATAATT
1 ATTATAAATAATT
23118897 AACAAATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (44 bp):
ATTATAAATAATTTATTATTAAGCTAAAATTGATTTACTAATAA
Found at i:23120456 original size:23 final size:26
Alignment explanation
Indices: 23120419--23120477 Score: 88
Period size: 23 Copynumber: 2.4 Consensus size: 26
23120409 TGTTGATTGG
23120419 TTTAGTTTATATTTTTTAAAATT-TT
1 TTTAGTTTATATTTTTTAAAATTATT
*
23120444 TTTA-TTTA-ATTTTTTAATATTATT
1 TTTAGTTTATATTTTTTAAAATTATT
23120468 TTTAGTTTAT
1 TTTAGTTTAT
23120478 TATTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 12 0.40
24 10 0.33
25 8 0.27
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (26 bp):
TTTAGTTTATATTTTTTAAAATTATT
Found at i:23120657 original size:15 final size:14
Alignment explanation
Indices: 23120637--23120673 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
23120627 AAACCTTATA
23120637 AAATAATAAATAAC
1 AAATAATAAATAAC
23120651 TAAATAAT-AATAAC
1 -AAATAATAAATAAC
23120665 -AATAATAAA
1 AAATAATAAA
23120674 AATCAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 2 0.10
14 6 0.29
15 7 0.33
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAAATAAC
Found at i:23121105 original size:15 final size:15
Alignment explanation
Indices: 23121085--23121136 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
23121075 TCTTAAAATT
*
23121085 TTAAAATTCGAAACC
1 TTAAAATTCAAAACC
23121100 TTAAAA-TCTAAAACC
1 TTAAAATTC-AAAACC
*
23121115 CTAAAATTCAAAACC
1 TTAAAATTCAAAACC
23121130 TTAAAAT
1 TTAAAAT
23121137 CTAAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (15 bp):
TTAAAATTCAAAACC
Found at i:23121156 original size:21 final size:22
Alignment explanation
Indices: 23121109--23121187 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
23121099 CTTAAAATCT
* *
23121109 AAAACCCTAAAATTCAAAACCTT
1 AAAATCCT-AAATTCAAAACCTC
* *
23121132 AAAAT-CTAAATTTAAACCCTC
1 AAAATCCTAAATTCAAAACCTC
*
23121153 AAAATCCTAAATCCTAAAATCC-C
1 AAAATCCTAAATTC-AAAA-CCTC
*
23121176 AAAATCCAAAAT
1 AAAATCCTAAAT
23121188 CATAAGACCC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 16 0.36
22 8 0.18
23 19 0.42
24 2 0.04
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAATCCTAAATTCAAAACCTC
Found at i:23121171 original size:15 final size:15
Alignment explanation
Indices: 23121144--23121220 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
23121134 AATCTAAATT
23121144 TAAACCCTCAAAATCC
1 TAAACCCT-AAAATCC
*
23121160 TAAATCCTAAAATCCC
1 TAAACCCTAAAAT-CC
* * *
23121176 AAAATCC-AAAATCA
1 TAAACCCTAAAATCC
*
23121190 TAAGACCCTTAAAACCC
1 TAA-ACCC-TAAAATCC
*
23121207 TAAACCCTGAAATC
1 TAAACCCTAAAATC
23121221 TCAAAATCAA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
14 3 0.06
15 18 0.38
16 19 0.40
17 8 0.17
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (15 bp):
TAAACCCTAAAATCC
Found at i:23121174 original size:8 final size:8
Alignment explanation
Indices: 23121101--23121188 Score: 50
Period size: 8 Copynumber: 11.9 Consensus size: 8
23121091 TTCGAAACCT
23121101 TAAAAT-C
1 TAAAATCC
*
23121108 TAAAACCC
1 TAAAATCC
*
23121116 TAAAATTC
1 TAAAATCC
23121124 -AAAA-CC
1 TAAAATCC
23121130 TTAAAAT-C
1 -TAAAATCC
23121138 T-AAAT--
1 TAAAATCC
* *
23121143 TTAAACCC
1 TAAAATCC
23121151 TCAAAATCC
1 T-AAAATCC
23121160 T-AAATCC
1 TAAAATCC
23121167 TAAAATCC
1 TAAAATCC
*
23121175 CAAAATCC
1 TAAAATCC
23121183 -AAAATC
1 TAAAATC
23121189 ATAAGACCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
5 1 0.02
6 8 0.12
7 23 0.36
8 26 0.41
9 6 0.09
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAATCC
Found at i:23121220 original size:47 final size:47
Alignment explanation
Indices: 23121147--23121306 Score: 223
Period size: 47 Copynumber: 3.4 Consensus size: 47
23121137 CTAAATTTAA
* * * * * *
23121147 ACCCTCAAAATCCTAAATCCTAAAATCCCAAAATCCAAAA-TCATAAG
1 ACCCTTAAAACCCTAAACCCTGAAATCTCAAAATCAAAAACTC-TAAG
*
23121194 ACCCTTAAAACCCTAAACCCTGAAATCTCAAAATCAAAAACTCTTAG
1 ACCCTTAAAACCCTAAACCCTGAAATCTCAAAATCAAAAACTCTAAG
* *
23121241 ACCTTTCAAACCCTAAACCCTGAAATCTCAAAATCAAAAACTCTAAG
1 ACCCTTAAAACCCTAAACCCTGAAATCTCAAAATCAAAAACTCTAAG
23121288 ACCCTTAAAACCCTAAACC
1 ACCCTTAAAACCCTAAACC
23121307 GTAAATACTT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
47 98 0.98
48 2 0.02
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (47 bp):
ACCCTTAAAACCCTAAACCCTGAAATCTCAAAATCAAAAACTCTAAG
Found at i:23121343 original size:8 final size:8
Alignment explanation
Indices: 23121290--23121414 Score: 102
Period size: 8 Copynumber: 16.1 Consensus size: 8
23121280 ACTCTAAGAC
23121290 CCTTAAAA
1 CCTTAAAA
*
23121298 CCCT-AAA
1 CCTTAAAA
*
23121305 CCGTAAATA
1 CCTTAAA-A
23121314 -CTTAAAA
1 CCTTAAAA
*
23121321 CCTTAAAT
1 CCTTAAAA
*
23121329 CTTTAAAA
1 CCTTAAAA
*
23121337 CCAT-AAA
1 CCTTAAAA
*
23121344 CCCTAAAA
1 CCTTAAAA
*
23121352 CCTCAAAA
1 CCTTAAAA
*
23121360 -ATCTAAAA
1 CCT-TAAAA
23121368 CC--AAAA
1 CCTTAAAA
23121374 TCC-TAAAA
1 -CCTTAAAA
23121382 CCTTAAAA
1 CCTTAAAA
23121390 CCTTAAAA
1 CCTTAAAA
23121398 CCTTAAAA
1 CCTTAAAA
23121406 CCTTAAAA
1 CCTTAAAA
23121414 C
1 C
23121415 AAGACCTTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
6 4 0.04
7 18 0.19
8 71 0.76
9 1 0.01
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.22
Consensus pattern (8 bp):
CCTTAAAA
Found at i:23121379 original size:14 final size:14
Alignment explanation
Indices: 23121332--23121383 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
23121322 CTTAAATCTT
*
23121332 TAAAACCATAAACCC
1 TAAAACCA-AAATCC
23121347 TAAAACCTCAAAAAT-C
1 TAAAA-C-C-AAAATCC
23121363 TAAAACCAAAATCC
1 TAAAACCAAAATCC
23121377 TAAAACC
1 TAAAACC
23121384 TTAAAACCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
13 5 0.16
14 9 0.28
15 6 0.19
16 7 0.22
17 4 0.12
18 1 0.03
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAACCAAAATCC
Found at i:23121381 original size:30 final size:31
Alignment explanation
Indices: 23121332--23121389 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
23121322 CTTAAATCTT
23121332 TAAAACCATAAACCCTAAAACCTCAAAAATC
1 TAAAACCATAAACCCTAAAACCTCAAAAATC
* *
23121363 TAAAACCA-AAATCCTAAAACCTTAAAA
1 TAAAACCATAAACCCTAAAACCTCAAAA
23121390 CCTTAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (31 bp):
TAAAACCATAAACCCTAAAACCTCAAAAATC
Found at i:23121850 original size:22 final size:22
Alignment explanation
Indices: 23121818--23121862 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23121808 TAAAATTGCA
*
23121818 CTTCATTATCTTGCATAACATC
1 CTTCATCATCTTGCATAACATC
23121840 CTTCATCATCTTGCATAACATC
1 CTTCATCATCTTGCATAACATC
23121862 C
1 C
23121863 ATTGGCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.38
Consensus pattern (22 bp):
CTTCATCATCTTGCATAACATC
Found at i:23123480 original size:18 final size:19
Alignment explanation
Indices: 23123445--23123482 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23123435 TTGTGTTAGG
* *
23123445 ATAAAAAAGGAAAGGCCAA
1 ATAAAAAAGAAAAAGCCAA
23123464 ATAAAAAA-AAAAAGCCAA
1 ATAAAAAAGAAAAAGCCAA
23123482 A
1 A
23123483 AGAGAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (19 bp):
ATAAAAAAGAAAAAGCCAA
Found at i:23126602 original size:29 final size:28
Alignment explanation
Indices: 23126570--23126646 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
23126560 ATACCATAAA
* *
23126570 GAAAAAGAGAAAAAAAGAAAAGAGAAAGG
1 GAAAAAGAGAAAAAAAGAAAA-AAAAAAG
* * *
23126599 GAAAAAGTGTAAAAAAGAAAAAAAAAAT
1 GAAAAAGAGAAAAAAAGAAAAAAAAAAG
* *
23126627 AAAAAAGAGGAAAAAAGAAA
1 GAAAAAGAGAAAAAAAGAAA
23126647 GTTTTAAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (28 bp):
GAAAAAGAGAAAAAAAGAAAAAAAAAAG
Found at i:23126603 original size:28 final size:29
Alignment explanation
Indices: 23126571--23126646 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 29
23126561 TACCATAAAG
* * **
23126571 AAAAAGAGAAAAAAAGAAAAGAGAAAGGG
1 AAAAAGAGAAAAAAAGAAAAAAAAAAGAA
* * *
23126600 AAAAAGTGTAAAAAAGAAAAAAAAAA-TA
1 AAAAAGAGAAAAAAAGAAAAAAAAAAGAA
*
23126628 AAAAAGAGGAAAAAAGAAA
1 AAAAAGAGAAAAAAAGAAA
23126647 GTTTTAAGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 17 0.44
29 22 0.56
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (29 bp):
AAAAAGAGAAAAAAAGAAAAAAAAAAGAA
Found at i:23127366 original size:10 final size:10
Alignment explanation
Indices: 23127324--23127375 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
23127314 AGGCATGTAA
*
23127324 AAAAGAACAAC
1 AAAAGAA-AAG
*
23127335 AAAACAAAAG
1 AAAAGAAAAG
23127345 AAAAAGAGAAAG
1 -AAAAGA-AAAG
*
23127357 AAATGAAAAG
1 AAAAGAAAAG
23127367 AAAAGAAAA
1 AAAAGAAAA
23127376 ATAGTTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 14 0.41
11 16 0.47
12 4 0.12
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:23127376 original size:6 final size:5
Alignment explanation
Indices: 23127324--23127375 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
23127314 AGGCATGTAA
* * *
23127324 AAAAG AACAAC AAAAC AAAAG AAAAAG AGAAAG AAATG AAAAG AAAAG
1 AAAAG AA-AAG AAAAG AAAAG -AAAAG A-AAAG AAAAG AAAAG AAAAG
23127372 AAAA
1 AAAA
23127376 ATAGTTATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 26 0.65
6 14 0.35
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:23128831 original size:24 final size:25
Alignment explanation
Indices: 23128776--23128836 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
23128766 TCCTACCTTG
*
23128776 CGATGTTAT-CTTAGTCATTCTCCTG
1 CGATGTTATCCTT-GTCATTCTCCTA
*
23128801 TGATGTT-TCCTTGTCATTCTCCTA
1 CGATGTTATCCTTGTCATTCTCCTA
*
23128825 CGGTGTTATCCT
1 CGATGTTATCCT
23128837 AGTCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (25 bp):
CGATGTTATCCTTGTCATTCTCCTA
Found at i:23130517 original size:26 final size:26
Alignment explanation
Indices: 23130497--23130566 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 26
23130487 AATTTTTGAA
*
23130497 TTTA-ATTTTTTAATATTATTTATTG
1 TTTATATTTATTAATATTATTTATTG
*
23130522 TTTATATTTATTATTATTA-TTATT-
1 TTTATATTTATTAATATTATTTATTG
* *
23130546 ATTAT-TATTATTATTATTATT
1 TTTATAT-TTATTAATATTATT
23130567 ATTATTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 1 0.03
24 16 0.41
25 10 0.26
26 12 0.31
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (26 bp):
TTTATATTTATTAATATTATTTATTG
Found at i:23130525 original size:7 final size:7
Alignment explanation
Indices: 23130510--23130578 Score: 69
Period size: 6 Copynumber: 10.4 Consensus size: 7
23130500 AATTTTTTAA
23130510 TATTATT
1 TATTATT
*
23130517 TATTGTT
1 TATTATT
23130524 TA-TATT
1 TATTATT
23130530 TATTA-T
1 TATTATT
23130536 TATTA-T
1 TATTATT
23130542 TATTA-T
1 TATTATT
23130548 TATTA-T
1 TATTATT
23130554 TATTA-T
1 TATTATT
23130560 TATTATTAT
1 TATTA-T-T
23130569 TATTATT
1 TATTATT
23130576 TAT
1 TAT
23130579 GCATGTTTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
6 35 0.62
7 14 0.25
8 1 0.02
9 6 0.11
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (7 bp):
TATTATT
Found at i:23130535 original size:3 final size:3
Alignment explanation
Indices: 23130529--23130575 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23130519 TTGTTTATAT
23130529 TTA TTA TTA TTA TTA TTA TTA 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
23130576 TATGCATGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23130662 original size:13 final size:13
Alignment explanation
Indices: 23130628--23130663 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
23130618 TTGTTTTTTT
23130628 TAAATAATAACAA
1 TAAATAATAACAA
23130641 T-AATAAATAACAA
1 TAAAT-AATAACAA
23130654 TAAATAATAA
1 TAAATAATAA
23130664 AAATTAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 15 0.71
14 3 0.14
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAATAATAACAA
Found at i:23130868 original size:23 final size:23
Alignment explanation
Indices: 23130842--23130885 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23130832 AATAAATAAC
23130842 ATAAT-AAAATACATATAAAAATG
1 ATAATGAAAATACA-ATAAAAATG
*
23130865 ATAATGAAAATAGAATAAAAA
1 ATAATGAAAATACAATAAAAA
23130886 AAGATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (23 bp):
ATAATGAAAATACAATAAAAATG
Found at i:23131217 original size:8 final size:8
Alignment explanation
Indices: 23131206--23131355 Score: 64
Period size: 8 Copynumber: 19.1 Consensus size: 8
23131196 TTAAAATTGG
23131206 AACCTTAA
1 AACCTTAA
23131214 AACCTTGAA
1 AACCTT-AA
**
23131223 AA-CTCGA
1 AACCTTAA
*
23131230 AACCCTAA
1 AACCTTAA
23131238 AATCC-TAA
1 AA-CCTTAA
23131246 AACC-TAA
1 AACCTTAA
*
23131253 AACCCTAA
1 AACCTTAA
23131261 AA--TTCAA
1 AACCTT-AA
*
23131268 AACCCTAA
1 AACCTTAA
* *
23131276 AATCTCAA
1 AACCTTAA
*
23131284 ATCCTTAA
1 AACCTTAA
* *
23131292 GACCCTCAA
1 -AACCTTAA
*
23131301 AACCCT-A
1 AACCTTAA
*
23131308 AACCCTAA
1 AACCTTAA
*
23131316 AATC-TAA
1 AACCTTAA
23131323 AACCTTAA
1 AACCTTAA
* *
23131331 GACCCTCAA
1 -AACCTTAA
23131340 AACCTT-A
1 AACCTTAA
23131347 AACCTTAA
1 AACCTTAA
23131355 A
1 A
23131356 CTTTTAAAAC
Statistics
Matches: 106, Mismatches: 24, Indels: 24
0.69 0.16 0.16
Matches are distributed among these distances:
6 1 0.01
7 36 0.34
8 50 0.47
9 19 0.18
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (8 bp):
AACCTTAA
Found at i:23131238 original size:24 final size:22
Alignment explanation
Indices: 23131190--23131262 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
23131180 TCCTAAAGTC
* * *
23131190 AAAACCTTAAAATTGGAACCTT
1 AAAACCTTAAAATCGAAACCCT
23131212 AAAACCTTGAAAACTCGAAACCCT
1 AAAACCTT-AAAA-TCGAAACCCT
* *
23131236 AAAATCC-TAAAACCTAAAACCCT
1 AAAA-CCTTAAAATC-GAAACCCT
23131259 AAAA
1 AAAA
23131263 TTCAAAACCC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 9 0.21
23 19 0.45
24 12 0.29
25 2 0.05
ACGTcount: A:0.51, C:0.25, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAACCTTAAAATCGAAACCCT
Found at i:23131251 original size:15 final size:15
Alignment explanation
Indices: 23131233--23131355 Score: 79
Period size: 15 Copynumber: 7.9 Consensus size: 15
23131223 AACTCGAAAC
*
23131233 CCTAAAATCCTAAAA
1 CCTAAAACCCTAAAA
23131248 CCTAAAACCCTAAAA
1 CCTAAAACCCTAAAA
*
23131263 -TTCAAAACCCTAAAA
1 CCT-AAAACCCTAAAA
* * * *
23131278 TCTCAAATCCTTAAGAC
1 CCT-AAAACCCTAA-AA
*
23131295 CCTCAAAACCCTAAAC
1 CCT-AAAACCCTAAAA
*
23131311 CCTAAAA-TCTAAAA
1 CCTAAAACCCTAAAA
*
23131325 CCTTAAGACCCTCAAAA
1 CC-TAAAACCCT-AAAA
* *
23131342 CCTTAAACCTTAAA
1 CCTAAAACCCTAAA
23131356 CTTTTAAAAC
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
14 8 0.09
15 37 0.43
16 23 0.27
17 18 0.21
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (15 bp):
CCTAAAACCCTAAAA
Found at i:23131329 original size:39 final size:39
Alignment explanation
Indices: 23131206--23131355 Score: 160
Period size: 39 Copynumber: 3.8 Consensus size: 39
23131196 TTAAAATTGG
* * * *
23131206 AACCTTAAAACCTTGAAAACTCGAAACCCTAAAATCCTAA
1 AACCTTAAAACCCTCAAAACCCTAAACCCTAAAAT-CTAA
** *
23131246 AACC-TAAAACCCT-AAAATTCAAAACCCTAAAATCTCAA
1 AACCTTAAAACCCTCAAAACCCTAAACCCTAAAATCT-AA
* *
23131284 ATCCTTAAGACCCTCAAAACCCTAAACCCTAAAATCTAA
1 AACCTTAAAACCCTCAAAACCCTAAACCCTAAAATCTAA
* * *
23131323 AACCTTAAGACCCTCAAAACCTTAAACCTTAAA
1 AACCTTAAAACCCTCAAAACCCTAAACCCTAAA
23131356 CTTTTAAAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.02
38 23 0.24
39 48 0.50
40 23 0.24
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (39 bp):
AACCTTAAAACCCTCAAAACCCTAAACCCTAAAATCTAA
Found at i:23131343 original size:17 final size:17
Alignment explanation
Indices: 23131279--23131347 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
23131269 ACCCTAAAAT
*
23131279 CTCAAATCCTTAAGACC
1 CTCAAAACCTTAAGACC
*
23131296 CTCAAAACCCTAA-ACC
1 CTCAAAACCTTAAGACC
23131312 CTAAAATCTAAAACCTTAAGACC
1 C-----TC-AAAACCTTAAGACC
23131335 CTCAAAACCTTAA
1 CTCAAAACCTTAA
23131348 ACCTTAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 4 0.10
17 21 0.50
18 2 0.05
21 2 0.05
22 9 0.21
23 4 0.10
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (17 bp):
CTCAAAACCTTAAGACC
Found at i:23131371 original size:8 final size:7
Alignment explanation
Indices: 23131233--23131409 Score: 63
Period size: 8 Copynumber: 23.0 Consensus size: 7
23131223 AACTCGAAAC
23131233 CCTAAAA
1 CCTAAAA
23131240 TCCTAAAA
1 -CCTAAAA
23131248 CCTAAAA
1 CCTAAAA
23131255 CCCTAAAA
1 -CCTAAAA
*
23131263 -TTCAAAA
1 CCT-AAAA
23131270 CCCTAAAA
1 -CCTAAAA
* *
23131278 TCTCAAAT
1 CCT-AAAA
*
23131286 CCTTAAGAC
1 CC-TAA-AA
23131295 CCTCAAAA
1 CCT-AAAA
*
23131303 CCCTAAAC
1 -CCTAAAA
23131311 CCTAAAA
1 CCTAAAA
*
23131318 TCTAAAA
1 CCTAAAA
*
23131325 CCTTAAGAC
1 CC-TAA-AA
23131334 CCTCAAAA
1 CCT-AAAA
*
23131342 CCTTAAA
1 CCTAAAA
*
23131349 CCTTAAA
1 CCTAAAA
*
23131356 CTTTTAAAA
1 C--CTAAAA
23131365 CTCT-AAA
1 C-CTAAAA
23131372 CCATAAAA
1 CC-TAAAA
23131380 CCTCAAAA
1 CCT-AAAA
*
23131388 TTCTAAAA
1 -CCTAAAA
23131396 CC-AAAA
1 CCTAAAA
23131402 CCCTAAAA
1 -CCTAAAA
23131410 TCTCGTAACC
Statistics
Matches: 130, Mismatches: 19, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
6 6 0.05
7 46 0.35
8 56 0.43
9 22 0.17
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (7 bp):
CCTAAAA
Found at i:23132667 original size:22 final size:21
Alignment explanation
Indices: 23132642--23132732 Score: 60
Period size: 22 Copynumber: 4.2 Consensus size: 21
23132632 TATTAAAAAG
23132642 TTATCAATTATTAACTACTAAA
1 TTATCAATTATT-ACTACTAAA
* * *
23132664 TTATC-ATTCATTTACTATTTAG
1 TTATCAATT-A-TTACTACTAAA
23132686 TTATCACTATT-TTACTACTAAA
1 TTATCA--ATTATTACTACTAAA
* * * *
23132708 TTATCCATAATTGCTACTAAT
1 TTATCAATTATTACTACTAAA
23132729 TTAT
1 TTAT
23132733 ACTCATTACA
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.04
21 16 0.30
22 30 0.57
23 2 0.04
25 3 0.06
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATCAATTATTACTACTAAA
Found at i:23134584 original size:2 final size:2
Alignment explanation
Indices: 23134579--23134623 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23134569 GAAAAAAAAA
23134579 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23134621 AG A
1 AG A
23134624 TTATATTGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23137842 original size:21 final size:21
Alignment explanation
Indices: 23137818--23137858 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
23137808 TTTTTTATAA
23137818 AATTTTGGTAACCTTCAATAC
1 AATTTTGGTAACCTTCAATAC
23137839 AATTTTGGTAACCTTCAATA
1 AATTTTGGTAACCTTCAATA
23137859 TTAGTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (21 bp):
AATTTTGGTAACCTTCAATAC
Found at i:23137926 original size:21 final size:21
Alignment explanation
Indices: 23137882--23137926 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23137872 CTTCAATATT
* *
23137882 ATTTTGGTAACTTATTATATA
1 ATTTTGGTAACTTATGATACA
23137903 ATTTTGGTAAC-TACTGATACA
1 ATTTTGGTAACTTA-TGATACA
23137924 ATT
1 ATT
23137927 AGCAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (21 bp):
ATTTTGGTAACTTATGATACA
Found at i:23138310 original size:20 final size:20
Alignment explanation
Indices: 23138250--23138312 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
23138240 AATTTTGCTG
* * *
23138250 TTGATAATTTCTGATAAAATT
1 TTGATAACTTATGATATAA-T
23138271 TTGATAACTTCA--ATATTAAT
1 TTGATAACTT-ATGATA-TAAT
23138291 TTGATAACTTATGATATAAT
1 TTGATAACTTATGATATAAT
23138311 TT
1 TT
23138313 TAGTAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
19 1 0.03
20 20 0.57
21 14 0.40
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (20 bp):
TTGATAACTTATGATATAAT
Found at i:23138332 original size:21 final size:21
Alignment explanation
Indices: 23138308--23138360 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
23138298 CTTATGATAT
* *
23138308 AATTTTAGTAATTTTTTATAC
1 AATTTTAGTAATCTTTTATAA
* *
23138329 AATTTCAATAATCTTTTATAA
1 AATTTTAGTAATCTTTTATAA
*
23138350 AATTTTGGTAA
1 AATTTTAGTAA
23138361 CATCTTCATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (21 bp):
AATTTTAGTAATCTTTTATAA
Found at i:23138694 original size:451 final size:450
Alignment explanation
Indices: 23138076--23138974 Score: 1206
Period size: 451 Copynumber: 2.0 Consensus size: 450
23138066 CCAATATAAG
* * * *
23138076 ATTTTTTTTTATATAATAACATTATTATTTAATTCAAATTTAGAATTTTTTCATTAAATTTTTGT
1 ATTTTTTTTTATATAATAACATTATTATTTAATTCAAATGTAAAACTTTTTCACTAAATTTTTGT
* * * * *
23138141 ATTAAATAAATTCATGATAGATTTATCTTAGCCTCCCAAGATGAAATTTGTAATTTGTTTTTTCT
66 ATTAAATAAATTCATGATAAATTTATATTAACCTCCCAAGATGAAATTTATAATTTGTTTTTGCT
* *
23138206 AGTAACCAAGGTTCAATTTGATAACTTTTGTTATAATTTTGCTGTT-GATAA-TTTCTGATAAAA
131 AGTAACCAAGGTTCAATTTGATAACTTTTGATATAATTTTGAT-TTCGATAACTTT-TGATAAAA
* * * *
23138269 TTTT-GATAA-CTTCAATATTAATTTGATAACTTATGATATAATTTTAGTAATTTTTTATACAAT
194 TTTTAG-TAACCTTCAATATTAATTTGATAACTTATGATATAATTATAGTAACTATTGATACAAT
* * * * *
23138332 TTCAATAATCTTTTATAAAATTTTGGTAACATCTTCATGTAGTTTTAGTAACTTTT-GATATCTT
258 TTCAATAATCTTTGAAAAAATTTTAGTAACATCTTAATGTAGTTTTAGTAACTTTTAG-TATCGT
*
23138396 ATGATATA-TTTTTATAATTATTAATAAAAT-T-TGTACTATCATATATTTAATAATAGATTCTC
322 ATGATATATTTTTTATAATTATTAATAAAATGTATGT-C-ATCATATATTTAACAATAGATTCTC
* ** *
23138458 ATAAAAAAATGCGATGATTCAATTCCAATGTAAGACAATTTTTTTAATATAATAATATTATTATT
385 AT-AAAAAA-GCGAGGATTCAATTCCAATACAAGACAATTTTTTTAATATAATAACATTATTATT
23138523 TTA
448 TTA
* * *
23138526 ATTTTCTTTTTATATAATACCATTATTATTTCATTCAAATGTAAAACTTTTTCACT-AATTTTTT
1 ATTTT-TTTTTATATAATAACATTATTATTTAATTCAAATGTAAAACTTTTTCACTAAATTTTTG
* * *
23138590 TATTAAATAGATTCATGGTAAATTTATATTAACCTCTCAAGATGAAATTTATAATTTCGTTTTTG
65 TATTAAATAAATTCATGATAAATTTATATTAACCTCCCAAGATGAAATTTATAATTT-GTTTTTG
*
23138655 CTAG-AACCAAGGTTCAAATTTGATATCTTTTGATATAATTTTGATTTCGATAACTTTTGATAAA
129 CTAGTAACCAAGGTTC-AATTTGATAACTTTTGATATAATTTTGATTTCGATAACTTTTGATAAA
* * *
23138719 ATTTTAGTAACCTTCAATATTAGTTTGATAACTTATGGTATAATTATGGTAACTATTGATACAAT
193 ATTTTAGTAACCTTCAATATTAATTTGATAACTTATGATATAATTATAGTAACTATTGATACAAT
*** * *
23138784 TTTGGTACTCTTTGAAAAAATTTTAGTAACCTCTTAATGTAGTTTTAGTAACTTTTAGTATCGTA
258 TTCAATAATCTTTGAAAAAATTTTAGTAACATCTTAATGTAGTTTTAGTAACTTTTAGTATCGTA
* *
23138849 TTATATATTTTTTATAATTATTAATAAAATGTATGTCATTATATATTTAACAATAGATTCTCATA
323 TGATATATTTTTTATAATTATTAATAAAATGTATGTCATCATATATTTAACAATAGATTCTCATA
* * * * *
23138914 AAAAAGCGAGGATTTAGTTCCATTACAAGATAATTTTTTTTATATAATAACATTATTATTT
388 AAAAAGCGAGGATTCAATTCCAATACAAGACAATTTTTTTAATATAATAACATTATTATTT
23138975 CAATAAATTT
Statistics
Matches: 391, Mismatches: 47, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
450 75 0.19
451 147 0.38
452 116 0.30
453 48 0.12
454 2 0.01
455 3 0.01
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (450 bp):
ATTTTTTTTTATATAATAACATTATTATTTAATTCAAATGTAAAACTTTTTCACTAAATTTTTGT
ATTAAATAAATTCATGATAAATTTATATTAACCTCCCAAGATGAAATTTATAATTTGTTTTTGCT
AGTAACCAAGGTTCAATTTGATAACTTTTGATATAATTTTGATTTCGATAACTTTTGATAAAATT
TTAGTAACCTTCAATATTAATTTGATAACTTATGATATAATTATAGTAACTATTGATACAATTTC
AATAATCTTTGAAAAAATTTTAGTAACATCTTAATGTAGTTTTAGTAACTTTTAGTATCGTATGA
TATATTTTTTATAATTATTAATAAAATGTATGTCATCATATATTTAACAATAGATTCTCATAAAA
AAGCGAGGATTCAATTCCAATACAAGACAATTTTTTTAATATAATAACATTATTATTTTA
Found at i:23138711 original size:27 final size:26
Alignment explanation
Indices: 23138672--23138723 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
23138662 CAAGGTTCAA
* *
23138672 ATTTGATATCTTTTGATATAATTTTG
1 ATTTGATAACTTTTGATAAAATTTTG
23138698 ATTTCGATAACTTTTGATAAAATTTT
1 ATTT-GATAACTTTTGATAAAATTTT
23138724 AGTAACCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (26 bp):
ATTTGATAACTTTTGATAAAATTTTG
Found at i:23138729 original size:21 final size:21
Alignment explanation
Indices: 23138705--23138813 Score: 51
Period size: 21 Copynumber: 5.2 Consensus size: 21
23138695 TTGATTTCGA
23138705 TAACTTTTGATAAAATTTTAG
1 TAACTTTTGATAAAATTTTAG
* ** ** *
23138726 TAACCTTCAATATTAGTTT-G
1 TAACTTTTGATAAAATTTTAG
* * * * *
23138746 ATAACTTATGGTATAATTATGG
1 -TAACTTTTGATAAAATTTTAG
* * *
23138768 TAACTATTGATACAATTTTGG
1 TAACTTTTGATAAAATTTTAG
*
23138789 T-ACTCTTTGAAAAAATTTTAG
1 TAACT-TTTGATAAAATTTTAG
23138810 TAAC
1 TAAC
23138814 CTCTTAATGT
Statistics
Matches: 61, Mismatches: 23, Indels: 7
0.67 0.25 0.08
Matches are distributed among these distances:
20 4 0.07
21 54 0.89
22 3 0.05
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (21 bp):
TAACTTTTGATAAAATTTTAG
Found at i:23139142 original size:22 final size:21
Alignment explanation
Indices: 23139117--23139224 Score: 90
Period size: 22 Copynumber: 5.0 Consensus size: 21
23139107 TATAATAAAT
23139117 TTATCAATAATTAATAATTAAG
1 TTATCAATAATTAAT-ATTAAG
* * * **
23139139 TTATCATTAATTTAGTACTATT
1 TTATCAATAA-TTAATATTAAG
23139161 TTATCAATAAATTAATATTAAG
1 TTATCAAT-AATTAATATTAAG
* * *
23139183 TTATCAATAATATAACACTAAA
1 TTATCAATAAT-TAATATTAAG
* *
23139205 TTATCAATGATTACTATTAA
1 TTATCAATAATTAATATTAA
23139225 ATTAACATTA
Statistics
Matches: 66, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
21 9 0.14
22 51 0.77
23 6 0.09
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (21 bp):
TTATCAATAATTAATATTAAG
Found at i:23139209 original size:44 final size:44
Alignment explanation
Indices: 23139112--23139217 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
23139102 TCAAATATAA
* * **
23139112 TAAATTTATCAATAATTAATAATTAAGTTATCATTAATTTAGTAC
1 TAAA-TTATCAATAATTAATAATTAAGTTATCAATAATATAACAC
**
23139157 TATTTTATCAATAAATTAAT-ATTAAGTTATCAATAATATAACAC
1 TAAATTATCAAT-AATTAATAATTAAGTTATCAATAATATAACAC
*
23139201 TAAATTATCAATGATTA
1 TAAATTATCAATAATTA
23139218 CTATTAAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 4 0.08
44 38 0.75
45 9 0.18
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (44 bp):
TAAATTATCAATAATTAATAATTAAGTTATCAATAATATAACAC
Found at i:23140060 original size:13 final size:13
Alignment explanation
Indices: 23140033--23140076 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
23140023 CAGTTCGATT
*
23140033 TATTAATTTTTATA
1 TATT-ATTTTAATA
23140047 TATTATTTTAATA
1 TATTATTTTAATA
**
23140060 TAAAATTTTAATA
1 TATTATTTTAATA
23140073 TATT
1 TATT
23140077 TAAGTAGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTTTAATA
Found at i:23141089 original size:3 final size:3
Alignment explanation
Indices: 23141083--23141111 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23141073 TGTTTTTTTT
23141083 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23141112 TTAGAGGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23141259 original size:29 final size:30
Alignment explanation
Indices: 23141176--23141264 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
23141166 TTAATTAGTT
23141176 AATATTATAA-ATGAT-TTCTGAATTATAGTAA
1 AATATTATAATATGATATT-TGAATTATA--AA
* * *
23141207 AATATT-TAATATGATAATTCAATTTTAAA
1 AATATTATAATATGATATTTGAATTATAAA
23141236 AAT-TTATAATATGATATTTGAATTATAAA
1 AATATTATAATATGATATTTGAATTATAAA
23141265 TTTATTAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
28 2 0.04
29 25 0.51
30 3 0.06
31 18 0.37
32 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (30 bp):
AATATTATAATATGATATTTGAATTATAAA
Found at i:23143960 original size:122 final size:122
Alignment explanation
Indices: 23143743--23143968 Score: 355
Period size: 122 Copynumber: 1.9 Consensus size: 122
23143733 GACCTTCAAG
* * ** ** *
23143743 TGTGATATAATTTTCCAACAAATAATGGGTGTCCTCTCTTTGCTTTGATATCTTCCCTTTTTATT
1 TGTGATATAATTTCCCAACAAATAAAGGGCATCCTCTAGTAGCTTTGATATCTTCCCTTTTTATT
23143808 ATGACGTAAGAGTTATCGATTTTCTTCATAGGGTCCATTGCTCCTGCGGGTTCCAAC
66 ATGACGTAAGAGTTATCGATTTTCTTCATAGGGTCCATTGCTCCTGCGGGTTCCAAC
*
23143865 TGTGATAT-ATTTCCCCAACAAATAAAGGGCATCCTCTAGTAGCTTTGGTATCTTCCCTTTTTAT
1 TGTGATATAATTT-CCCAACAAATAAAGGGCATCCTCTAGTAGCTTTGATATCTTCCCTTTTTAT
*
23143929 TATGACGTAAGAGTTATCGATTTTCTTCATAGGGTTCATT
65 TATGACGTAAGAGTTATCGATTTTCTTCATAGGGTCCATT
23143969 TTATAAAATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
121 4 0.04
122 90 0.96
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (122 bp):
TGTGATATAATTTCCCAACAAATAAAGGGCATCCTCTAGTAGCTTTGATATCTTCCCTTTTTATT
ATGACGTAAGAGTTATCGATTTTCTTCATAGGGTCCATTGCTCCTGCGGGTTCCAAC
Found at i:23146327 original size:13 final size:12
Alignment explanation
Indices: 23146275--23146327 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
23146265 CATTTGATTC
23146275 TTTTTTGTTTCT
1 TTTTTTGTTTCT
* *
23146287 TTTTTTCTTTTT
1 TTTTTTGTTTCT
23146299 ATTTTTTG-TTCAT
1 -TTTTTTGTTTC-T
23146312 TTTTCTTGTTTCT
1 TTTT-TTGTTTCT
23146325 TTT
1 TTT
23146328 GTAATCCCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 16 0.48
13 14 0.42
14 3 0.09
ACGTcount: A:0.04, C:0.09, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTGTTTCT
Found at i:23150652 original size:21 final size:21
Alignment explanation
Indices: 23150609--23150653 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23150599 ATTTTAAAAC
* *
23150609 AAAATAAAAATAAAAATTTTA
1 AAAACAAAAATAAAAATTATA
23150630 AAAACAAAAATATAAAA-TATA
1 AAAACAAAAATA-AAAATTATA
23150651 AAA
1 AAA
23150654 CTGGCACCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAACAAAAATAAAAATTATA
Found at i:23155919 original size:2 final size:2
Alignment explanation
Indices: 23155912--23155953 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
23155902 TGCTTTATTG
23155912 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23155954 TATATTTGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23158553 original size:2 final size:2
Alignment explanation
Indices: 23158546--23158579 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23158536 TTAGATTGCT
23158546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23158580 GATCATTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23159570 original size:79 final size:79
Alignment explanation
Indices: 23159471--23159628 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
23159461 TGTAATTTGG
23159471 CGTCATTCCTGCATTAAGGACATTTTATATCTGTTAATATTTTCTCTGCCTTTGTGTTGTGTCTG
1 CGTCATTCCTGCATTAAGGACATTTTATATCTGTTAATATTTTCTCTGCCTTTGTGTTGTGTCTG
23159536 GTGCCTAAGTATGC
66 GTGCCTAAGTATGC
23159550 CGTCATTCCTGCATTAAGGACATTTTATATCTGTTAATATTTTCTCTGCCTTTGTGTTGTGTCTG
1 CGTCATTCCTGCATTAAGGACATTTTATATCTGTTAATATTTTCTCTGCCTTTGTGTTGTGTCTG
23159615 GTGCCTAAGTATGC
66 GTGCCTAAGTATGC
23159629 TTTTTTTATT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (79 bp):
CGTCATTCCTGCATTAAGGACATTTTATATCTGTTAATATTTTCTCTGCCTTTGTGTTGTGTCTG
GTGCCTAAGTATGC
Found at i:23161937 original size:52 final size:51
Alignment explanation
Indices: 23161876--23162002 Score: 173
Period size: 52 Copynumber: 2.5 Consensus size: 51
23161866 CAAGAGAAAG
* *
23161876 AGAATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTCTAAAAGGAA
1 AGAATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAA
* * * *
23161927 ATGAATTCTTAATAGGCAAGTTTGACTTACAGGAGAAGAATTTTAAGAGGAG
1 A-GAATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAA
*
23161979 AGAGATTCTTAATGGGCAAGTTTG
1 AGA-ATTCTTAATAGGCAAGTTTG
23162003 TATGGTTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 3 0.04
52 64 0.96
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (51 bp):
AGAATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAA
Found at i:23167080 original size:2 final size:2
Alignment explanation
Indices: 23167073--23167101 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23167063 TTCATTTGGC
23167073 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23167102 CCTTCAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23168299 original size:3 final size:3
Alignment explanation
Indices: 23168291--23168317 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23168281 GAACATATTG
23168291 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
23168318 TTAAGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23173847 original size:2 final size:2
Alignment explanation
Indices: 23173840--23173864 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23173830 TTTATGGCAC
23173840 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
23173865 AAATTATTCT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23174238 original size:2 final size:2
Alignment explanation
Indices: 23174231--23174264 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23174221 TTCAAATCTC
23174231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23174265 GAATTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23175607 original size:74 final size:73
Alignment explanation
Indices: 23175472--23175651 Score: 213
Period size: 74 Copynumber: 2.5 Consensus size: 73
23175462 TTGCCTTACC
* * * * *
23175472 CGATCGGT-CCTTTTAAGAGAGAATCGATCTCTTTTCTGGATTTTCAAACTGGAAAATATTCTGT
1 CGATCGATCCCTTTTAAGAGGGGATCGATCCCTTTTCTGGATTTTCAAACTGGAAAACATTCTGT
*
23175536 CTGAGTAA
66 CTGAGCAA
* * **
23175544 TCGATCGATCCCTTTTAAGAGGGGATCGATCCCTTTTCTGGGTTTTCAAACT-TAAGGGCATTCT
1 -CGATCGATCCCTTTTAAGAGGGGATCGATCCCTTTTCTGGATTTTCAAACTGGAA-AACATTCT
*
23175608 GTTTGAGCAA
64 GTCTGAGCAA
23175618 CTGATCGATCCC-TTTAAGAGGGGATCGATCCCTT
1 C-GATCGATCCCTTTTAAGAGGGGATCGATCCCTT
23175652 GCCATAGGTG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
73 32 0.34
74 61 0.66
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (73 bp):
CGATCGATCCCTTTTAAGAGGGGATCGATCCCTTTTCTGGATTTTCAAACTGGAAAACATTCTGT
CTGAGCAA
Found at i:23179285 original size:21 final size:20
Alignment explanation
Indices: 23179260--23179302 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23179250 TTTTCATTCA
23179260 TCAAAGCATCAAA-TTTCTTTT
1 TCAAAGCA--AAATTTTCTTTT
*
23179281 TCAAATCAAAATTTTCTTTT
1 TCAAAGCAAAATTTTCTTTT
23179301 TC
1 TC
23179303 TAAAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 10 0.50
21 7 0.35
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (20 bp):
TCAAAGCAAAATTTTCTTTT
Found at i:23180030 original size:22 final size:22
Alignment explanation
Indices: 23179931--23180040 Score: 82
Period size: 22 Copynumber: 5.1 Consensus size: 22
23179921 AGCATATTAG
*
23179931 TAAATCAATGATAAGTTAATAA
1 TAAATCAATGATAACTTAATAA
* * *
23179953 -AAA--AATGATAATTTATTAG
1 TAAATCAATGATAACTTAATAA
* * * *
23179972 TTAATTATTAATAACTTAATAA
1 TAAATCAATGATAACTTAATAA
* **
23179994 AAAATCAATTTTAACTTAATAA
1 TAAATCAATGATAACTTAATAA
* *
23180016 TAAATTAGTGATAACTTAATAA
1 TAAATCAATGATAACTTAATAA
23180038 TAA
1 TAA
23180041 GTAAATTTCA
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
19 13 0.20
20 2 0.03
21 3 0.05
22 47 0.72
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (22 bp):
TAAATCAATGATAACTTAATAA
Found at i:23180040 original size:11 final size:11
Alignment explanation
Indices: 23179980--23180040 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
23179970 AGTTAATTAT
23179980 TAATAACTTAA
1 TAATAACTTAA
* * *
23179991 TAAAAAATCAA
1 TAATAACTTAA
**
23180002 TTTTAACTTAA
1 TAATAACTTAA
* *
23180013 TAATAAATTAG
1 TAATAACTTAA
*
23180024 TGATAACTTAA
1 TAATAACTTAA
23180035 TAATAA
1 TAATAA
23180041 GTAAATTTCA
Statistics
Matches: 34, Mismatches: 16, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:23180072 original size:44 final size:43
Alignment explanation
Indices: 23179962--23180073 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 43
23179952 AAAAAATGAT
* * * *
23179962 AATTTATTAGTTAATTATTAATAACTTAATAAAAAATCAATTTT
1 AATTTAATAG-TAATTATTGATAACTTAATAAAAAATAAATTTC
* * * * *
23180006 AACTTAATAATAAATTAGTGATAACTTAATAATAAGTAAATTTC
1 AATTTAATAGT-AATTATTGATAACTTAATAAAAAATAAATTTC
*
23180050 AATTTAGTAGTAATTAATTGATAA
1 AATTTAATAGTAATT-ATTGATAA
23180074 AGTTAGTAGT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
43 5 0.09
44 48 0.91
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (43 bp):
AATTTAATAGTAATTATTGATAACTTAATAAAAAATAAATTTC
Found at i:23180096 original size:23 final size:23
Alignment explanation
Indices: 23180053--23180096 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
23180043 AAATTTCAAT
**
23180053 TTAGTAGTAATTAATTGATAAAG
1 TTAGTAGTAATTAATAAATAAAG
23180076 TTAGTAGTAAATT-ATAAATAA
1 TTAGTAGT-AATTAATAAATAA
23180097 TTTAATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.39
Consensus pattern (23 bp):
TTAGTAGTAATTAATAAATAAAG
Found at i:23180204 original size:16 final size:15
Alignment explanation
Indices: 23180183--23180214 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
23180173 TAATCATCAG
23180183 TAACTTAATAGTTAAA
1 TAACTTAATAG-TAAA
23180199 TAACTTAATAGTAAA
1 TAACTTAATAGTAAA
23180214 T
1 T
23180215 TATGAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
TAACTTAATAGTAAA
Found at i:23180244 original size:21 final size:22
Alignment explanation
Indices: 23180197--23180257 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
23180187 TTAATAGTTA
23180197 AATAACTTAATAGTAAATTATG
1 AATAACTTAATAGTAAATTATG
*
23180219 AATAATTTAATA-TAAATTAGTG
1 AATAACTTAATAGTAAATTA-TG
* *
23180241 -ATAACGTAATAATAAAT
1 AATAACTTAATAGTAAAT
23180258 CATAGCTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (22 bp):
AATAACTTAATAGTAAATTATG
Found at i:23180322 original size:22 final size:21
Alignment explanation
Indices: 23180297--23180345 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
23180287 TATTTTGTAG
* *
23180297 TAAATAATCTAAAACTAAATAA
1 TAAATAAT-GAAAACAAAATAA
*
23180319 TAAATTAATGATAACAAAATAA
1 TAAA-TAATGAAAACAAAATAA
23180341 TAAAT
1 TAAAT
23180346 GCATAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.78
23 4 0.17
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAATAATGAAAACAAAATAA
Found at i:23180354 original size:22 final size:22
Alignment explanation
Indices: 23180313--23180367 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
23180303 ATCTAAAACT
* *
23180313 AAATAATAAATTAATGATAACA
1 AAATAATAAATGAATAATAACA
*
23180335 AAATAATAAATGCATAATAACA
1 AAATAATAAATGAATAATAACA
* *
23180357 TAATAGTAAAT
1 AAATAATAAAT
23180368 CATTGATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (22 bp):
AAATAATAAATGAATAATAACA
Done.