Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 23 of 147
Found at i:4834449 original size:19 final size:18
Alignment explanation
Indices: 4834426--4834473 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
4834416 ACATTAGATG
4834426 AATCAAATTTCTTTCAATT
1 AATCAAATTT-TTTCAATT
*
4834445 CATCATTAA-TTTTTCAATT
1 AATCA--AATTTTTTCAATT
4834464 AATCAAATTT
1 AATCAAATTT
4834474 ACATTGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 16 0.67
20 2 0.08
21 2 0.08
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.48
Consensus pattern (18 bp):
AATCAAATTTTTTCAATT
Found at i:4839222 original size:21 final size:21
Alignment explanation
Indices: 4839196--4839252 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4839186 TCTATCTTAG
4839196 AGGATCAATTCTTCACTCTAA
1 AGGATCAATTCTTCACTCTAA
4839217 AGGATCAATTCTTCACTCTAA
1 AGGATCAATTCTTCACTCTAA
*
4839238 AGGATCAATCCTTCA
1 AGGATCAATTCTTCA
4839253 AGGTTTTAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (21 bp):
AGGATCAATTCTTCACTCTAA
Found at i:4839733 original size:23 final size:23
Alignment explanation
Indices: 4839707--4839760 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4839697 TTCATTTTAA
*
4839707 ATATTGGACACCTTTCCTTTCAC
1 ATATTGGACACCTTTACTTTCAC
*
4839730 ATATTGGACACCTTTACTTTCAG
1 ATATTGGACACCTTTACTTTCAC
4839753 ATCATTGG
1 AT-ATTGG
4839761 GTACAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (23 bp):
ATATTGGACACCTTTACTTTCAC
Found at i:4841114 original size:128 final size:128
Alignment explanation
Indices: 4840878--4841114 Score: 291
Period size: 128 Copynumber: 1.8 Consensus size: 128
4840868 ATATATTCTC
*
4840878 AATTGCCACAAATTCAACAATAAATTAAAATTTTCCAAAATTTCACAATAATTATATAAATTTCA
1 AATTGCCACAAATTCAACAATAAATTAAAATTTTCCAAAATTTCACAATAATCATATAAATTTCA
* * * * **** * *
4840943 CAAAAACACAATTTTTACAAAATAGTTAAATTCCATAATAAATTCATAAATTTGCAATGGCCAT
66 CAAAAACACAAATATCACAAAATAG-AAAAAAAAAAAACAAATTCATAAATTTGCAATGGCCAT
* *
4841007 AATT-CCACAAATTCAACAATAAATTAAAATTTTTCAAAATTTCACAATAATCATATAAATTTTA
1 AATTGCCACAAATTCAACAATAAATTAAAATTTTCCAAAATTTCACAATAATCATATAAATTTCA
*
4841071 CAAAATAC-CTAAATATCACAAATTCA-AAAAAAAAAAAACAAATT
66 CAAAA-ACAC-AAATATCACAAAAT-AGAAAAAAAAAAAACAAATT
4841115 ACTAACCCTA
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
128 74 0.81
129 16 0.18
130 1 0.01
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (128 bp):
AATTGCCACAAATTCAACAATAAATTAAAATTTTCCAAAATTTCACAATAATCATATAAATTTCA
CAAAAACACAAATATCACAAAATAGAAAAAAAAAAAACAAATTCATAAATTTGCAATGGCCAT
Found at i:4841285 original size:24 final size:23
Alignment explanation
Indices: 4841236--4841289 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
4841226 AATTTTAATT
*
4841236 AAATTATTAATTAAAAATATAGA
1 AAATTATTAAATAAAAATATAGA
* *
4841259 AAATATATTAAATAAAATATTTAAA
1 AAAT-TATTAAATAAAA-ATATAGA
4841284 AAATTA
1 AAATTA
4841290 AACTATGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 13 0.50
25 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATTATTAAATAAAAATATAGA
Found at i:4841777 original size:16 final size:15
Alignment explanation
Indices: 4841756--4841791 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4841746 TTTTAGCGAG
*
4841756 AAAAATTTTCGTTGCT
1 AAAAA-TTTCATTGCT
4841772 AAAAATTTCATTGCT
1 AAAAATTTCATTGCT
4841787 AAAAA
1 AAAAA
4841792 CTATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAAATTTCATTGCT
Found at i:4843958 original size:22 final size:22
Alignment explanation
Indices: 4843933--4843980 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4843923 ATAATATATC
* *
4843933 ATTTTTTGTTGATCAATAAATT
1 ATTTTTTATTAATCAATAAATT
*
4843955 ATTTTTTATTAATCAATTAATT
1 ATTTTTTATTAATCAATAAATT
4843977 -TTTT
1 ATTTT
4843981 ATCAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTTTTTATTAATCAATAAATT
Found at i:4850038 original size:67 final size:68
Alignment explanation
Indices: 4849912--4850042 Score: 167
Period size: 67 Copynumber: 1.9 Consensus size: 68
4849902 AGATGCCAAG
* * ** *
4849912 TACATAGGTAACGAGCACATTCCACCTTTATCTTCTGTGCTTATTGGGCATGGATAATTGACTTC
1 TACATAGCTAACGAGCACATTCCACCTTTATCTTCTGTGCTTAATGGGCATAAACAATTGACTTC
4849977 TTC
66 TTC
** *
4849980 TACATAGCTAAC-AGACACATTCTGCC-TTATCTTTTGTGCTTAATGGGCATAAACAATTGACTT
1 TACATAGCTAACGAG-CACATTCCACCTTTATCTTCTGTGCTTAATGGGCATAAACAATTGACTT
4850043 ATTCAATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
67 34 0.63
68 20 0.37
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (68 bp):
TACATAGCTAACGAGCACATTCCACCTTTATCTTCTGTGCTTAATGGGCATAAACAATTGACTTC
TTC
Found at i:4850752 original size:31 final size:31
Alignment explanation
Indices: 4850714--4850775 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
4850704 TAGAATCTTC
*
4850714 AACTTTTATTTATAGTTATTGTGTTGAAGCA
1 AACTTTTATTTATAGTTATTGTGTCGAAGCA
4850745 AACTTTTATTTATAGTTATTGTGTCGAAGCA
1 AACTTTTATTTATAGTTATTGTGTCGAAGCA
4850776 TTATTGGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (31 bp):
AACTTTTATTTATAGTTATTGTGTCGAAGCA
Found at i:4851950 original size:109 final size:110
Alignment explanation
Indices: 4851746--4851952 Score: 344
Period size: 109 Copynumber: 1.9 Consensus size: 110
4851736 TAAAGATGAA
4851746 GGGCCTCCAGGGGTTGACTCTCGATTTAGCTCATCCTATCCCCCAAGGTATGGTAATTATGACTC
1 GGGCCTCCAGGGGTTGACTCTCGATTTAGCTCATCCTATCCCCCAAGGTATGGTAATTATGACTC
* *
4851811 TCCTTGCAGCTTTCACAGTCAAAGATATCTTATTCCGGGGGTGGG
66 TCCTTACAGCTTTCACAGTCAAAGAGATCTTATTCCGGGGGTGGG
* * * *
4851856 GGGCCTCTAGGGGTTGACTCTCGATTTAGCTTATCCTAT-CCCTAAGGTATGGTAATTATGATTC
1 GGGCCTCCAGGGGTTGACTCTCGATTTAGCTCATCCTATCCCCCAAGGTATGGTAATTATGACTC
*
4851920 TCCTTACAGCTTTCACAGTCGAAGAGATCTTAT
66 TCCTTACAGCTTTCACAGTCAAAGAGATCTTAT
4851953 ACCCGGGCCG
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 53 0.59
110 37 0.41
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (110 bp):
GGGCCTCCAGGGGTTGACTCTCGATTTAGCTCATCCTATCCCCCAAGGTATGGTAATTATGACTC
TCCTTACAGCTTTCACAGTCAAAGAGATCTTATTCCGGGGGTGGG
Found at i:4852835 original size:17 final size:17
Alignment explanation
Indices: 4852815--4852849 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4852805 ATGAGGTAAA
4852815 AAATAATCATAATAGAG
1 AAATAATCATAATAGAG
* *
4852832 AAATAATGATATTAGAG
1 AAATAATCATAATAGAG
4852849 A
1 A
4852850 TAGAATAAGA
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:0.57, C:0.03, G:0.14, T:0.26
Consensus pattern (17 bp):
AAATAATCATAATAGAG
Found at i:4854324 original size:13 final size:13
Alignment explanation
Indices: 4854306--4854330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4854296 AAATTTAAAT
4854306 TTTTAATATATTA
1 TTTTAATATATTA
4854319 TTTTAATATATT
1 TTTTAATATATT
4854331 TAAATAAATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:4854910 original size:12 final size:12
Alignment explanation
Indices: 4854893--4854917 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4854883 GTCAACCGCT
4854893 TCTCTCTCTTTC
1 TCTCTCTCTTTC
4854905 TCTCTCTCTTTC
1 TCTCTCTCTTTC
4854917 T
1 T
4854918 TTTTCTTTCC
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTCTCTCTTTC
Found at i:4855072 original size:6 final size:6
Alignment explanation
Indices: 4855061--4855094 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4855051 AAGTACTGTA
* *
4855061 TTGTTT TTGTTT TTGCTT TTGCTT TTGTTT TTGT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGT
4855095 CTTGTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.06, G:0.18, T:0.76
Consensus pattern (6 bp):
TTGTTT
Found at i:4862916 original size:35 final size:35
Alignment explanation
Indices: 4862870--4862940 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
4862860 ATATGCATTG
4862870 CTTCTAGTGGTGCACATATTATTCATTGCACTTTA
1 CTTCTAGTGGTGCACATATTATTCATTGCACTTTA
* *
4862905 CTTCTAGTGGTGTACATATTATTCATTGCTCTTTA
1 CTTCTAGTGGTGCACATATTATTCATTGCACTTTA
4862940 C
1 C
4862941 CCTTCACATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (35 bp):
CTTCTAGTGGTGCACATATTATTCATTGCACTTTA
Found at i:4865061 original size:24 final size:24
Alignment explanation
Indices: 4865016--4865061 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
4865006 ATATTAAACA
*
4865016 AATATGTTAATGAAAATATAAATG
1 AATATGTTAATAAAAATATAAATG
*
4865040 AATATGTTCATAAATAAT-TAAA
1 AATATGTTAATAAA-AATATAAA
4865062 AATTTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (24 bp):
AATATGTTAATAAAAATATAAATG
Found at i:4865688 original size:30 final size:31
Alignment explanation
Indices: 4865608--4865696 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 31
4865598 TGTGCAATCG
* *
4865608 AAGA-TTCAATTAAATAAAAATAAAT-ATTT
1 AAGAGTTCAATTATATAAAAATAAATGATTA
*
4865637 AAGAGTTTAATTATATAAAAATAAATGATTA
1 AAGAGTTCAATTATATAAAAATAAATGATTA
* *
4865668 AAGA-TTCAACTTAT-TCAAAATAAAAGATT
1 AAGAGTTCAA-TTATATAAAAATAAATGATT
4865697 TATGGTTTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.08
30 36 0.71
31 11 0.22
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (31 bp):
AAGAGTTCAATTATATAAAAATAAATGATTA
Found at i:4871511 original size:34 final size:34
Alignment explanation
Indices: 4871473--4871538 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
4871463 GAAGGTTTTT
*
4871473 GAAAATAGATGTCCAAAAGTTTTTAAAAGATTTC
1 GAAAATAAATGTCCAAAAGTTTTTAAAAGATTTC
* * * *
4871507 GAAAATAAATTTTCGAAAGTTTTTAAATGATT
1 GAAAATAAATGTCCAAAAGTTTTTAAAAGATT
4871539 CTAGATATCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (34 bp):
GAAAATAAATGTCCAAAAGTTTTTAAAAGATTTC
Found at i:4872707 original size:13 final size:13
Alignment explanation
Indices: 4872689--4872715 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4872679 TTAAATCATG
4872689 TCATATAATTATA
1 TCATATAATTATA
4872702 TCATATAATTATA
1 TCATATAATTATA
4872715 T
1 T
4872716 TATTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TCATATAATTATA
Found at i:4872732 original size:48 final size:44
Alignment explanation
Indices: 4872671--4872768 Score: 99
Period size: 48 Copynumber: 2.1 Consensus size: 44
4872661 GATTACAAAA
* * * *
4872671 TAAAATTATTAAATCATGTCATATAATTATATCATATAATT-ATATTAT
1 TAAAATAAATAAATCATGT-AT-T-ATTAAATAAT-TAATTAAT-TTAT
*
4872719 TAAAATAAATAAATTATGTATTATTAAATAATTAATTAATTTAT
1 TAAAATAAATAAATCATGTATTATTAAATAATTAATTAATTTAT
4872763 TAAAAT
1 TAAAAT
4872769 TAAAATTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 15 0.34
45 10 0.23
46 1 0.02
47 2 0.05
48 16 0.36
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (44 bp):
TAAAATAAATAAATCATGTATTATTAAATAATTAATTAATTTAT
Found at i:4873057 original size:2 final size:2
Alignment explanation
Indices: 4873050--4873094 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
4873040 TGAACTTAAA
*
4873050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4873092 AT A
1 AT A
4873095 AAGAAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4879338 original size:24 final size:24
Alignment explanation
Indices: 4879319--4879414 Score: 81
Period size: 24 Copynumber: 4.0 Consensus size: 24
4879309 CCAGCACTAG
4879319 CACCTCTGTTAGCAAAAGCACCAC
1 CACCTCTGTTAGCAAAAGCACCAC
* **
4879343 CACCTCTGTTAGCACAAGTGCCAC
1 CACCTCTGTTAGCAAAAGCACCAC
** * *
4879367 CACCAGT-TTCAGCACAAGCATCAC
1 CACCTCTGTT-AGCAAAAGCACCAC
4879391 CACCAT-TGTTAG-AACAAGCACCAC
1 CACC-TCTGTTAGCAA-AAGCACCAC
4879415 GACAACCACC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
23 3 0.05
24 52 0.91
25 2 0.04
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (24 bp):
CACCTCTGTTAGCAAAAGCACCAC
Found at i:4892180 original size:22 final size:20
Alignment explanation
Indices: 4892143--4892185 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
4892133 CACACCCTTA
*
4892143 ATGAAAAAAAACAAAGGGAC
1 ATGAAAAAAAACAAAGCGAC
*
4892163 ATGATAAAAAAATTAAAGCGAC
1 ATGA-AAAAAAA-CAAAGCGAC
4892185 A
1 A
4892186 AAGATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.63, C:0.09, G:0.16, T:0.12
Consensus pattern (20 bp):
ATGAAAAAAAACAAAGCGAC
Found at i:4898126 original size:41 final size:41
Alignment explanation
Indices: 4898047--4898128 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
4898037 TCATAAAATT
*
4898047 ATCAATTAAGACGTTTCAATGAAGAAACACCTTGATTGATG
1 ATCAATTAAGACGTTTCAATGAAGAAACACCTTCATTGATG
* *
4898088 ATCAATTAAGGCGTTT-GATGAAGAAA-ATGCCTTCATTGATG
1 ATCAATTAAGACGTTTCAATGAAGAAACA--CCTTCATTGATG
4898129 CATTAATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.03
40 9 0.25
41 26 0.72
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (41 bp):
ATCAATTAAGACGTTTCAATGAAGAAACACCTTCATTGATG
Found at i:4898830 original size:12 final size:12
Alignment explanation
Indices: 4898813--4898837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4898803 TATATAATTT
4898813 TTATTTTTTATA
1 TTATTTTTTATA
4898825 TTATTTTTTATA
1 TTATTTTTTATA
4898837 T
1 T
4898838 CATGTTTAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTTATA
Found at i:4900435 original size:85 final size:85
Alignment explanation
Indices: 4900292--4900461 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
4900282 AAAATAAAAA
* * *
4900292 AACTAATTCAAAACTGTAGTATTTAGTTAAGATCGGTTTTTTATTCACTTCAATTTAAGTTCGAA
1 AACTAATTCAAAACTGTAGTATTCAGCTAAAATCGGTTTTTTATTCACTTCAATTTAAGTTCGAA
4900357 TATTAAATATTTTTATTAAG
66 TATTAAATATTTTTATTAAG
4900377 AACTAATTCAAAACTGTAGTATTCAGCTAAAATCGGTTTTTTATTCACTTCAATTTAAGTTCGAA
1 AACTAATTCAAAACTGTAGTATTCAGCTAAAATCGGTTTTTTATTCACTTCAATTTAAGTTCGAA
4900442 TATTAAATATTTTTATTAAG
66 TATTAAATATTTTTATTAAG
4900462 TTCAAATCAG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.44
Consensus pattern (85 bp):
AACTAATTCAAAACTGTAGTATTCAGCTAAAATCGGTTTTTTATTCACTTCAATTTAAGTTCGAA
TATTAAATATTTTTATTAAG
Found at i:4902361 original size:2 final size:2
Alignment explanation
Indices: 4902354--4902383 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4902344 TTGAAATAGA
4902354 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
4902384 CCCTTGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4902978 original size:16 final size:16
Alignment explanation
Indices: 4902941--4902979 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4902931 ACGTGCAATA
* *
4902941 TGTATATGTGTGTGTT
1 TGTATATGTGTGTCTG
*
4902957 TTTATATGTGTGTCTG
1 TGTATATGTGTGTCTG
4902973 TGTATAT
1 TGTATAT
4902980 ATATAAAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.26, T:0.56
Consensus pattern (16 bp):
TGTATATGTGTGTCTG
Found at i:4904931 original size:28 final size:30
Alignment explanation
Indices: 4904900--4904956 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4904890 TATATATTTA
*
4904900 TTTTATTGTAT-T-TAAATAAATTTTTATAT
1 TTTTATT-TATATATAAAGAAATTTTTATAT
4904929 TTTTATTTATATATAAAGAAATTTTTAT
1 TTTTATTTATATATAAAGAAATTTTTAT
4904957 TTCAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 8 0.32
30 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTTATTTATATATAAAGAAATTTTTATAT
Found at i:4904957 original size:28 final size:28
Alignment explanation
Indices: 4904896--4904958 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
4904886 AGTTTATATA
*
4904896 TTTA-TTTTATTGTATTTAAATAAATTT
1 TTTATTTTTATTGTATTTAAAGAAATTT
4904923 TTATATTTTTATT-TATATATAAAGAAA-TT
1 TT-TATTTTTATTGTAT-T-TAAAGAAATTT
4904952 TTTATTT
1 TTTATTT
4904959 CAAATGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 2 0.06
28 10 0.32
29 12 0.39
30 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTATTTTTATTGTATTTAAAGAAATTT
Found at i:4905019 original size:31 final size:30
Alignment explanation
Indices: 4904977--4905035 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
4904967 GAATATCATG
*
4904977 TTAAGAGTTTATTTAAGA-ATAAATTAAAAGT
1 TTAAAAGTTTATTTAA-ATAT-AATTAAAAGT
4905008 TTAAAAGTTTATTTAAATATAATTAAAA
1 TTAAAAGTTTATTTAAATATAATTAAAA
4905036 ATTAAAGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (30 bp):
TTAAAAGTTTATTTAAATATAATTAAAAGT
Found at i:4906567 original size:42 final size:43
Alignment explanation
Indices: 4906486--4906571 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
4906476 CAATTAATAA
* * *
4906486 TATTTAATATAAAAAAATACCTTAAATAATTTATTATTTAAGG
1 TATTTAATATAAAAAAATACCATAAATAATTGATCATTTAAGG
*
4906529 TATTTAA-ATTAAAAAAATGCCATAAATAA-TGATCATTTAAGG
1 TATTTAATA-TAAAAAAATACCATAAATAATTGATCATTTAAGG
4906571 T
1 T
4906572 GTTTTCCCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (43 bp):
TATTTAATATAAAAAAATACCATAAATAATTGATCATTTAAGG
Found at i:4908239 original size:18 final size:17
Alignment explanation
Indices: 4908206--4908256 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
4908196 AAGAAAATAG
*
4908206 TAAAAACAAAAA-AAAA
1 TAAAAATAAAAATAAAA
* *
4908222 TGAAAATGAAAATGAAAA
1 TAAAAATAAAAAT-AAAA
4908240 TAAAAATAAAAATAAAA
1 TAAAAATAAAAATAAAA
4908257 ACCTAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 9 0.32
17 4 0.14
18 15 0.54
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (17 bp):
TAAAAATAAAAATAAAA
Found at i:4908257 original size:12 final size:12
Alignment explanation
Indices: 4908213--4908268 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
4908203 TAGTAAAAAC
*
4908213 AAAA-AAAAATG
1 AAAATAAAAATA
* *
4908224 AAAATGAAAATG
1 AAAATAAAAATA
4908236 AAAATAAAAATA
1 AAAATAAAAATA
4908248 AAAATAAAAACCTA
1 AAAATAAAAA--TA
4908262 AAAATAA
1 AAAATAA
4908269 GCCCAAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
11 4 0.10
12 26 0.67
14 9 0.23
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:4908257 original size:18 final size:18
Alignment explanation
Indices: 4908213--4908268 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
4908203 TAGTAAAAAC
* *
4908213 AAAA-AAAAATGAAAATG
1 AAAATAAAAATAAAAATA
*
4908230 AAAATGAAAATAAAAATA
1 AAAATAAAAATAAAAATA
4908248 AAAATAAAAACCTAAAAATA
1 AAAATAAAAA--TAAAAATA
4908268 A
1 A
4908269 GCCCAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.12
18 19 0.59
20 9 0.28
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAATAAAAATAAAAATA
Found at i:4912011 original size:31 final size:26
Alignment explanation
Indices: 4911946--4912021 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 26
4911936 TAATTTTTGT
*
4911946 AAATATATTA-ATATATATATTAAAATA
1 AAATATATTATTTA-ATA-ATTAAAATA
4911973 AAATATATTAGTTCTAATAATTAAAATA
1 AAATATATTA-TT-TAATAATTAAAATA
4912001 ATAATTTATATTATTTAATAA
1 A-AA--TATATTATTTAATAA
4912022 AAAATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 10 0.24
28 10 0.24
29 11 0.26
30 4 0.10
31 7 0.17
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATATTATTTAATAATTAAAATA
Found at i:4914476 original size:34 final size:34
Alignment explanation
Indices: 4914396--4914476 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
4914386 AATATGCAGA
*
4914396 ACAA-TTTGCATTTTTGTAAGCTTTTAAAAGCTT
1 ACAAGTTTGCATTTTCGTAAGCTTTTAAAAGCTT
* * *
4914429 TC-AGATTTTCATTTTCGTAAGCTTTTAAAGGCTT
1 ACAAG-TTTGCATTTTCGTAAGCTTTTAAAAGCTT
4914463 ACAAGTTTGCATTT
1 ACAAGTTTGCATTT
4914477 CTTTAAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 1 0.03
33 1 0.03
34 35 0.90
35 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (34 bp):
ACAAGTTTGCATTTTCGTAAGCTTTTAAAAGCTT
Found at i:4919521 original size:29 final size:29
Alignment explanation
Indices: 4919486--4919544 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4919476 AAATTAAATC
4919486 AATTATTATATTAAATTTTATTTTATTTT
1 AATTATTATATTAAATTTTATTTTATTTT
*
4919515 AATTATTATATTGAATTTTATTTTATTTT
1 AATTATTATATTAAATTTTATTTTATTTT
4919544 A
1 A
4919545 TTTTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
AATTATTATATTAAATTTTATTTTATTTT
Found at i:4919537 original size:5 final size:5
Alignment explanation
Indices: 4919500--4919561 Score: 81
Period size: 5 Copynumber: 12.6 Consensus size: 5
4919490 ATTATATTAA
* * **
4919500 ATTTT ATTTT ATTTT A-ATT ATTAT ATTGA ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
4919549 ATTTT ATTTT ATT
1 ATTTT ATTTT ATT
4919562 GAAATTCCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
4 3 0.06
5 46 0.94
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:4925855 original size:25 final size:24
Alignment explanation
Indices: 4925809--4925857 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4925799 GAATAATTGA
*
4925809 TATTTTTTATAAAAATTTAAATAT
1 TATTTTTTATAAAAATTGAAATAT
**
4925833 TATTTTTTATACTAATATGAAATAT
1 TATTTTTTATAAAAAT-TGAAATAT
4925858 AGTTAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTTTTTATAAAAATTGAAATAT
Found at i:4926787 original size:19 final size:19
Alignment explanation
Indices: 4926763--4926806 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
4926753 GTAAGTAATA
4926763 AAAATATTAC-TAAAAAAAT
1 AAAATATT-CTTAAAAAAAT
*
4926782 AAAATA-TCTTAAATAAAT
1 AAAATATTCTTAAAAAAAT
4926800 AAAATAT
1 AAAATAT
4926807 ATTTATTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATATTCTTAAAAAAAT
Found at i:4927131 original size:19 final size:20
Alignment explanation
Indices: 4927085--4927136 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
4927075 CTTTTTAAGT
4927085 AATAAAAATATTGCTATAAAA
1 AATAAAAATA-TGCTATAAAA
*
4927106 CATAAAAATAT-CT-TAAATA
1 AATAAAAATATGCTATAAA-A
4927125 AATAAAATATAT
1 AATAAAA-ATAT
4927137 TTATTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 5 0.19
21 9 0.33
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATATGCTATAAAA
Found at i:4927191 original size:327 final size:326
Alignment explanation
Indices: 4926310--4927250 Score: 1272
Period size: 327 Copynumber: 2.9 Consensus size: 326
4926300 TGTGTGATTA
* * * * * * *
4926310 TATTTTTATTTGTATTATTGACCAAATTAATTGTAACTTATTTATTTAAGGTAAAGATATTTGTT
1 TATTTTTATTTGTATTATTGGCCAAATTAATTATAACTTATTCATATAAGGTAAAAATATTAGAT
* *
4926375 ATTTTAAATGGTAATAAATGTAATTAATTTAGTCTAA-TTAATTATTTTTAAGTAATAAAAAGAT
66 A-TTTAAAAGGTAATAAATGTAATTAATTTAGTCTAACTT-ATTATTTTTAAGTAATAAAAATAT
* * * *
4926439 TACTATAAAAATAATAAAAATGTTTTAAATAAATAAAATACATTTATTAGAGAACACATAATGAT
129 TACTAT-AAAA-AATAAAAATATCTTAAATAAATAAAATATATTTATTAGAGAACACATGATGAT
* *
4926504 TTTTTAAACCCATCCACATGTCAAAATTATAAGCTATTCACACTGAACTATTTTATTTTTTATTA
192 TTTTTAAACCCATCCACATGTCAAAATTATAAGCTA-TCACACAG-ACTATTTTATTTTATATTA
* * *
4926569 AAGATTTTGACTTTTACATATTTATATAAGATGGAAAGATATTCATGAGTAATTAACTTTTTATT
255 AAGATTTTAACTTTTACATAATTATATAAGATGGAAAAATATTCATGAGTAATTAACTTTTTATT
4926634 TAGTTTC
320 TAGTTTC
* *
4926641 TATTTTTATTTGTATTATTGGTCAAATTAA-TAGTAACTTATTCATATAAGGTAAAAATATTGGA
1 TATTTTTATTTGTATTATTGGCCAAATTAATTA-TAACTTATTCATATAAGGTAAAAATATTAGA
*
4926705 TATTTAAAAGGTAATAAATGTAATTAATTTAGTCTAACTGATTATTTTGTAAGTAATAAAAATAT
65 TATTTAAAAGGTAATAAATGTAATTAATTTAGTCTAACTTATTATTTT-TAAGTAATAAAAATAT
4926770 TACTA-AAAAAAT-AAAATATCTTAAATAAATAAAATATATTTATTAGAGAACACATGATGATTT
129 TACTATAAAAAATAAAAATATCTTAAATAAATAAAATATATTTATTAGAGAACACATGATGATTT
* * * *
4926833 TTTAAACCCATACACAAGCCAAAATTATAAGCTATACACACCAGACTATTTTCTTTTATATTAAA
194 TTTAAACCCATCCACATGTCAAAATTATAAGCTAT-CACA-CAGACTATTTTATTTTATATTAAA
* * * *
4926898 GGTTTTAACTTTTACATAATTCTATAAGATGGAAAAATATTTATGATTAATTAACTTTTTATTTA
257 GATTTTAACTTTTACATAATTATATAAGATGGAAAAATATTCATGAGTAATTAACTTTTTATTTA
4926963 GTTTC
322 GTTTC
* * *
4926968 TATTTTTATTTGTATTATTGGCCAAATTAATTAAAATTTATTCATATAAAGTAAAAATATTAGAT
1 TATTTTTATTTGTATTATTGGCCAAATTAATTATAACTTATTCATATAAGGTAAAAATATTAGAT
4927033 ATTTAAAAGGTAATAAATGTAATTAATTTAGTC-AACTTATTACTTTTTAAGTAATAAAAATATT
66 ATTTAAAAGGTAATAAATGTAATTAATTTAGTCTAACTTATTA-TTTTTAAGTAATAAAAATATT
* * *
4927097 GCTATAAAACATAAAAATATCTTAAATAAATAAAATATATTTATTAGAGAACACATGGTGA-TTT
130 ACTATAAAAAATAAAAATATCTTAAATAAATAAAATATATTTATTAGAGAACACATGATGATTTT
* * ** * * *
4927161 TTAAACTCGTCCATTTGTTAAAAATATAAGCTATCAACATCAAACTA--TT-TTTT-TATTAAAG
195 TTAAACCCATCCACATGTCAAAATTATAAGCTATC-ACA-CAGACTATTTTATTTTATATTAAAG
* * * * *
4927222 ATTTTGATTTTTATATATTTGTATAAGAT
258 ATTTTAACTTTTACATAATTATATAAGAT
4927251 ACGTTAAAAT
Statistics
Matches: 546, Mismatches: 54, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
323 31 0.06
324 4 0.01
325 2 0.00
326 30 0.05
327 301 0.55
328 54 0.10
329 4 0.01
330 43 0.08
331 77 0.14
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (326 bp):
TATTTTTATTTGTATTATTGGCCAAATTAATTATAACTTATTCATATAAGGTAAAAATATTAGAT
ATTTAAAAGGTAATAAATGTAATTAATTTAGTCTAACTTATTATTTTTAAGTAATAAAAATATTA
CTATAAAAAATAAAAATATCTTAAATAAATAAAATATATTTATTAGAGAACACATGATGATTTTT
TAAACCCATCCACATGTCAAAATTATAAGCTATCACACAGACTATTTTATTTTATATTAAAGATT
TTAACTTTTACATAATTATATAAGATGGAAAAATATTCATGAGTAATTAACTTTTTATTTAGTTT
C
Found at i:4927328 original size:29 final size:29
Alignment explanation
Indices: 4927284--4927361 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
4927274 AATTAATAAA
*
4927284 TTTATAATTAAAATATCACATTCAAA-ATT
1 TTTAAAATTAAAATATCACATT-AAATATT
* *
4927313 TTTAAAATTAAGATATCATATTAAATATTT
1 TTTAAAATTAAAATATCACATTAAATA-TT
* *
4927343 TATTATAATTTAAATATCA
1 T-TTAAAATTAAAATATCA
4927362 TTCTTAACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.08
29 20 0.50
30 3 0.08
31 14 0.35
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (29 bp):
TTTAAAATTAAAATATCACATTAAATATT
Found at i:4927338 original size:27 final size:29
Alignment explanation
Indices: 4927254--4927344 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
4927244 ATAAGATACG
* *
4927254 TTAAAATT-AAATAACACATTAATTAATAAAT
1 TTAAAATTAAAATATCACATTAA--AAT-ATT
*
4927285 TTATAATTAAAATATCACATTCAAAAT-TT
1 TTAAAATTAAAATATCACATT-AAAATATT
* *
4927314 TTAAAATTAAGATATCATATT-AAATATT
1 TTAAAATTAAAATATCACATTAAAATATT
4927342 TTA
1 TTA
4927345 TTATAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 19 0.37
31 10 0.20
32 11 0.22
33 2 0.04
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.41
Consensus pattern (29 bp):
TTAAAATTAAAATATCACATTAAAATATT
Found at i:4927429 original size:9 final size:9
Alignment explanation
Indices: 4927413--4927442 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4927403 TTATACTTAT
4927413 TATT-AAAA
1 TATTAAAAA
4927421 TATTAAAAA
1 TATTAAAAA
4927430 TATTAAAAA
1 TATTAAAAA
4927439 TATT
1 TATT
4927443 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TATTAAAAA
Found at i:4927456 original size:14 final size:15
Alignment explanation
Indices: 4927437--4927465 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4927427 AAATATTAAA
4927437 AATATTTTT-ATATT
1 AATATTTTTAATATT
4927451 AATATTTTTAATATT
1 AATATTTTTAATATT
4927466 TTAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTTTAATATT
Found at i:4927523 original size:24 final size:23
Alignment explanation
Indices: 4927496--4927541 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
4927486 TTTGGCCAAA
4927496 AATATAATTAATTAGATAAAATAT
1 AATATAATTAATTA-ATAAAATAT
* * *
4927520 AATATTATTTATTAATATAATA
1 AATATAATTAATTAATAAAATA
4927542 ATATCACCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATATAATTAATTAATAAAATAT
Found at i:4928705 original size:22 final size:22
Alignment explanation
Indices: 4928667--4928710 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4928657 TTTTAATACG
4928667 TATTATTTATATATATATTTTA
1 TATTATTTATATATATATTTTA
*
4928689 TATTTTTTCATAT-TATATTTTA
1 TATTATTT-ATATATATATTTTA
4928711 AGTCAGGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATTTATATATATATTTTA
Found at i:4929900 original size:29 final size:29
Alignment explanation
Indices: 4929845--4929902 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4929835 TTTTAAATTT
4929845 AAATTTAAATATAAATTTATTATTTTTAA
1 AAATTTAAATATAAATTTATTATTTTTAA
*
4929874 AAATTT-AATATTAGATTGTATTATTTTTA
1 AAATTTAAATA-TAAATT-TATTATTTTTA
4929903 TATTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 11 0.42
30 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
AAATTTAAATATAAATTTATTATTTTTAA
Found at i:4929906 original size:21 final size:22
Alignment explanation
Indices: 4929881--4929923 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4929871 TAAAAATTTA
4929881 ATATTAGATTGTAT-TATTTTT
1 ATATTAGATTGTATATATTTTT
* *
4929902 ATATTATATTTTATATATTTTT
1 ATATTAGATTGTATATATTTTT
4929924 TATGTCGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
ATATTAGATTGTATATATTTTT
Found at i:4930898 original size:32 final size:30
Alignment explanation
Indices: 4930843--4930956 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 30
4930833 TATAAAATAT
*
4930843 TAAAATTTATATATT-T-ATATTATATTTCGTA
1 TAAAAATTATATATTATAAT-TTATATTT--TA
*
4930874 TAAAAATTATATATTATAATTTATATTAATA
1 TAAAAATTATATATTATAATTTATATT-TTA
* *
4930905 TAAAAA-TATAAAATATATAATTTTTATTTTA
1 TAAAAATTAT-ATAT-TATAATTTATATTTTA
* * *
4930936 TTAAATTTATATATAATAATT
1 TAAAAATTATATATTATAATT
4930957 ATTATAATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
30 9 0.13
31 34 0.50
32 23 0.34
33 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TAAAAATTATATATTATAATTTATATTTTA
Found at i:4931527 original size:16 final size:16
Alignment explanation
Indices: 4931506--4931538 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4931496 TCTCACATAC
4931506 AAATATTCAT-TTTTTA
1 AAATATT-ATCTTTTTA
4931522 AAATATTATCTTTTTA
1 AAATATTATCTTTTTA
4931538 A
1 A
4931539 TTATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTATCTTTTTA
Found at i:4931571 original size:21 final size:21
Alignment explanation
Indices: 4931522--4931571 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
4931512 TCATTTTTTA
4931522 AAATATTATCTTTTTAATTATT
1 AAATATT-TCTTTTTAATTATT
*
4931544 AAA-ATTTTTTTTTACA-TATT
1 AAATATTTCTTTTTA-ATTATT
4931564 AAATATTT
1 AAATATTT
4931572 AAGATGTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 14 0.56
21 8 0.32
22 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
AAATATTTCTTTTTAATTATT
Found at i:4935637 original size:13 final size:13
Alignment explanation
Indices: 4935619--4935655 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 13
4935609 AGTCCAAAAA
4935619 TTTAATTTTTAGT
1 TTTAATTTTTAGT
4935632 TTTAATTTTTTTAGT
1 TTTAA--TTTTTAGT
4935647 TTTAATTTT
1 TTTAATTTT
4935656 AGTCATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (13 bp):
TTTAATTTTTAGT
Found at i:4935644 original size:15 final size:15
Alignment explanation
Indices: 4935624--4935655 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4935614 AAAAATTTAA
4935624 TTTTTAGTTTTAATT
1 TTTTTAGTTTTAATT
4935639 TTTTTAGTTTTAATT
1 TTTTTAGTTTTAATT
4935654 TT
1 TT
4935656 AGTCATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTTTAGTTTTAATT
Found at i:4943018 original size:13 final size:13
Alignment explanation
Indices: 4942996--4943029 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4942986 AACATTTGGT
4942996 AAAAAG-AAGAAA
1 AAAAAGAAAGAAA
*
4943008 AAAAAGAAAGAGA
1 AAAAAGAAAGAAA
4943021 AAAAAGAAA
1 AAAAAGAAA
4943030 AGTAATGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:4957295 original size:20 final size:20
Alignment explanation
Indices: 4957259--4957296 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4957249 AAAAGAAACC
* *
4957259 CTAAACCCTTAATCAAAGTT
1 CTAAACCCTAAACCAAAGTT
4957279 CTAAACCCTAAACCAAAG
1 CTAAACCCTAAACCAAAG
4957297 CCTTAATACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.21
Consensus pattern (20 bp):
CTAAACCCTAAACCAAAGTT
Found at i:4959661 original size:20 final size:21
Alignment explanation
Indices: 4959623--4959663 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4959613 TTGATATTAT
* *
4959623 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
4959644 TTTAA-ATAAATTTAAATATA
1 TTTAATATAAATTTAAATATA
4959664 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:4965628 original size:31 final size:31
Alignment explanation
Indices: 4965590--4965649 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4965580 AAGCTTATCT
* * *
4965590 ATTAATAAAGTGATATCTTCTTATTTATTTC
1 ATTAATAAAGTGACATCATCTAATTTATTTC
4965621 ATTAATAAAGTGACATCATCTAATTTATT
1 ATTAATAAAGTGACATCATCTAATTTATT
4965650 GATAATGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (31 bp):
ATTAATAAAGTGACATCATCTAATTTATTTC
Found at i:4966248 original size:30 final size:30
Alignment explanation
Indices: 4966193--4966271 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
4966183 AATCAAAGGC
* * *
4966193 TCAATTGATTAAAAA-ACATATTTAAAAAT
1 TCAATTGAATAAAAATAAATCTTTAAAAAT
* * *
4966222 TTATTTGGATAAAAATAAATCTTTAAAAAT
1 TCAATTGAATAAAAATAAATCTTTAAAAAT
*
4966252 TCAATTGAATGAAAATAAAT
1 TCAATTGAATAAAAATAAAT
4966272 GTCTTATAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 11 0.28
30 28 0.72
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (30 bp):
TCAATTGAATAAAAATAAATCTTTAAAAAT
Found at i:4966568 original size:18 final size:18
Alignment explanation
Indices: 4966547--4966582 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4966537 TATTTTTATC
4966547 TTTTAATTT-TATTTTAAA
1 TTTT-ATTTATATTTTAAA
4966565 TTTTATTTATATTTTAAA
1 TTTTATTTATATTTTAAA
4966583 ATTCGTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTATATTTTAAA
Found at i:4966591 original size:18 final size:18
Alignment explanation
Indices: 4966552--4966595 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4966542 TTATCTTTTA
* *
4966552 ATTT-TATTTTAAATTTT
1 ATTTATATTTTAAAATTC
4966569 ATTTATATTTTAAAATTC
1 ATTTATATTTTAAAATTC
*
4966587 GTTTATATT
1 ATTTATATT
4966596 CATTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTATATTTTAAAATTC
Found at i:4976720 original size:14 final size:14
Alignment explanation
Indices: 4976692--4976730 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
4976682 GTTCTCTTAT
*
4976692 TAATA-TCATTTGA
1 TAATATTCATTCGA
4976705 TAATATTCATTCGA
1 TAATATTCATTCGA
4976719 TAATATTCATTC
1 TAATATTCATTC
4976731 TTGCACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (14 bp):
TAATATTCATTCGA
Found at i:4978049 original size:7 final size:7
Alignment explanation
Indices: 4978037--4978061 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4978027 ACTTTATTAA
4978037 AAACCCT
1 AAACCCT
4978044 AAACCCT
1 AAACCCT
4978051 AAACCCT
1 AAACCCT
4978058 AAAC
1 AAAC
4978062 TCAAAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:4979176 original size:38 final size:36
Alignment explanation
Indices: 4979130--4979202 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 36
4979120 ATATTGATAT
4979130 AAATTAT-AATATATAA-ATTTTATATAAAATACAATAC
1 AAATTATAAATAT-TAATATTTT-TATAAAATA-AATAC
*
4979167 AAATATATAAATATTAATATTTTTATAATATAAATA
1 AAAT-TATAAATATTAATATTTTTATAAAATAAATA
4979203 TATAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 8 0.25
38 14 0.44
39 10 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (36 bp):
AAATTATAAATATTAATATTTTTATAAAATAAATAC
Found at i:4980054 original size:2 final size:2
Alignment explanation
Indices: 4980049--4980073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4980039 TTTTTTTAGT
4980049 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 T
4980074 TTTTAACTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4983238 original size:30 final size:29
Alignment explanation
Indices: 4983196--4983260 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
4983186 TCAAGTAACC
*
4983196 TATTAAATTTTAATTTATATCTAAATAAA
1 TATTAAATTTTAATTTATACCTAAATAAA
* *
4983225 TATTTAATCTTTAATTTGTACCTAAATAAA
1 TATTAAAT-TTTAATTTATACCTAAATAAA
4983255 TCATTA
1 T-ATTA
4983261 TATTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.23
30 20 0.67
31 3 0.10
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTAAATTTTAATTTATACCTAAATAAA
Found at i:4983917 original size:16 final size:17
Alignment explanation
Indices: 4983892--4983925 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4983882 TTTATAAAAT
*
4983892 ATTAT-TTTTTAATTAA
1 ATTATATTTTAAATTAA
4983908 ATTATATTTTAAATTAA
1 ATTATATTTTAAATTAA
4983925 A
1 A
4983926 AATATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATATTTTAAATTAA
Found at i:4988477 original size:24 final size:23
Alignment explanation
Indices: 4988450--4988499 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
4988440 TTTTGACTAT
*
4988450 AAAA-GAATTAATAAATAAAAATAG
1 AAAATGAA-TAATAAAGAAAAA-AG
*
4988474 AAAATTAATAATAAAGAAAAAAG
1 AAAATGAATAATAAAGAAAAAAG
4988497 AAA
1 AAA
4988500 GTTCTTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 16 0.70
25 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (23 bp):
AAAATGAATAATAAAGAAAAAAG
Found at i:5000918 original size:33 final size:33
Alignment explanation
Indices: 5000848--5000932 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 33
5000838 AAATATTAAT
**
5000848 ATATATTATTTATTTTTTTATTATATGTTAATAAAA
1 ATAT-TTATTTATTAATTTATTATA--TTAATAAAA
5000884 ATGATTTATTTATTAATTTATTATA-TAATAAAA
1 AT-ATTTATTTATTAATTTATTATATTAATAAAA
5000917 ATATTTATTATATTAA
1 ATATTTATT-TATTAA
5000933 ATAAAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 7 0.16
33 16 0.36
36 20 0.44
37 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (33 bp):
ATATTTATTTATTAATTTATTATATTAATAAAA
Found at i:5000924 original size:20 final size:21
Alignment explanation
Indices: 5000898--5000943 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
5000888 TTTATTTATT
5000898 AATTTATTATA-T-AATAAAA
1 AATTTATTATATTAAATAAAA
5000917 ATATTTATTATATTAAATAAAA
1 A-ATTTATTATATTAAATAAAA
5000939 AATTT
1 AATTT
5000944 TATTTCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 10 0.42
21 5 0.21
22 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTATTATATTAAATAAAA
Found at i:5000936 original size:25 final size:22
Alignment explanation
Indices: 5000894--5000948 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
5000884 ATGATTTATT
* *
5000894 TATTAATTTATTATATAATAAAAA
1 TATTTATTTATTAAAT-A-AAAAA
5000918 TATTTATTATATTAAATAAAAAA
1 TATTTATT-TATTAAATAAAAAA
5000941 T-TTTATTT
1 TATTTATTT
5000949 CAATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 1 0.04
22 6 0.21
23 6 0.21
24 8 0.29
25 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTATTTATTAAATAAAAAA
Found at i:5007049 original size:28 final size:28
Alignment explanation
Indices: 5007009--5007066 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
5006999 TTTGGTGATT
*
5007009 AAAACATGCAGAATGGCAAAATATTTAC
1 AAAACATGCAGAATGGCAAAATAGTTAC
5007037 AAAACATGCAGAATGGCAAAATAGTTAC
1 AAAACATGCAGAATGGCAAAATAGTTAC
5007065 AA
1 AA
5007067 CTGTAGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.19
Consensus pattern (28 bp):
AAAACATGCAGAATGGCAAAATAGTTAC
Found at i:5018884 original size:2 final size:2
Alignment explanation
Indices: 5018877--5018902 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5018867 AATTTTAATG
5018877 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
5018903 AACACGCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5022032 original size:12 final size:12
Alignment explanation
Indices: 5022015--5022040 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5022005 GCAAAAATGA
5022015 CATTATTTCTCT
1 CATTATTTCTCT
5022027 CATTATTTCTCT
1 CATTATTTCTCT
5022039 CA
1 CA
5022041 CCAAACCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (12 bp):
CATTATTTCTCT
Found at i:5030182 original size:18 final size:18
Alignment explanation
Indices: 5030159--5030204 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
5030149 CACTGTGTCA
5030159 AAAGAATCTAACGCAACC
1 AAAGAATCTAACGCAACC
5030177 AAAGAATCTAACGCAACC
1 AAAGAATCTAACGCAACC
5030195 AAAGAATCTA
1 AAAGAATCTA
5030205 CCACTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.52, C:0.24, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAGAATCTAACGCAACC
Found at i:5034941 original size:249 final size:249
Alignment explanation
Indices: 5034499--5034996 Score: 951
Period size: 249 Copynumber: 2.0 Consensus size: 249
5034489 TGTGATGAGG
5034499 AGGTATGACTTGAATTTGCAGAATCCTTATTCTTTACAGGGACCATGACTATTTAGTATTTAATC
1 AGGTATGACTTGAATTTGCAGAATCCTTATTCTTTACAGGGACCATGACTATTTAGTATTTAATC
* *
5034564 AGTGTTCCTTTAGTGCTTATCTGCTACACTTAGTCTTTGCATTGAATCATTAGGCTGAAGTGTTT
66 AGTGTTCCTTTAGTGCTTACCTGCTACACTTAGTCTTTGCATCGAATCATTAGGCTGAAGTGTTT
*
5034629 TGTTGGTTATAAAAATGAGTTGGATCATATTTAGAACGTCATTAATTTCCAAGATTACCTCTCCA
131 TGTTGGCTATAAAAATGAGTTGGATCATATTTAGAACGTCATTAATTTCCAAGATTACCTCTCCA
*
5034694 GGCATTTGTTGGTTAGAATGGGTCTTGCTCAGTTTCATAAAAGACTTTTAATGT
196 GGCATTTGTTGGATAGAATGGGTCTTGCTCAGTTTCATAAAAGACTTTTAATGT
5034748 AGGTATGACTTGAATTTGCAGAATCCTTATTCTTTACAGGGACCATGACTATTTAGTATTTAATC
1 AGGTATGACTTGAATTTGCAGAATCCTTATTCTTTACAGGGACCATGACTATTTAGTATTTAATC
5034813 AGTGTTCCTTTAGTGCTTACCTGCTACACTTAGTCTTTGCATCGAATCATTAGGCTGAAGTGTTT
66 AGTGTTCCTTTAGTGCTTACCTGCTACACTTAGTCTTTGCATCGAATCATTAGGCTGAAGTGTTT
*
5034878 TGTTGGCTATAAAAATGAGTTGGATCATATTTAGAACGTCATTAATTTCCAAGATTTCCTCTCCA
131 TGTTGGCTATAAAAATGAGTTGGATCATATTTAGAACGTCATTAATTTCCAAGATTACCTCTCCA
5034943 GGCATTTGTTGGATAGAATGGGTCTTGCTCAGTTTCATAAAAGACTTTTAATGT
196 GGCATTTGTTGGATAGAATGGGTCTTGCTCAGTTTCATAAAAGACTTTTAATGT
5034997 TTTGTATAAA
Statistics
Matches: 244, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 244 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (249 bp):
AGGTATGACTTGAATTTGCAGAATCCTTATTCTTTACAGGGACCATGACTATTTAGTATTTAATC
AGTGTTCCTTTAGTGCTTACCTGCTACACTTAGTCTTTGCATCGAATCATTAGGCTGAAGTGTTT
TGTTGGCTATAAAAATGAGTTGGATCATATTTAGAACGTCATTAATTTCCAAGATTACCTCTCCA
GGCATTTGTTGGATAGAATGGGTCTTGCTCAGTTTCATAAAAGACTTTTAATGT
Found at i:5047338 original size:36 final size:36
Alignment explanation
Indices: 5047310--5047391 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
5047300 AATATATATT
*
5047310 ATTTATTTATTCATTTATTATATGTTAATAAAAATG
1 ATTTATTTATTAATTTATTATATGTTAATAAAAATG
5047346 ATTTATTTATTAATTTATTATA---TAATAAAAAT-
1 ATTTATTTATTAATTTATTATATGTTAATAAAAATG
5047378 ATTTATTATATTAA
1 ATTTATT-TATTAA
5047392 ATAAAAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 7 0.16
33 16 0.36
36 21 0.48
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (36 bp):
ATTTATTTATTAATTTATTATATGTTAATAAAAATG
Found at i:5047377 original size:33 final size:33
Alignment explanation
Indices: 5047295--5047391 Score: 115
Period size: 36 Copynumber: 2.8 Consensus size: 33
5047285 TTCAATCAAA
* * *
5047295 ATATTAATATATATTATTTATTTATTCATTTATT
1 ATATTAATA-AAAATATTTATTTATTAATTTATT
5047329 ATATGTTAATAAAAATGATTTATTTATTAATTTATT
1 ATA--TTAATAAAAAT-ATTTATTTATTAATTTATT
5047365 ATA-TAATAAAAATATTTATTATATTAA
1 ATATTAATAAAAATATTTATT-TATTAA
5047392 ATAAAAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
32 7 0.12
33 16 0.29
34 3 0.05
35 3 0.05
36 27 0.48
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (33 bp):
ATATTAATAAAAATATTTATTTATTAATTTATT
Found at i:5047395 original size:25 final size:23
Alignment explanation
Indices: 5047353--5047401 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
5047343 ATGATTTATT
*
5047353 TATTAATTTATTATATAATAAAAA
1 TATTAATTTATTAAATAA-AAAAA
*
5047377 TATTTATTATATTAAATAAAAAAA
1 TATTAATT-TATTAAATAAAAAAA
5047401 T
1 T
5047402 TTATTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTAATTTATTAAATAAAAAAA
Found at i:5047414 original size:25 final size:22
Alignment explanation
Indices: 5047357--5047406 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
5047347 TTTATTTATT
5047357 AATTTATTATA-T-AATAAAAA
1 AATTTATTATATTAAATAAAAA
*
5047377 TATTTATTATATTAAATAAAAA
1 AATTTATTATATTAAATAAAAA
5047399 AATTTATT
1 AATTTATT
5047407 TCAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 1 0.04
22 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTATTATATTAAATAAAAA
Found at i:5059089 original size:28 final size:28
Alignment explanation
Indices: 5059049--5059106 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
5059039 TTTGGTGATT
*
5059049 AAAACATGCAGAATGGCAAAATATTTAC
1 AAAACATGCAGAATGGCAAAATAGTTAC
5059077 AAAACATGCAGAATGGCAAAATAGTTAC
1 AAAACATGCAGAATGGCAAAATAGTTAC
5059105 AA
1 AA
5059107 CTGTAGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.19
Consensus pattern (28 bp):
AAAACATGCAGAATGGCAAAATAGTTAC
Found at i:5065714 original size:3 final size:3
Alignment explanation
Indices: 5065706--5065743 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
5065696 AATGATAAAA
5065706 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
5065744 ATTTTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5066295 original size:27 final size:26
Alignment explanation
Indices: 5066265--5066327 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 26
5066255 ATAAAATAAA
*
5066265 ATAATATTATTTAATTTAATTTTATTT
1 ATAATATTATTTAATTTAATCTTA-TT
* * * *
5066292 ATAACATGATTTTATTTTATCTTATT
1 ATAATATTATTTAATTTAATCTTATT
*
5066318 ATAATCTTAT
1 ATAATATTAT
5066328 ATATTAAACA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (26 bp):
ATAATATTATTTAATTTAATCTTATT
Found at i:5072278 original size:20 final size:20
Alignment explanation
Indices: 5072255--5072295 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5072245 TAAATATAAT
* * *
5072255 ATTATTTTATATATATTTTA
1 ATTATATTAAATATAATTTA
5072275 ATTATATTAAATATAATTTA
1 ATTATATTAAATATAATTTA
5072295 A
1 A
5072296 AATTATCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATATTAAATATAATTTA
Found at i:5072596 original size:11 final size:11
Alignment explanation
Indices: 5072554--5072607 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
5072544 TAATACAATT
5072554 TAAAATTTTAA
1 TAAAATTTTAA
*
5072565 TAATAATTAT-A
1 TAA-AATTTTAA
5072576 TATAAA-TTTAA
1 TA-AAATTTTAA
5072587 TAAAATTTTAA
1 TAAAATTTTAA
5072598 -AAATATTTTA
1 TAAA-ATTTTA
5072608 TATTTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 8 0.22
11 22 0.61
12 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:5075810 original size:28 final size:28
Alignment explanation
Indices: 5075770--5075827 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
5075760 TTTGGTGATT
*
5075770 AAAACATGCAGAATGGCAAAATATTTAC
1 AAAACATGCAGAATGGCAAAATAGTTAC
5075798 AAAACATGCAGAATGGCAAAATAGTTAC
1 AAAACATGCAGAATGGCAAAATAGTTAC
5075826 AA
1 AA
5075828 CTGTAGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.19
Consensus pattern (28 bp):
AAAACATGCAGAATGGCAAAATAGTTAC
Found at i:5081561 original size:3 final size:3
Alignment explanation
Indices: 5081555--5081580 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5081545 ATGATTAATA
5081555 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
5081581 ATTTTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:5088975 original size:18 final size:18
Alignment explanation
Indices: 5088952--5088997 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
5088942 CACTGTGTCA
5088952 AAAGAATCTAACGCAACC
1 AAAGAATCTAACGCAACC
5088970 AAAGAATCTAACGCAACC
1 AAAGAATCTAACGCAACC
5088988 AAAGAATCTA
1 AAAGAATCTA
5088998 CCACTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.52, C:0.24, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAGAATCTAACGCAACC
Found at i:5099020 original size:14 final size:15
Alignment explanation
Indices: 5098991--5099023 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5098981 TGCAAAATCC
*
5098991 TTTTGTGTATTTGAA
1 TTTTGTGTAATTGAA
5099006 TTTTG-GTAATTGAA
1 TTTTGTGTAATTGAA
5099020 TTTT
1 TTTT
5099024 CATTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (15 bp):
TTTTGTGTAATTGAA
Found at i:5105361 original size:9 final size:9
Alignment explanation
Indices: 5105347--5105372 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5105337 ATTTCCTTGG
5105347 TTTTATATA
1 TTTTATATA
5105356 TTTTATATA
1 TTTTATATA
5105365 TTTTATAT
1 TTTTATAT
5105373 TCTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATATA
Found at i:5106588 original size:14 final size:15
Alignment explanation
Indices: 5106559--5106591 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5106549 ATTGGAATCC
*
5106559 TTTTGTGTATTTGAA
1 TTTTGTGTAATTGAA
5106574 TTTTG-GTAATTGAA
1 TTTTGTGTAATTGAA
5106588 TTTT
1 TTTT
5106592 CATTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (15 bp):
TTTTGTGTAATTGAA
Found at i:5107812 original size:15 final size:15
Alignment explanation
Indices: 5107792--5107821 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5107782 AAATTCCCTA
5107792 TTTTCAATGATGATG
1 TTTTCAATGATGATG
5107807 TTTTCAATGATGATG
1 TTTTCAATGATGATG
5107822 ATGAATGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TTTTCAATGATGATG
Found at i:5110824 original size:34 final size:33
Alignment explanation
Indices: 5110759--5110863 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 33
5110749 TTTTTTTTTT
* * * **
5110759 TTTTTTTTTTCCATAGCCATTTTCGAATTTTTCAC
1 TTTTTTTTTACTA-AGCCATTTTTGGCTTTTT-AC
5110794 TTTTTTTTTACTAAGCCATTTTTGGC-TTTT--
1 TTTTTTTTTACTAAGCCATTTTTGGCTTTTTAC
* *
5110824 TTTTTTTTCA-T-AGCCATTTTTAGCTTTTGTAC
1 TTTTTTTTTACTAAGCCATTTTTGGCTTTT-TAC
5110856 TTTTTTTT
1 TTTTTTTT
5110864 CTTTTTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
28 12 0.20
29 4 0.07
30 10 0.17
32 8 0.14
33 4 0.07
34 10 0.17
35 11 0.19
ACGTcount: A:0.14, C:0.15, G:0.08, T:0.63
Consensus pattern (33 bp):
TTTTTTTTTACTAAGCCATTTTTGGCTTTTTAC
Found at i:5110851 original size:26 final size:26
Alignment explanation
Indices: 5110785--5110851 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
5110775 CCATTTTCGA
5110785 ATTTTTCA-CTTTTTTTTTACTAAGCC
1 ATTTTT-AGCTTTTTTTTTACTAAGCC
* **
5110811 ATTTTTGGCTTTTTTTTTTTTCATAGCC
1 ATTTTTAGCTTTTTTTTTACT-A-AGCC
5110839 ATTTTTAGCTTTT
1 ATTTTTAGCTTTT
5110852 GTACTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 17 0.50
27 1 0.03
28 16 0.47
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (26 bp):
ATTTTTAGCTTTTTTTTTACTAAGCC
Found at i:5118941 original size:20 final size:20
Alignment explanation
Indices: 5118895--5118951 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 20
5118885 TTTATTTATT
5118895 TATTTTTATATTATATAAATAA
1 TATTTTTA-ATTATA-AAATAA
5118917 -A--TTTAATTATAAAATAA
1 TATTTTTAATTATAAAATAA
*
5118934 TATTTTTACTTAATAAAA
1 TATTTTTAATT-ATAAAA
5118952 ATTTAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 6 0.20
18 7 0.23
19 4 0.13
20 6 0.20
21 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTTTAATTATAAAATAA
Found at i:5119383 original size:14 final size:14
Alignment explanation
Indices: 5119364--5119411 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
5119354 AATAAAAGTT
5119364 AATTAATTACAAAA
1 AATTAATTACAAAA
5119378 AATTAATTATCAAATAAA
1 AATTAATTA-C--A-AAA
*
5119396 AATAAATTACAAAA
1 AATTAATTACAAAA
5119410 AA
1 AA
5119412 GAAATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 14 0.48
15 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAATTACAAAA
Found at i:5119383 original size:18 final size:18
Alignment explanation
Indices: 5119357--5119427 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 18
5119347 AGTATAAAAT
* *
5119357 AAAAGTTAATTAATTACA
1 AAAAATTAATAAATTACA
*
5119375 AAAAATTAAT-TA-T-CA
1 AAAAATTAATAAATTACA
5119390 AATAAA--AATAAATTACA
1 AA-AAATTAATAAATTACA
**
5119407 AAAAAGAAATAAATTACA
1 AAAAATTAATAAATTACA
5119425 AAA
1 AAA
5119428 GGGTAGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 3 0.07
15 5 0.11
16 8 0.18
17 5 0.11
18 23 0.52
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATTAATAAATTACA
Found at i:5119408 original size:17 final size:17
Alignment explanation
Indices: 5119374--5119427 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
5119364 AATTAATTAC
*
5119374 AAAAAATTAATTATCAAA
1 AAAAAATAAATTA-CAAA
*
5119392 TAAAAATAAATTACAAA
1 AAAAAATAAATTACAAA
5119409 AAAGAAATAAATTACAAA
1 AAA-AAATAAATTACAAA
5119427 A
1 A
5119428 GGGTAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAAATAAATTACAAA
Found at i:5120210 original size:369 final size:369
Alignment explanation
Indices: 5119529--5120526 Score: 1182
Period size: 369 Copynumber: 2.7 Consensus size: 369
5119519 CAGGGTCCTG
* ** * * * *
5119529 TGTCACGGGTCGAGACTTAATCTCTTAACCCGCGCGGCTCCT-AGACCCGAGCATTCACCCTTCC
1 TGTCACGGGTCGAGACTTAAGCTCCGAACCTGCGCGACT-CTGGGACCCGGGCATTCACCCTTCC
* * * *
5119593 GGCGTCCCAAATCAGCCTGA-CTGCCACAGTTCACACCCTTGTAAGGTATTATTCGCTCTGACCC
65 GGCGTCCCGAATCAGCCT-ACCTGCCACAGTTCACACCCTTGTGAGGTATTGTCCGCTCTGACCC
* * * * *
5119657 CCTTGACCTTACGGTTTTGTCCTACAAAAAGCGCCTCATAAGGCAGAGGTGGTGTGAACCCTTTT
129 CCTTGACCTCACGATTTTGTCCTACAAAAA-CGTCTCACAAGACAGAGGTGGTGTGAACCCTTTT
* * * ** *
5119722 ATACTCCAGTAACACTCTTATTATGTTCGATGTGAGATTCATGACTCTTCCTTAGGTCCGTGACA
193 ATACCCCAGTGAC-CTCCTATTATGTTCGATGTGAGATTCAAAACTCTTCCTTAAGTCCGTGACA
* * * * *
5119787 TTCTCCCGCACCCAACTTCGTGACGCCCTTGTCACGGAGGCTGACCACCCTACCTGCCTCCCTTG
257 TTCTCCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGACCACCCTACCTACCTCCCTCG
*** * * *
5119852 AGGTGCTTGGCGTGAATCGAACGATTTATGGCTGACTCTGATACCACT
322 AGACACTCGACGTGAATCGAACGATTTAGGGCTGACTCTGATACCACT
* *
5119900 TGTCACGGGTCGAGACTTAAGCTCCGAATC-GACGCGACT-TCGGGACCCGGGCATTCACCCTTT
1 TGTCACGGGTCGAGACTTAAGCTCCGAACCTG-CGCGACTCT-GGGACCCGGGCATTCACCCTTC
* * *
5119963 CGGCGTCCCGAATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTG-GCC
64 CGGCGTCCCGAATCAGCCTACCTGCCACAGTTCACACCCTTGTGAGGTATTGTCCGCTCTGACCC
* * * *
5120027 CC-TGACCTCACGATTTTGTCCTATAAAAGACGTCTCACAAGACAGAGATGGTGTGAACTCTTAT
129 CCTTGACCTCACGATTTTGTCCTACAAAA-ACGTCTCACAAGACAGAGGTGGTGTGAACCCTTTT
* *
5120091 ATACCCCAGTGACCTTCCTATTATGTTCGATGTGAGATTCAAAACTCCTCCTTAAGTCCGTGATA
193 ATACCCCAGTGACC-TCCTATTATGTTCGATGTGAGATTCAAAACTCTTCCTTAAGTCCGTGACA
* * * * *
5120156 TTCTCTCTCACCCAACCTCGTGACATCCTCGTCACGGAGGTTGGCCACCCTACCTACCTCCCTCG
257 TTCTCCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGACCACCCTACCTACCTCCCTCG
*
5120221 AGACACTCGACGTGAATCGAACGATTTAGGGCTGATTCTGATACCACT
322 AGACACTCGACGTGAATCGAACGATTTAGGGCTGACTCTGATACCACT
* * ** * * ** *
5120269 TGTCATGGGTCGAGACTTAATCTCTTAACCTGCGTGGCTCTGGGACCCGGATATTCATCCTTCCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAACCTGCGCGACTCTGGGACCCGGGCATTCACCCTTCCG
* * *
5120334 ACGTCTCGAATCAGCCTGACC-GCCACAGTTCACATCCTTGTGAGGTATTGTCCGCTCTGACCCC
66 GCGTCCCGAATCAGCCT-ACCTGCCACAGTTCACACCCTTGTGAGGTATTGTCCGCTCTGACCCC
* ** * * *
5120398 CTTGGCCTCACGATTTTGTCCTACAAAAAATATTTCACATGACAGAGGTGGTGTAAACCCTTTTA
130 CTTGACCTCACGATTTTGTCCTAC-AAAAACGTCTCACAAGACAGAGGTGGTGTGAACCCTTTTA
* * * * * *
5120463 TACCCTAATGACCCTCCTATTATATTTGATGTGAGATTCAATACTCTTCCTTAAGTCCATGACA
194 TACCCCAGTGA-CCTCCTATTATGTTCGATGTGAGATTCAAAACTCTTCCTTAAGTCCGTGACA
5120527 CTTGCACTTC
Statistics
Matches: 530, Mismatches: 84, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
368 1 0.00
369 304 0.57
370 14 0.03
371 205 0.39
372 6 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (369 bp):
TGTCACGGGTCGAGACTTAAGCTCCGAACCTGCGCGACTCTGGGACCCGGGCATTCACCCTTCCG
GCGTCCCGAATCAGCCTACCTGCCACAGTTCACACCCTTGTGAGGTATTGTCCGCTCTGACCCCC
TTGACCTCACGATTTTGTCCTACAAAAACGTCTCACAAGACAGAGGTGGTGTGAACCCTTTTATA
CCCCAGTGACCTCCTATTATGTTCGATGTGAGATTCAAAACTCTTCCTTAAGTCCGTGACATTCT
CCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGACCACCCTACCTACCTCCCTCGAGAC
ACTCGACGTGAATCGAACGATTTAGGGCTGACTCTGATACCACT
Found at i:5123477 original size:18 final size:19
Alignment explanation
Indices: 5123426--5123495 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 19
5123416 AAAGTGTTTA
5123426 TAATTTGATTAAAATTAAAT
1 TAATTTGATT-AAATTAAAT
** *
5123446 TAA-TCAATTGAATTAAAT
1 TAATTTGATTAAATTAAAT
5123464 TAATTTGATT-AATT-AAT
1 TAATTTGATTAAATTAAAT
*
5123481 TTA-TT-ATTAAATTAA
1 TAATTTGATTAAATTAA
5123496 TTTTGATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 3 0.07
16 6 0.15
17 6 0.15
18 15 0.37
19 8 0.20
20 3 0.07
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (19 bp):
TAATTTGATTAAATTAAAT
Found at i:5123489 original size:29 final size:29
Alignment explanation
Indices: 5123457--5123516 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
5123447 AATCAATTGA
5123457 ATTAAATTAA-TTTGATTAATTAATTTATT
1 ATTAAATTAATTTTGATTAATT-ATTTATT
*
5123486 ATTAAATTAATTTTGATTGATTATTTATT
1 ATTAAATTAATTTTGATTAATTATTTATT
5123515 AT
1 AT
5123517 GATTTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (29 bp):
ATTAAATTAATTTTGATTAATTATTTATT
Found at i:5123493 original size:12 final size:13
Alignment explanation
Indices: 5123426--5123490 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 13
5123416 AAAGTGTTTA
5123426 TAATTTGATTAA-
1 TAATTTGATTAAT
**
5123438 -AATTAAATTAAT
1 TAATTTGATTAAT
*
5123450 CAA-TTGAATTAAAT
1 TAATTTG-ATT-AAT
5123464 TAATTTGATTAAT
1 TAATTTGATTAAT
5123477 TAATTT-ATT-AT
1 TAATTTGATTAAT
5123488 TAA
1 TAA
5123491 ATTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
11 14 0.33
12 4 0.09
13 14 0.33
14 8 0.19
15 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (13 bp):
TAATTTGATTAAT
Found at i:5123767 original size:14 final size:14
Alignment explanation
Indices: 5123750--5123786 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
5123740 TTAAATCAAT
5123750 TAAATTAATTTTGA
1 TAAATTAATTTTGA
5123764 TAAATTAATTTTTGA
1 TAAATTAA-TTTTGA
5123779 -AAATTAAT
1 TAAATTAAT
5123787 AAATTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 15 0.68
15 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
TAAATTAATTTTGA
Found at i:5124024 original size:41 final size:41
Alignment explanation
Indices: 5123967--5124074 Score: 198
Period size: 41 Copynumber: 2.6 Consensus size: 41
5123957 CATTTGTGTC
5123967 GATTCTAACATGTAATGATTAAGTTCACATCCTAGGCTGTT
1 GATTCTAACATGTAATGATTAAGTTCACATCCTAGGCTGTT
5124008 GATTCTAACATGTAATGATTAAGTTCACATCCTAGGCTGTT
1 GATTCTAACATGTAATGATTAAGTTCACATCCTAGGCTGTT
**
5124049 GATTCTAACATACAATGATTAAGTTC
1 GATTCTAACATGTAATGATTAAGTTC
5124075 GCCATAATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (41 bp):
GATTCTAACATGTAATGATTAAGTTCACATCCTAGGCTGTT
Found at i:5124357 original size:7 final size:7
Alignment explanation
Indices: 5124345--5124389 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
5124335 TGATAGAAAA
5124345 AAATTAT
1 AAATTAT
5124352 AAATTAT
1 AAATTAT
5124359 AAATTAT
1 AAATTAT
*
5124366 AAATTTT
1 AAATTAT
5124373 AAAATTATT
1 -AAATTA-T
5124382 AAA-TAT
1 AAATTAT
5124388 AA
1 AA
5124390 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 3 0.09
7 22 0.65
8 8 0.24
9 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTAT
Found at i:5124400 original size:23 final size:22
Alignment explanation
Indices: 5124352--5124398 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
5124342 AAAAAATTAT
*
5124352 AAATTA-TAAATTATAAATTTTA
1 AAATTATTAAA-TATAATTTTTA
5124374 AAATTATTAAATATAATTTTTA
1 AAATTATTAAATATAATTTTTA
5124396 AAA
1 AAA
5124399 ATAATTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTATTAAATATAATTTTTA
Found at i:5124405 original size:23 final size:22
Alignment explanation
Indices: 5124358--5124414 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
5124348 TTATAAATTA
* *
5124358 TAAATTATAAATTTTAAAATTAT
1 TAAA-TATAATTTTTAAAATAAT
5124381 TAAATATAATTTTTAAAAATAAT
1 TAAATATAATTTTT-AAAATAAT
* *
5124404 TACATAAAATT
1 TAAATATAATT
5124415 ATTTCGGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATATAATTTTTAAAATAAT
Found at i:5129085 original size:18 final size:18
Alignment explanation
Indices: 5129062--5129111 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
5129052 TATAAATATG
5129062 ATTTAAATAAAAATTTAA-
1 ATTT-AATAAAAATTTAAT
*
5129080 ATTTAAT-ACAATTTAAT
1 ATTTAATAAAAATTTAAT
*
5129097 ATTTTAATAATAATT
1 A-TTTAATAAAAATT
5129112 ATATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 4 0.15
18 10 0.37
19 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAATAAAAATTTAAT
Found at i:5129094 original size:16 final size:18
Alignment explanation
Indices: 5129073--5129105 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5129063 TTTAAATAAA
5129073 AATTTAA-A-TTTAATAC
1 AATTTAATATTTTAATAC
5129089 AATTTAATATTTTAATA
1 AATTTAATATTTTAATA
5129106 ATAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTAATATTTTAATAC
Found at i:5129510 original size:18 final size:18
Alignment explanation
Indices: 5129487--5129532 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
5129477 CACTGTGTCA
5129487 AAAGAATCTAACGCAACC
1 AAAGAATCTAACGCAACC
5129505 AAAGAATCTAACGCAACC
1 AAAGAATCTAACGCAACC
5129523 AAAGAATCTA
1 AAAGAATCTA
5129533 CCACTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.52, C:0.24, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAGAATCTAACGCAACC
Found at i:5136000 original size:2 final size:2
Alignment explanation
Indices: 5135993--5136046 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
5135983 CCTCTTTATT
5135993 TA TA TA TA 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 TA TA TA TA
5136035 TA TA TA TA TA TA
1 TA TA TA TA TA TA
5136047 AAGAACAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5139585 original size:14 final size:15
Alignment explanation
Indices: 5139556--5139588 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5139546 TGCAAAATCC
*
5139556 TTTTGTGTATTTGAA
1 TTTTGTGTAATTGAA
5139571 TTTTG-GTAATTGAA
1 TTTTGTGTAATTGAA
5139585 TTTT
1 TTTT
5139589 CATTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (15 bp):
TTTTGTGTAATTGAA
Found at i:5139897 original size:2 final size:2
Alignment explanation
Indices: 5139892--5139916 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5139882 GTGTATAATA
5139892 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
5139917 AACATTAACC
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:5140800 original size:15 final size:15
Alignment explanation
Indices: 5140780--5140809 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5140770 AAATTCCTTA
5140780 TTTTCAATGATGATG
1 TTTTCAATGATGATG
5140795 TTTTCAATGATGATG
1 TTTTCAATGATGATG
5140810 ATGAATGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TTTTCAATGATGATG
Found at i:5142609 original size:32 final size:31
Alignment explanation
Indices: 5142573--5142666 Score: 82
Period size: 34 Copynumber: 2.9 Consensus size: 31
5142563 CATCTTTGTT
*
5142573 TTTTTTTTTTTTTTTCCATAGCTATTTTCGAA
1 TTTTTTTTTTTTTTT-CATAGCCATTTTCGAA
* * **
5142605 TTTTTCACTTTTTTTTT-ACTAAGCCATTTTTGGC
1 TTTTT--TTTTTTTTTTCA-T-AGCCATTTTCGAA
5142639 TTTTATTTTTTTTTTTCATAGCCATTTT
1 TTTT-TTTTTTTTTTTCATAGCCATTTT
5142667 TAGCTTTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
32 15 0.30
33 11 0.22
34 23 0.46
35 1 0.02
ACGTcount: A:0.15, C:0.14, G:0.06, T:0.65
Consensus pattern (31 bp):
TTTTTTTTTTTTTTTCATAGCCATTTTCGAA
Found at i:5142667 original size:32 final size:32
Alignment explanation
Indices: 5142572--5142674 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 32
5142562 ACATCTTTGT
* * * **
5142572 TTTTTTTTTTTTTTTTCCATAGCTATTTTCGAAT
1 TTTTATTTTTTTTTTT-CATAGCCATTTTTG-GC
* *
5142606 TTTTCACTTTTTTTTTAC-TAAGCCATTTTTGGC
1 TTTT-ATTTTTTTTTTTCAT-AGCCATTTTTGGC
*
5142639 TTTTATTTTTTTTTTTCATAGCCATTTTTAGC
1 TTTTATTTTTTTTTTTCATAGCCATTTTTGGC
5142671 TTTT
1 TTTT
5142675 GTACTTTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
32 27 0.48
33 6 0.11
34 14 0.25
35 9 0.16
ACGTcount: A:0.15, C:0.14, G:0.07, T:0.65
Consensus pattern (32 bp):
TTTTATTTTTTTTTTTCATAGCCATTTTTGGC
Found at i:5142683 original size:33 final size:34
Alignment explanation
Indices: 5142611--5142686 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 34
5142601 CGAATTTTTC
*
5142611 ACTTTTTTTTTACTAAGCCATTTTTGGCTTTTAT
1 ACTTTTTTTTTACTAAGCCATTTTTAGCTTTTAT
* *
5142645 --TTTTTTTTTTC-ATAGCCATTTTTAGCTTTTGT
1 ACTTTTTTTTTACTA-AGCCATTTTTAGCTTTTAT
5142677 ACTTTTTTTT
1 ACTTTTTTTT
5142687 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 1 0.03
32 27 0.75
34 8 0.22
ACGTcount: A:0.14, C:0.13, G:0.08, T:0.64
Consensus pattern (34 bp):
ACTTTTTTTTTACTAAGCCATTTTTAGCTTTTAT
Found at i:5150750 original size:16 final size:19
Alignment explanation
Indices: 5150714--5150748 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5150704 TTGATTTATT
5150714 TTTATATTATATAAATAAA
1 TTTATATTATATAAATAAA
5150733 TTTA-ATTATA-AAATAA
1 TTTATATTATATAAATAA
5150749 TTATTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTATATTATATAAATAAA
Done.