Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 17 of 175
Found at i:4698943 original size:90 final size:89
Alignment explanation
Indices: 4698770--4699202 Score: 437
Period size: 90 Copynumber: 4.9 Consensus size: 89
4698760 AACTTACAGA
* * **
4698770 AATTAAATAACTTACATAACTTACATAAATTAAGTAATTCTT-GGTAACTTACATAAATTAAAT-
1 AATTAAATAACTTACATAAATTA-ATAAATTAAATAA--CTTACATAACTTACATAAATTAAATA
*
4698833 ATCTTGCATAACTTACATAAATTAAGTT
63 AT-TTACATAACTTACATAAATTAAGTT
*
4698861 AATTAAATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAAT
1 AATTAAATAACTTACATAAATTAA-TAAATTAAATAACTTACATAACTTACATAAATTAAATAAT
*
4698926 TTACATAACTTACATAAATTAA-AT
65 TTACATAACTTACATAAATTAAGTT
* ** * * *
4698950 ATCTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTA-AGTTAATTAAATA
1 A-ATTAAATAACTTACATAAATTAA-TAAATTAAATAACTTACATAACTTACA-TAAATTAAATA
*
4699014 ACTTACATAACTTACATAAATTAAG-T
63 ATTTACATAACTTACATAAATTAAGTT
* * *
4699040 AATTTACATAACTTACATAAA-T--TAAA-T--AT--CTTGCATAACTTACATAAATTAAGTTAA
1 AA-TTAAATAACTTACATAAATTAATAAATTAAATAACTTACATAACTTACATAAATTAA-ATAA
* *
4699097 -TTAAATAACTTACATAAATTAAGTA
64 TTTACATAACTTACATAAATTAAGTT
* * * *
4699122 AATTAAATATCTTGCATAATTTACATAAATTAAATATCTTACATAACTTACATAAATTAAAT-AT
1 AATTAAATAACTTACATAAATTA-ATAAATTAAATAACTTACATAACTTACATAAATTAAATAAT
*
4699186 CTTACATTACTTACATA
65 -TTACATAACTTACATA
4699203 GCTTACATTA
Statistics
Matches: 289, Mismatches: 32, Indels: 43
0.79 0.09 0.12
Matches are distributed among these distances:
81 54 0.19
82 7 0.02
83 2 0.01
85 5 0.02
86 4 0.01
88 3 0.01
89 8 0.03
90 171 0.59
91 35 0.12
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (89 bp):
AATTAAATAACTTACATAAATTAATAAATTAAATAACTTACATAACTTACATAAATTAAATAATT
TACATAACTTACATAAATTAAGTT
Found at i:4698978 original size:117 final size:117
Alignment explanation
Indices: 4698754--4699202 Score: 758
Period size: 117 Copynumber: 3.8 Consensus size: 117
4698744 ATTTGGTTAA
* ***
4698754 TTACATAACTTACAG-AAATTAAATAACTTACATAACTTACATAAATTAAGTAATTCTTGGTAAC
1 TTACATAAATTA-AGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAATT-TACATAAC
4698818 TTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
64 TTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
4698872 TTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAATTTACATAACTT
1 TTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAATTTACATAACTT
4698937 ACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
66 ACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
*
4698989 TTACATAAATTAAGTTAATTAAATAACTTACATAACTTACATAAATTAAGTAATTTACATAACTT
1 TTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAATTTACATAACTT
4699054 ACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
66 ACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
* * * *
4699106 TTACATAAATTAAGTAAATTAAATATCTTGCATAATTTACATAAATTAAAT-ATCTTACATAACT
1 TTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAAT-TTACATAACT
* *
4699170 TACATAAATTAAATATCTTACATTACTTACATA
65 TACATAAATTAAATATCTTGCATAACTTACATA
4699203 GCTTACATTA
Statistics
Matches: 317, Mismatches: 12, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
116 2 0.01
117 264 0.83
118 51 0.16
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (117 bp):
TTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAGTAATTTACATAACTT
ACATAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAAC
Found at i:4699207 original size:18 final size:18
Alignment explanation
Indices: 4698894--4699219 Score: 105
Period size: 18 Copynumber: 18.1 Consensus size: 18
4698884 AGTAAATTAA
*
4698894 ATAACTTACATAACTTAC
1 ATAACTTACATTACTTAC
* * *
4698912 ATAAATTA-AGTAATTTAC
1 ATAACTTACA-TTACTTAC
* * *
4698930 ATAACTTACATAAATTAA
1 ATAACTTACATTACTTAC
* * *
4698948 ATATCTTGCATAACTTAC
1 ATAACTTACATTACTTAC
* * *
4698966 ATAAATTA-AGTTAATTAA
1 ATAACTTACA-TTACTTAC
* *
4698984 ATAACTTACATAAATTA-
1 ATAACTTACATTACTTAC
* *
4699001 AGTTAA-TTAAATAACTTAC
1 A--TAACTTACATTACTTAC
* *
4699020 ATAACTTACATAAATTA-
1 ATAACTTACATTACTTAC
* *
4699037 AGTAATTTACATAACTTAC
1 A-TAACTTACATTACTTAC
* * *
4699056 ATAAATTA-AATATCTTGC
1 ATAACTTACATTA-CTTAC
* *
4699074 ATAACTTACATAAATTA-
1 ATAACTTACATTACTTAC
* *
4699091 AGTTAA-TTAAATAACTTAC
1 A--TAACTTACATTACTTAC
* * * *
4699110 ATAAATTA-AGTAAATTAA
1 ATAACTTACA-TTACTTAC
* * * *
4699128 ATATCTTGCATAATTTAC
1 ATAACTTACATTACTTAC
* *
4699146 ATAAATTA-AATATCTTAC
1 ATAACTTACATTA-CTTAC
* * *
4699164 ATAACTTACATAAATTAA
1 ATAACTTACATTACTTAC
*
4699182 ATATCTTACATTACTTAC
1 ATAACTTACATTACTTAC
*
4699200 ATAGCTTACATTACTTAC
1 ATAACTTACATTACTTAC
4699218 AT
1 AT
4699220 GGGGCATACA
Statistics
Matches: 231, Mismatches: 57, Indels: 40
0.70 0.17 0.12
Matches are distributed among these distances:
17 16 0.07
18 199 0.86
19 16 0.07
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (18 bp):
ATAACTTACATTACTTAC
Found at i:4699219 original size:27 final size:27
Alignment explanation
Indices: 4698754--4699202 Score: 377
Period size: 27 Copynumber: 15.6 Consensus size: 27
4698744 ATTTGGTTAA
* *
4698754 TTACATAACTTACAGAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATATC
*
4698781 TTACATAACTTACATAAATTAAGTAATTC
1 TTACATAACTTACATAAATTAAAT-A-TC
**
4698810 TT-GGTAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATATC
*
4698836 TTGCATAACTTACATAAATTAAGTTAATTAAATAAC
1 TTACATAACTTACATAAATT-A---AA-T--AT--C
* *
4698872 TTACATAAATTA-AGTAAATTAAATAAC
1 TTACATAACTTACA-TAAATTAAATATC
*
4698899 TTACATAACTTACATAAATTAAGTAAT-
1 TTACATAACTTACATAAATTAAAT-ATC
4698926 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATATC
*
4698953 TTGCATAACTTACATAAATTAAGTTAATTAAATAAC
1 TTACATAACTTACATAAATT-A---AA-T--AT--C
* * *
4698989 TTACATAAATTA-AGTTAATTAAATAAC
1 TTACATAACTTACA-TAAATTAAATATC
* **
4699016 TTACATAACTTACATAAATTAAGTAAT
1 TTACATAACTTACATAAATTAAATATC
4699043 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATATC
*
4699070 TTGCATAACTTACATAAATTAAGTTAATTAAATAAC
1 TTACATAACTTACATAAATT-A---AA-T--AT--C
*
4699106 TTACATAAATTA-AGTAAATTAAATATC
1 TTACATAACTTACA-TAAATTAAATATC
* *
4699133 TTGCATAATTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATATC
4699160 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATATC
*
4699187 TTACATTACTTACATA
1 TTACATAACTTACATA
4699203 GCTTACATTA
Statistics
Matches: 349, Mismatches: 35, Indels: 76
0.76 0.08 0.17
Matches are distributed among these distances:
26 6 0.02
27 230 0.66
28 26 0.07
29 7 0.02
31 9 0.03
32 9 0.03
34 6 0.02
35 6 0.02
36 50 0.14
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATATC
Found at i:4699237 original size:7 final size:7
Alignment explanation
Indices: 4699225--4699278 Score: 63
Period size: 7 Copynumber: 7.1 Consensus size: 7
4699215 TACATGGGGC
4699225 ATACATA
1 ATACATA
4699232 ATACATA
1 ATACATA
4699239 ATACATA
1 ATACATA
*
4699246 ATACAGA
1 ATACATA
4699253 ACTTACATA
1 A--TACATA
4699262 ACTTACATA
1 A--TACATA
4699271 ATACATA
1 ATACATA
4699278 A
1 A
4699279 AAATATATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 28 0.65
9 15 0.35
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:4704804 original size:21 final size:20
Alignment explanation
Indices: 4704779--4704847 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
4704769 CAGCAATTTA
*
4704779 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
*
4704800 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
* *
4704821 AAGCAAAGGCCGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
4704842 AAGCAG
1 AAGCAG
4704848 CGAGAGAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:4704849 original size:12 final size:12
Alignment explanation
Indices: 4704832--4704871 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
4704822 AGCAAAGGCC
4704832 GCAGCGAGAGAA
1 GCAGCGAGAGAA
4704844 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
4704856 GCAGCAATAGAA
1 GCAGCGAGAGAA
4704868 GCAG
1 GCAG
4704872 AGGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.38, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:4705431 original size:43 final size:43
Alignment explanation
Indices: 4705290--4705511 Score: 290
Period size: 43 Copynumber: 5.2 Consensus size: 43
4705280 GTTTGTGAAA
***
4705290 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTTC
* *
4705333 -AAGCGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTGTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
* * *
4705374 TAAGCGCCGCTAAAGAACATGATATTTAGGGGTGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
*
4705417 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
* *
4705460 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TC
4705504 TAAGCGCC
1 TAAGCGCC
4705512 ACAAAAGTTA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
41 5 0.03
42 58 0.36
43 88 0.55
44 8 0.05
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
Found at i:4705621 original size:22 final size:22
Alignment explanation
Indices: 4705590--4705632 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4705580 TAGTGGCGTT
* *
4705590 AAAAAGCGCCACTAAAGACCTA
1 AAAAAACGCCACTAAAAACCTA
*
4705612 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCACTAAAAACCT
4705633 GTTCTACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.28, G:0.12, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCACTAAAAACCTA
Found at i:4709157 original size:18 final size:18
Alignment explanation
Indices: 4709113--4709157 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4709103 GCAATAAGAA
*
4709113 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAAGTGAAT
* * *
4709131 AACGATTTGTAAGTGAAT
1 AATGTTTTGAAAGTGAAT
4709149 AATGTTTTG
1 AATGTTTTG
4709158 GAAACGAACG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (18 bp):
AATGTTTTGAAAGTGAAT
Found at i:4711077 original size:25 final size:26
Alignment explanation
Indices: 4711023--4711077 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
4711013 TACTGGATTT
*
4711023 TGTTTAATGATGCTTTATTTGATACA
1 TGTTTAATGATGCTTTATTAGATACA
*
4711049 -GTTTAATG-TGCTTT-TTAGATCATA
1 TGTTTAATGATGCTTTATTAGAT-ACA
4711073 TGTTT
1 TGTTT
4711078 CAGATGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 12 0.48
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (26 bp):
TGTTTAATGATGCTTTATTAGATACA
Found at i:4712200 original size:23 final size:22
Alignment explanation
Indices: 4712174--4712292 Score: 132
Period size: 23 Copynumber: 5.2 Consensus size: 22
4712164 TTAATAGAGA
4712174 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTAAA-TGCTGCAAATTGAAG
4712197 TGTTAAAATG-TAGCAAATTGAAG
1 TGTT-AAATGCT-GCAAATTGAAG
* **
4712220 TATTTAAATGCTGTGAATTGAAG
1 T-GTTAAATGCTGCAAATTGAAG
4712243 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTAAA-TGCTGCAAATTGAAG
* *
4712266 TGTTTAAATGTTGTAAATTGAAG
1 TG-TTAAATGCTGCAAATTGAAG
4712289 TGTT
1 TGTT
4712293 TTAAGTACTG
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
22 8 0.10
23 63 0.77
24 11 0.13
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (22 bp):
TGTTAAATGCTGCAAATTGAAG
Found at i:4712232 original size:46 final size:46
Alignment explanation
Indices: 4712176--4712292 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 46
4712166 AATAGAGATG
*
4712176 TTAAAGTGCTGCAAATTGAAGTGTTAAAATG-TAGCAAATTGAAGTAT
1 TTAAA-TGCTGTAAATTGAAGTGTTAAAATGCT-GCAAATTGAAGTAT
* * *
4712223 TTAAATGCTGTGAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAAATGCTGCAAATTGAAGTAT
*
4712269 TTAAATGTTGTAAATTGAAGTGTT
1 TTAAATGCTGTAAATTGAAGTGTT
4712293 TTAAGTACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 57 0.90
47 6 0.10
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (46 bp):
TTAAATGCTGTAAATTGAAGTGTTAAAATGCTGCAAATTGAAGTAT
Found at i:4712293 original size:23 final size:23
Alignment explanation
Indices: 4712188--4712427 Score: 183
Period size: 23 Copynumber: 10.7 Consensus size: 23
4712178 AAAGTGCTGC
* * *
4712188 AAATTGAAGTGTTAAAATGTAGC
1 AAATTGAAGTGTTTAAATGTTGT
* *
4712211 AAATTGAAGTATTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4712234 GAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
4712257 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4712280 AAATTGAAGTGTTTTAA----GT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4712299 --ACTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
4712320 TAATTG-GGATG-TTAAAGTGTTGT
1 AAATTGAAG-TGTTTAAA-TGTTGT
* * *
4712343 AAGTTGAGGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4712366 AAATTGAAGTGTTTAATTGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * * *
4712389 AAATTGAGGTGCTGAAATGATGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4712412 AAATCGAAGTGTTTAA
1 AAATTGAAGTGTTTAA
4712428 GTGCTGCAAA
Statistics
Matches: 171, Mismatches: 34, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
17 11 0.06
19 2 0.01
21 2 0.01
22 11 0.06
23 133 0.78
24 12 0.07
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGTTGT
Found at i:4712394 original size:155 final size:155
Alignment explanation
Indices: 4712146--4712427 Score: 370
Period size: 155 Copynumber: 1.8 Consensus size: 155
4712136 TTGCTGTAAT
4712146 TGAGGTGCATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAATGTAGC
1 TGAGGTGCATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAATGTAGC
* * * *
4712211 AAATTGAAGTATTTAAATGCTGTGAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAAT
66 AAATTGAAGTATTTAAATGCTGTAAATTGAAGTGCTGAAA-TGATGCAAATCGAAGTGTTTAAAT
4712275 GTTGTAAATTGAAGTGTTTTAAGTAC
130 GTTGTAAATTGAAGTGTTTTAAGTAC
* * * * * * * *
4712301 TGAGGTGTATAAATGTTGTTAATTGGGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCT-G
1 TGAGGTGCATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAATG-TAG
* * * * * *
4712365 TAAATTGAAGTGTTTAATTGTTGTAAATTGAGGTGCTGAAATGATGTAAATCGAAGTGTTTAA
65 CAAATTGAAGTATTTAAATGCTGTAAATTGAAGTGCTGAAATGATGCAAATCGAAGTGTTTAA
4712428 GTGCTGCAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
155 102 0.95
156 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (155 bp):
TGAGGTGCATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAATGTAGC
AAATTGAAGTATTTAAATGCTGTAAATTGAAGTGCTGAAATGATGCAAATCGAAGTGTTTAAATG
TTGTAAATTGAAGTGTTTTAAGTAC
Found at i:4712991 original size:14 final size:14
Alignment explanation
Indices: 4712972--4713001 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4712962 CAAAAACACA
4712972 TTCTTTTCTTTTCT
1 TTCTTTTCTTTTCT
*
4712986 TTCTTTTTTTTTCT
1 TTCTTTTCTTTTCT
4713000 TT
1 TT
4713002 TTTGGGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTCTTTTCT
Found at i:4713961 original size:28 final size:28
Alignment explanation
Indices: 4713929--4714003 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
4713919 AGTAGCAGTT
*
4713929 TGGGCCAAAGCCCTATACAGCAACAGCG
1 TGGGCCAAAGCCCAATACAGCAACAGCG
** * *
4713957 TGGGCCTTAGCCCAATACAGTAACAGTG
1 TGGGCCAAAGCCCAATACAGCAACAGCG
* **
4713985 TGGCCCTTAGCCCAATACA
1 TGGGCCAAAGCCCAATACA
4714004 ATAACAGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (28 bp):
TGGGCCAAAGCCCAATACAGCAACAGCG
Found at i:4714008 original size:28 final size:28
Alignment explanation
Indices: 4713950--4714011 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
4713940 CCTATACAGC
* * *
4713950 AACAGCGTGGGCCTTAGCCCAATACAGT
1 AACAGTGTGGCCCTTAGCCCAATACAAT
4713978 AACAGTGTGGCCCTTAGCCCAATACAAT
1 AACAGTGTGGCCCTTAGCCCAATACAAT
4714006 AACAGT
1 AACAGT
4714012 ATAATGCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (28 bp):
AACAGTGTGGCCCTTAGCCCAATACAAT
Found at i:4714148 original size:26 final size:26
Alignment explanation
Indices: 4714117--4714193 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
4714107 ACACCAATAT
* *
4714117 CGCAGCAAAGCTGCCAATAATAGTGA
1 CGCAGCAAAGCTGCCAATAACAGTAA
* * *
4714143 TGCAGCAAAGCTACCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAATAACAGTAA
* *
4714169 CGCAGCAAAGTTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAATAACAGTA
4714194 TATGTGGCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAATAACAGTAA
Found at i:4714397 original size:27 final size:27
Alignment explanation
Indices: 4714367--4714623 Score: 277
Period size: 27 Copynumber: 9.5 Consensus size: 27
4714357 GGGTATAACA
* * *
4714367 GTCATTTTACCTTTTGGGGGTATTGCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
4714394 GTCATTTTA-CC-TTGCTAGGGTATTTCA
1 GTCATTTTACCCTTTG--AGGGTATTTCG
* ** *
4714421 GTCATTCTACCCTGCGAGGGTATTTCA
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
4714448 GTTATTTTACCTTTTG-GAGGTATTTTG
1 GTCATTTTACCCTTTGAG-GGTATTTCG
*
4714475 GTCATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
4714502 GTCATTTTACCCTTTAAGGATATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
4714529 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
4714556 GTTATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
4714583 GTCATTTTACCTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
4714610 GTTATTTTACCCTT
1 GTCATTTTACCCTT
4714624 CAAAGGTATT
Statistics
Matches: 190, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
25 3 0.02
26 2 0.01
27 181 0.95
28 3 0.02
29 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTATTTCG
Found at i:4719026 original size:21 final size:21
Alignment explanation
Indices: 4718985--4719027 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4718975 AATAAAGTAG
*
4718985 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
4719006 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
4719027 A
1 A
4719028 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:4719078 original size:38 final size:36
Alignment explanation
Indices: 4719010--4719091 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
4719000 TATAGTATTA
*
4719010 TATATTATGATTTTAGTAAATTCATATAATAATAAT
1 TATATTAAGATTTTAGTAAATTCATATAATAATAAT
*
4719046 TATATTAAGAATTTTATTAAATT-ATATTTAATAATAAT
1 TATATTAAG-ATTTTAGTAAATTCATA--TAATAATAAT
*
4719084 TATGTTAA
1 TATATTAA
4719092 AATATGGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 11 0.28
37 12 0.30
38 17 0.43
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (36 bp):
TATATTAAGATTTTAGTAAATTCATATAATAATAAT
Found at i:4719340 original size:16 final size:16
Alignment explanation
Indices: 4719319--4719358 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
4719309 TTGAATTACT
4719319 AATTACAGCTCTATTC
1 AATTACAGCTCTATTC
4719335 AATTACAGCTCTATTC
1 AATTACAGCTCTATTC
*
4719351 CATTACAG
1 AATTACAG
4719359 TGAACCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (16 bp):
AATTACAGCTCTATTC
Found at i:4724417 original size:16 final size:15
Alignment explanation
Indices: 4724382--4724418 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4724372 CAAAATCAAG
4724382 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4724397 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4724412 ATTTTTA
1 ATTTTTA
4724419 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4726131 original size:22 final size:23
Alignment explanation
Indices: 4726104--4726152 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 23
4726094 TATATTTTAT
4726104 TTCAAATGTTTCATATT-TACAC
1 TTCAAATGTTTCATATTATACAC
4726126 TTCAAATGTTTCATATTCATACAC
1 TTCAAATGTTTCATATT-ATACAC
4726150 TTC
1 TTC
4726153 TCGATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.68
24 8 0.32
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCAAATGTTTCATATTATACAC
Found at i:4728350 original size:20 final size:20
Alignment explanation
Indices: 4728313--4728351 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4728303 ATTTCTACCT
**
4728313 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAACTTAATA
*
4728333 TTTTTGTTTTTAACTTAAT
1 TTTTTATTTTTAACTTAAT
4728352 TTTGATATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTAACTTAATA
Found at i:4732234 original size:43 final size:43
Alignment explanation
Indices: 4732159--4732378 Score: 196
Period size: 43 Copynumber: 5.1 Consensus size: 43
4732149 GAACGATGCT
* * ** * *
4732159 TTTAGCGACGTTTGTGAAAAAAAAGCCGCTAAAAGTCATTCTC
1 TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
* * *
4732202 TATAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTTATGCTC
1 TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
* ** * * *
4732245 TTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTC
1 TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
* *
4732288 TTTA-ACGACGTTTGTGATAAAAGCGCCACTAATGGTCAAGT-TC
1 TTTAGA-GACGTTTGTGATAAAAGCGCCACTAAAGGTC-ATTCTC
* **
4732331 TTTAGCAG-TGTTTGTGATAAAAGCGCCGTTAAAGGTCATGT-TC
1 TTTAG-AGACGTTTGTGATAAAAGCGCCACTAAAGGTCAT-TCTC
4732374 TTTAG
1 TTTAG
4732379 CTGCTTAAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 139 0.97
44 3 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
Found at i:4732353 original size:86 final size:86
Alignment explanation
Indices: 4732168--4732378 Score: 280
Period size: 86 Copynumber: 2.5 Consensus size: 86
4732158 TTTTAGCGAC
* ** * * *
4732168 GTTTGTGAAAAAAAAGCCGCTAAAAGTCATTCTCTATAGAGACGTTTGTGATAAAAGCGCCACTA
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATTTTCTTTAGAGACGTTTGTGATAAAAGCGCCACTA
* * *
4732233 AAGGTTATGCTCTTTAGCGGT
66 AAGGTCAAGCTCTTTAGCAGT
*
4732254 GTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTCTTTA-ACGACGTTTGTGATAAAAGCGCCACT
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATTTTCTTTAGA-GACGTTTGTGATAAAAGCGCCACT
* *
4732318 AATGGTCAAGTTCTTTAGCAGT
65 AAAGGTCAAGCTCTTTAGCAGT
* *
4732340 GTTTGTGATAAAAGCGCCGTTAAAGGTCATGTTCTTTAG
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATTTTCTTTAG
4732379 CTGCTTAAAA
Statistics
Matches: 108, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 107 0.99
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (86 bp):
GTTTGTGATAAAAGCGCCGCTAAAGGTCATTTTCTTTAGAGACGTTTGTGATAAAAGCGCCACTA
AAGGTCAAGCTCTTTAGCAGT
Found at i:4732379 original size:43 final size:42
Alignment explanation
Indices: 4732211--4732379 Score: 212
Period size: 43 Copynumber: 4.0 Consensus size: 42
4732201 CTATAGAGAC
* *
4732211 GTTTGTGATAAAAGCGCCACTAAAGGTTATGCTCTTTAGCGGT
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGC-GT
* * * * *
4732254 GTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTCTTTAACGAC
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG-T
* *
4732297 GTTTGTGATAAAAGCGCCACTAATGGTCAAGTTCTTTAGCAGT
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGC-GT
**
4732340 GTTTGTGATAAAAGCGCCGTTAAAGGTCATGTTCTTTAGC
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGC
4732380 TGCTTAAAAG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 106 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (42 bp):
GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGT
Found at i:4735594 original size:20 final size:20
Alignment explanation
Indices: 4735569--4735607 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4735559 TGCATGTCGT
4735569 TAATTATTTATCCTTTGTGC
1 TAATTATTTATCCTTTGTGC
4735589 TAATTATTTATCCTTTGTG
1 TAATTATTTATCCTTTGTG
4735608 TTGTCAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (20 bp):
TAATTATTTATCCTTTGTGC
Found at i:4736249 original size:13 final size:12
Alignment explanation
Indices: 4736226--4736288 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
4736216 AATAATTTTA
4736226 TATTAAAATTAT
1 TATTAAAATTAT
4736238 TATT-AAA-TAT
1 TATTAAAATTAT
4736248 TATTAATAATTA-
1 TATTAA-AATTAT
*
4736260 TATTAAGAA-TGT
1 TATTAA-AATTAT
4736272 TATT-AAATTAT
1 TATTAAAATTAT
4736283 ATATTA
1 -TATTA
4736289 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:4736253 original size:22 final size:23
Alignment explanation
Indices: 4736226--4736288 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
4736216 AATAATTTTA
4736226 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
4736248 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
4736272 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
4736289 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:4736367 original size:61 final size:57
Alignment explanation
Indices: 4736251--4736387 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 57
4736241 TAAATATTAT
* * * *
4736251 TAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
* *
4736309 TAATAATTATGTTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTAA
1 TAATAATTATATTAAAATATGATTAAATTA--TA-TATTA-TTTTATTAAAATATATTTAA
* *
4736370 CAATAATCATATTAAAAT
1 TAATAATTATATTAAAAT
4736388 TTAATAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 13 0.20
58 14 0.21
59 2 0.03
60 4 0.06
61 33 0.50
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (57 bp):
TAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
Found at i:4736400 original size:25 final size:26
Alignment explanation
Indices: 4736353--4736404 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
4736343 TTTTTATTTT
*
4736353 TATTAAAATATATTTAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
*
4736379 TATTAAAATTTA-ATAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
4736404 T
1 T
4736405 CTACCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTAAAATATATATAACAATAATCA
Found at i:4736570 original size:16 final size:16
Alignment explanation
Indices: 4736549--4736618 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
4736539 TGAATTACTG
*
4736549 ATTACAACTATATTCC
1 ATTACAACTCTATTCC
**
4736565 ATTACAACTCTATTTT
1 ATTACAACTCTATTCC
* * * *
4736581 TTTACAGCTGTATTCA
1 ATTACAACTCTATTCC
4736597 ATTACAA-TCCTATTCC
1 ATTACAACT-CTATTCC
4736613 ATTACA
1 ATTACA
4736619 GTGAACCAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
15 1 0.02
16 40 0.98
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:4739966 original size:15 final size:15
Alignment explanation
Indices: 4739943--4739972 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4739933 AAATAATAGT
4739943 TATAATGTTTTTATC
1 TATAATGTTTTTATC
*
4739958 TATATTGTTTTTATC
1 TATAATGTTTTTATC
4739973 CCTCAACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TATAATGTTTTTATC
Found at i:4743561 original size:14 final size:15
Alignment explanation
Indices: 4743544--4743576 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4743534 AAATTTTAAG
4743544 AAAAAAATAAAA-AT
1 AAAAAAATAAAACAT
*
4743558 AAAAATATAAAACAT
1 AAAAAAATAAAACAT
4743573 AAAA
1 AAAA
4743577 CTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAACAT
Found at i:4746943 original size:21 final size:22
Alignment explanation
Indices: 4746897--4746943 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4746887 GAAAAATAAA
* *
4746897 AAAAATCGAATACAAACAGTCG
1 AAAAATCGAAAACAAACAGTAG
*
4746919 -AAAATCGAAAACAAAGAG-AG
1 AAAAATCGAAAACAAACAGTAG
4746939 AAAAA
1 AAAAA
4746944 AAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAATCGAAAACAAACAGTAG
Found at i:4750106 original size:13 final size:13
Alignment explanation
Indices: 4750083--4750116 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4750073 AATTCTGATG
*
4750083 TCAACTTTCTTCT
1 TCAATTTTCTTCT
*
4750096 TCACTTTTCTTCT
1 TCAATTTTCTTCT
4750109 TCAATTTT
1 TCAATTTT
4750117 TTGCGTCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (13 bp):
TCAATTTTCTTCT
Found at i:4754791 original size:23 final size:23
Alignment explanation
Indices: 4754574--4754936 Score: 214
Period size: 23 Copynumber: 16.1 Consensus size: 23
4754564 CTATTTAAGT
* *
4754574 ATTGAAGTGTTT-AGTAGTTGGAA
1 ATTGAAGTGTTTAAAT-GTTGTAA
* * *
4754597 ATTG-AGATGTTTTATTGCTGT-A
1 ATTGAAG-TGTTTAAATGTTGTAA
* * *
4754619 ATTGAGGTGTATAAATGTTGTTA
1 ATTGAAGTGTTTAAATGTTGTAA
* * *
4754642 ATAG-AGATG-TTAAAGTGCTGCAA
1 ATTGAAG-TGTTTAAA-TGTTGTAA
*
4754665 ATTGAAGTGTTTAAATGATGTAA
1 ATTGAAGTGTTTAAATGTTGTAA
* * *
4754688 ATTAAAGTGTTAAAATGTTGCAA
1 ATTGAAGTGTTTAAATGTTGTAA
* * *
4754711 ATTGAAGTATTTAAATGCTGTGA
1 ATTGAAGTGTTTAAATGTTGTAA
* *
4754734 ATTGAAGTG-TTAAAGTGCTGCAA
1 ATTGAAGTGTTTAAA-TGTTGTAA
4754757 ATTGAAGTGTTTAAATGTTGTAA
1 ATTGAAGTGTTTAAATGTTGTAA
*
4754780 ATTGAAGTGTTTTAA----GT--
1 ATTGAAGTGTTTAAATGTTGTAA
* * * *
4754797 ACTGAGGTGTATAAATGTTGTTA
1 ATTGAAGTGTTTAAATGTTGTAA
* *
4754820 ATTG-GGATG-TTAAAGTGTTGTGA
1 ATTGAAG-TGTTTAAA-TGTTGTAA
* * *
4754843 GTTGAGGTGTTTAAATGCTGTAA
1 ATTGAAGTGTTTAAATGTTGTAA
* *
4754866 ATTGAAGTATTTAATTGTTGTAA
1 ATTGAAGTGTTTAAATGTTGTAA
* * * *
4754889 ATTGAGGTGCTAAAATGATGTAA
1 ATTGAAGTGTTTAAATGTTGTAA
* * *
4754912 ATCGAAGTGTTTAAGTGTTGCAA
1 ATTGAAGTGTTTAAATGTTGTAA
4754935 AT
1 AT
4754937 AATATATGAT
Statistics
Matches: 259, Mismatches: 61, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
17 11 0.04
19 2 0.01
21 2 0.01
22 33 0.13
23 190 0.73
24 21 0.08
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (23 bp):
ATTGAAGTGTTTAAATGTTGTAA
Found at i:4756481 original size:28 final size:28
Alignment explanation
Indices: 4756422--4756506 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
4756412 AGTAGCAGTT
* * ** *
4756422 TGGGCCTAAGCCCTATACAGCAACAGTA
1 TGGGCCTTAGCCCAATACAATAATAGTA
*
4756450 TGGGCCTTAGCCCAATACAATAATAGTG
1 TGGGCCTTAGCCCAATACAATAATAGTA
*
4756478 TGGGCCATAGCCCAATACAATAATAGTA
1 TGGGCCTTAGCCCAATACAATAATAGTA
4756506 T
1 T
4756507 AATGCAGTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAATAGTA
Found at i:4756640 original size:26 final size:26
Alignment explanation
Indices: 4756611--4756707 Score: 149
Period size: 26 Copynumber: 3.7 Consensus size: 26
4756601 CACCAATATC
4756611 GCAGCAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
*
4756637 GCAGTAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
*
4756663 GCAGCAAAGCTGCCAGTAATAGTGAC
1 GCAGCAAAGCTGCCAGTAATAGTGAT
* * *
4756689 GCAGTAAAGTTACCAGTAA
1 GCAGCAAAGCTGCCAGTAA
4756708 AAGTATATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTGAT
Found at i:4756934 original size:27 final size:26
Alignment explanation
Indices: 4756887--4757165 Score: 245
Period size: 27 Copynumber: 10.3 Consensus size: 26
4756877 GGGTATAGCA
* *
4756887 GTCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4756914 GTCATTTTACCTTGCCAGGGTATTTCA
1 GTCATTTTACCTT-CGAGGGTATTTCG
* * * **
4756941 GTAATTCTACCCTGCGAGGGTATTTTA
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4756968 GTTATTTTACCAGTT-GAGGGTATTTTG
1 GTCATTTTACC--TTCGAGGGTATTTCG
** *
4756995 GTCATTTTACCCTTTAAGGGTATTTCA
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* * *
4757022 GTCATTTTACCTTTTGAGGATATTTCA
1 GTCATTTTACC-TTCGAGGGTATTTCG
4757049 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
*
4757076 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* * *
4757103 ATCATTTTACCTTTTGAGGATATTTCG
1 GTCATTTTACC-TTCGAGGGTATTTCG
4757130 GTCATTTTATCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4757157 ATTATTTTA
1 GTCATTTTA
4757166 GGCCCATTAC
Statistics
Matches: 210, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
26 12 0.06
27 188 0.90
28 10 0.05
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCTTCGAGGGTATTTCG
Found at i:4756962 original size:54 final size:53
Alignment explanation
Indices: 4756876--4757155 Score: 285
Period size: 54 Copynumber: 5.2 Consensus size: 53
4756866 TCAACTCCTA
** * * *
4756876 AGGGTATAGCAGTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTGCC
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTT-CG
* * * ** *
4756930 AGGGTATTTCAGTAATTCTACCCTGCGAGGGTATTTTAGTTATTTTACCAGTT-G
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC--TTCG
** ** * *
4756984 AGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCTTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC-TTCG
* *
4757038 AGGATATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTCG
* * *
4757092 AGGGTATTTC-GATCATTTTACCTTTTGAGGATATTTCGGTCATTTTATCCTTCG
1 AGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTCG
4757146 AGGGTATTTC
1 AGGGTATTTC
4757156 GATTATTTTA
Statistics
Matches: 186, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.02
54 179 0.96
55 2 0.01
56 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTTCG
Found at i:4757015 original size:81 final size:80
Alignment explanation
Indices: 4756885--4757165 Score: 278
Period size: 81 Copynumber: 3.5 Consensus size: 80
4756875 AAGGGTATAG
* *
4756885 CAGTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTA-CCTTGCCAGGGTATTTCAGTAATTCT
1 CAGTCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACCCTT-CAAGGGTATTTCAGTAATTCT
*
4756949 ACCCTGCGAGGGTATTT
64 ACCCTGCGAGGATATTT
* * * * * * *
4756966 TAGTTATTTTACCAGTTGAGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACC-CTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTAATTCTA
* **
4757031 CCTTTTGAGGATATTT
65 CCCTGCGAGGATATTT
* * * *
4757047 CAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTC-GATCATTTT
1 CAGTCATTTTACCCTT-GAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAG-TAATTCT
* **
4757111 ACCTTTTGAGGATATTT
64 ACCCTGCGAGGATATTT
* * * *
4757128 CGGTCATTTTATCCTTCGAGGGTATTTCGATTATTTTA
1 CAGTCATTTTACCCTT-GAGGGTATTTCGGTCATTTTA
4757166 GGCCCATTAC
Statistics
Matches: 173, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.02
81 166 0.96
82 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (80 bp):
CAGTCATTTTACCCTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTAATTCTAC
CCTGCGAGGATATTT
Found at i:4760559 original size:12 final size:12
Alignment explanation
Indices: 4760542--4760566 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4760532 CAGAAAAATA
4760542 CCCCAAATAAAG
1 CCCCAAATAAAG
4760554 CCCCAAATAAAG
1 CCCCAAATAAAG
4760566 C
1 C
4760567 TTTAAAAAAT
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:0.48, C:0.36, G:0.08, T:0.08
Consensus pattern (12 bp):
CCCCAAATAAAG
Found at i:4763151 original size:16 final size:15
Alignment explanation
Indices: 4763116--4763151 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4763106 CAAAATCAAG
4763116 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4763131 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4763146 ATTTTT
1 ATTTTT
4763152 CTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4765299 original size:19 final size:19
Alignment explanation
Indices: 4765277--4765314 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4765267 AAAAAGAAAG
4765277 AAAAAAAATATAATATCTT
1 AAAAAAAATATAATATCTT
4765296 AAAAAAAATATAATATCTT
1 AAAAAAAATATAATATCTT
4765315 CTTTTGTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAAAATATAATATCTT
Found at i:4769733 original size:15 final size:15
Alignment explanation
Indices: 4769708--4769742 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4769698 GACTCTATTT
*
4769708 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
4769722 TAATTAATATTAAGA
1 TAATTAATATTAAGA
4769737 TAATTA
1 TAATTA
4769743 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:4774755 original size:18 final size:19
Alignment explanation
Indices: 4774715--4774756 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4774705 CATACTTATA
4774715 CATAT-ATTCTTTATATTC
1 CATATAATTCTTTATATTC
* *
4774733 TATATAATTTTTTAT-TTC
1 CATATAATTCTTTATATTC
4774751 CATATA
1 CATATA
4774757 TATATACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (19 bp):
CATATAATTCTTTATATTC
Found at i:4774845 original size:56 final size:55
Alignment explanation
Indices: 4774696--4774846 Score: 139
Period size: 56 Copynumber: 2.7 Consensus size: 55
4774686 TTCCCAATTT
* * *
4774696 ATATGTATACATACTTATACATATATTCTTTATATTCTATATAATTTTTTATTTCCAT
1 ATATATATACATACTTAT-CATAT-TT-TTTATATTCTATATAATTTTCTATTTCCAG
** * * *
4774754 ATATATATACATACGCACTCATATATTTT-T-GTCTATATACATCTTTCTATTTTCACG
1 ATATATATACATACTTA-TCATATTTTTTATATTCTATATA-AT-TTTCTATTTCCA-G
4774811 A-ATATATACATACTTAT-ATATTTTTTATATTCTATA
1 ATATATATACATACTTATCATATTTTTTATATTCTATA
4774847 ATTTTTATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
54 16 0.21
55 5 0.07
56 32 0.43
57 2 0.03
58 19 0.25
59 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (55 bp):
ATATATATACATACTTATCATATTTTTTATATTCTATATAATTTTCTATTTCCAG
Found at i:4777016 original size:17 final size:17
Alignment explanation
Indices: 4776994--4777028 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4776984 ATTAGGGTAA
*
4776994 TATGTAAATATCTGTTT
1 TATGTAAAGATCTGTTT
*
4777011 TATGTAAAGATTTGTTT
1 TATGTAAAGATCTGTTT
4777028 T
1 T
4777029 CTAGAAAAGT
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:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (17 bp):
TATGTAAAGATCTGTTT
Found at i:4778496 original size:8 final size:7
Alignment explanation
Indices: 4778465--4778503 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
4778455 TGGAGGCAAA
4778465 AAAAACC
1 AAAAACC
4778472 AAAAACC
1 AAAAACC
4778479 AAAAACC
1 AAAAACC
4778486 AAAAACAC
1 AAAAAC-C
4778494 AAAAA-C
1 AAAAACC
4778500 AAAA
1 AAAA
4778504 TAAAAGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 5 0.16
7 20 0.65
8 6 0.19
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:4778516 original size:8 final size:8
Alignment explanation
Indices: 4778463--4778536 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
4778453 AGTGGAGGCA
4778463 AAAAAAAC
1 AAAAAAAC
*
4778471 -CAAAAAC
1 AAAAAAAC
* *
4778478 CAAAAACC
1 AAAAAAAC
*
4778486 AAAAACAC
1 AAAAAAAC
*
4778494 AAAAACAAA
1 AAAAA-AAC
4778503 ATAAAAGAAC
1 A-AAAA-AAC
*
4778513 AAAATAGAC
1 AAAA-AAAC
4778522 AAAAAAAC
1 AAAAAAAC
4778530 AAAAAAA
1 AAAAAAA
4778537 AACCTCTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
7 6 0.12
8 25 0.50
9 11 0.22
10 8 0.16
ACGTcount: A:0.78, C:0.16, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4778535 original size:7 final size:7
Alignment explanation
Indices: 4778464--4778535 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
4778454 GTGGAGGCAA
4778464 AAAAAAC
1 AAAAAAC
*
4778471 CAAAAAC
1 AAAAAAC
*
4778478 CAAAAAC
1 AAAAAAC
*
4778485 CAAAAAC
1 AAAAAAC
4778492 ACAAAAAC
1 A-AAAAAC
*
4778500 AAAATA-
1 AAAAAAC
*
4778506 AAAGAAC
1 AAAAAAC
4778513 AAAATAGAC
1 AAAA-A-AC
4778522 AAAAAAAC
1 -AAAAAAC
4778530 AAAAAA
1 AAAAAA
4778536 AAACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 4 0.07
7 33 0.61
8 10 0.19
9 3 0.06
10 4 0.07
ACGTcount: A:0.78, C:0.17, G:0.03, T:0.03
Consensus pattern (7 bp):
AAAAAAC
Found at i:4779006 original size:7 final size:7
Alignment explanation
Indices: 4778994--4779033 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
4778984 CACAAAAAGG
4778994 AAAGAAA
1 AAAGAAA
4779001 AAAGAAA
1 AAAGAAA
4779008 AGAAGAAA
1 A-AAGAAA
*
4779016 AATG-AA
1 AAAGAAA
4779022 AAAGAAA
1 AAAGAAA
4779029 AAAGA
1 AAAGA
4779034 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:4779015 original size:15 final size:14
Alignment explanation
Indices: 4778994--4779033 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4778984 CACAAAAAGG
4778994 AAAGAAAAAAGAAA
1 AAAGAAAAAAGAAA
*
4779008 AGAAGAAAAATG-AA
1 A-AAGAAAAAAGAAA
4779022 AAAGAAAAAAGA
1 AAAGAAAAAAGA
4779034 GAGGCCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.41
14 4 0.18
15 9 0.41
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAAGAAA
Found at i:4780130 original size:44 final size:43
Alignment explanation
Indices: 4780060--4780842 Score: 439
Period size: 44 Copynumber: 17.9 Consensus size: 43
4780050 TTAAAGCAGA
* * *
4780060 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATTACAAG
1 TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGA-TACAAG
* * * *
4780104 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATACAAG
* * *
4780147 TCCTGTCTTCCTATATTGGTAGGAAGTAGATCGAGGAAAGC-AG
1 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA-CAAG
* * * ** *
4780190 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGGTAGG
1 -TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-ACAAG
* * * *
4780235 TCCTGTCTTCCTATATTGGTAGGAAGTGGATTGAAGATGC-AG
1 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATACAAG
* * * *
4780277 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC-AG
1 -TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA-CAAG
* * * ***
4780322 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGGTAG
1 -TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATACAAG
* * * *
4780366 ATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGG
1 -TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATACAAG
* * * * *
4780410 TCATGTCTTCCTATATTGGTAGGAAGTAGATCAAAGAAAGAAAA
1 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA-CAAG
* * * ** *
4780454 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGTTGATAGCAGG
1 TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA-CAAG
* * * *
4780498 TCCTGTCTTCTTATATTGGTAGGAAGTGGATCGAAAATAC-AG
1 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATACAAG
* * * * *
4780540 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC-AG
1 -TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA-CAAG
* * * ** *
4780585 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGGTAGG
1 -TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-ACAAG
* * *
4780630 TCCTT-TCTTCTTATATTGGTAGGAAGT-GTATCGAATATGC-AG
1 T-CTTGTCTTCCTATATTGGTAGGAAGTAG-ATCGAAGATACAAG
* * * * *
4780672 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGC-AG
1 -TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA-CAAG
* * *
4780717 ATCTTGTCTTCATGTATTGGCGTA--AAGTAGATCGAAGATAGCAGG
1 -TCTTGTCTTCCTATATT-G-GTAGGAAGTAGATCGAAGATA-CAAG
* * * *
4780762 CCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCATA-
1 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATACA-AG
* * * * *
4780805 TATTGTCTTCCCATACTGGTGGCGAAGTGGATCGAAGA
1 TCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGA
4780843 AAACAGATCT
Statistics
Matches: 569, Mismatches: 135, Indels: 70
0.74 0.17 0.09
Matches are distributed among these distances:
42 9 0.02
43 148 0.26
44 342 0.60
45 67 0.12
46 1 0.00
47 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATACAAG
Found at i:4780359 original size:132 final size:131
Alignment explanation
Indices: 4780052--4780853 Score: 1199
Period size: 132 Copynumber: 6.1 Consensus size: 131
4780042 TGAAGACATT
** *
4780052 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAAGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
* * * * * * *
4780117 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTAGATCGAG
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGGAAGTAGATCAAA
4780182 G
131 G
*
4780183 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
* *
4780248 TATTGGTAGGAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG-GAAGTAGATCAA
4780313 AG
130 AG
* *
4780315 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
* * * * *
4780380 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCAAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGGAAGTAGATCAAA
4780445 G
131 G
* * ** * *
4780446 AAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
* *
4780511 TATTGGTAGGAAGTGGATCGAAAATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG-GAAGTAGATCAA
4780576 AG
130 AG
* * *
4780578 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTTTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
* *
4780643 TATTGGTAGGAAGTGTATCGAATATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG-GAAGTAGATCAA
4780708 AG
130 AG
* * *
4780710 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGCCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
* * * *
4780775 TATTGGTAGGAAGTGGATCGAAGATGCATATATTGTCTTCCCATACTGGTGGCGAAGTGGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG-GAAGTAGATCAA
4780840 AG
130 AG
*
4780842 AAAACAGATCTT
1 AAAGCAGATCTT
4780854 ATCTCTCTGA
Statistics
Matches: 611, Mismatches: 58, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
131 222 0.36
132 389 0.64
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (131 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGCAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGGAAGTAGATCAAA
G
Found at i:4780519 original size:263 final size:263
Alignment explanation
Indices: 4780052--4780853 Score: 1275
Period size: 263 Copynumber: 3.0 Consensus size: 263
4780042 TGAAGACATT
*
4780052 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT--TACAAGTCCTGTCTTCC
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTA-GA-TCCTGTCTTCC
* *
4780115 TATATTGGTAGGAAGTGGATCGAAGATGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTAGATCG
64 TATATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCA
* * *
4780180 AGGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTC
129 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
*
4780245 CTATATTGGTAGGAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAT
194 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAT
4780310 CGAAG
259 CGAAG
4780315 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
4780380 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCAAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCAAA
* * ** *
4780445 GAAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTT
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCT
* * *
4780510 ATATTGGTAGGAAGTGGATCGAAAATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCA
196 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
4780575 AAG
261 AAG
* * *
4780578 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTTTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
* * * * * * *
4780643 TATTGGTAGGAAGTGTATCGAATATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAG-GAAGTAGATCAA
* *
4780708 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGCCCTGTCTTCC
130 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCC
* * * *
4780773 TATATTGGTAGGAAGTGGATCGAAGATGCATATATTGTCTTCCCATACTGGTGGCGAAGTGGATC
195 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
4780838 GAAG
260 GAAG
*
4780842 AAAACAGATCTT
1 AAAGCAGATCTT
4780854 ATCTCTCTGA
Statistics
Matches: 496, Mismatches: 40, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
263 350 0.71
264 144 0.29
265 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (263 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCAAA
GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCT
ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
AAG
Found at i:4781000 original size:50 final size:50
Alignment explanation
Indices: 4780939--4781198 Score: 155
Period size: 50 Copynumber: 5.2 Consensus size: 50
4780929 TATGATGGCA
* * *
4780939 AATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCAAAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
* * * ***** * * ** * *
4780989 AATCTTACTTCCCAGGCGA-TGCAGTGGGGCAGATTAAAGCTATGATGGCG
1 AATCTTACTTCCCCGAC-ATTGCAATTAAAAAGATTGAAGCCACAACGGTG
* * * *
4781039 AATCTTGCTTCCTCAACATTGCAATTAAAAAGATTGAAGCCGCAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
* ** **** * ** * * *
4781089 AATTTTACTTCCTTGGTGGTGC-AGTAGATCAGATTGAAGCTACGACGGCG
1 AATCTTACTTCCCCGACATTGCAATTA-AAAAGATTGAAGCCACAACGGTG
* * *
4781139 AATCCTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
4781189 AATCTTACTT
1 AATCTTACTT
4781199 TCCTGGTGGT
Statistics
Matches: 143, Mismatches: 63, Indels: 8
0.67 0.29 0.04
Matches are distributed among these distances:
49 4 0.03
50 135 0.94
51 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (50 bp):
AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
Found at i:4781076 original size:100 final size:99
Alignment explanation
Indices: 4780903--4781272 Score: 416
Period size: 100 Copynumber: 3.7 Consensus size: 99
4780893 TTATCTCTCT
* *
4780903 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCAAATCTTGCTTCCCCGACATTGCAATTTAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTT-CCCGACATTGCAATTAAA
**
4780968 AAGATTGAAGCCAAAACGGTGAATCTTACTTCCCA
65 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
*
4781003 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCTCAACATTGCAATTAAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCC-CGACATTGCAATTAAA
* **
4781068 AAGATTGAAGCCGCAACGGTGAATTTTACTTCCTT
65 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
* * * ** * * * * *
4781103 GGTGGTGCAGTAGATCAGATTGAAGCTACGACGGCGAATCCTACTTCCCTGACATTGCAATTAAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCC-GACATTGCAATTAAA
* *
4781168 AAGATTGAAGCCGCAACGGTGAATCTTACTTTCCT
65 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
* * * ** * * ** * * *
4781203 GGTGGTACAGTGGAACTGATTGAAGCTACAATGGCGAATCGTGCTCCCCGACATTACAATTAAAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCCGACATTGCAATTAAAA
*
4781268 GGATT
66 AGATT
4781273 AAAACTACCG
Statistics
Matches: 235, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
99 22 0.09
100 213 0.91
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (99 bp):
GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCCGACATTGCAATTAAAA
AGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
Found at i:4781592 original size:40 final size:40
Alignment explanation
Indices: 4781501--4781786 Score: 263
Period size: 40 Copynumber: 6.8 Consensus size: 40
4781491 TAAAGCCAGC
* *
4781501 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCA
* *
4781544 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
* * *
4781585 AGTCTTATCTCCCTAAGAAGTAGTGGAGCAGA-CGAAAGAAACC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCA
*
4781628 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
* ** *
4781669 AGTTTTATCTCCCTAAGCAGTAGTGGAATAG-ACGAAAGAAACCA
1 AGTCTTATCTCCCTAAGCAGTAGTGG---AGCA-G-ATCAAATCA
***
4781713 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCTTCA
1 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
4781755 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
4781787 CGAAAGAAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 35
0.77 0.09 0.13
Matches are distributed among these distances:
39 1 0.00
40 82 0.40
41 10 0.05
42 7 0.03
43 12 0.06
44 64 0.32
45 4 0.02
46 23 0.11
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
Found at i:4781610 original size:84 final size:84
Alignment explanation
Indices: 4781501--4781812 Score: 500
Period size: 84 Copynumber: 3.7 Consensus size: 84
4781491 TAAAGCCAGC
* * *
4781501 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGTAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
4781566 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
*
4781585 AGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
4781650 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
* **
4781669 AGTTTTATCTCCCTAAGCAGTAGTGGAATAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAA-C-CAGATCTTATCTCCCTAAGCA
* *
4781734 GTAGTGGAGCAGATCGCTTCA
64 GTAGTGGAGCAGATCACATCA
*
4781755 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCA-ATCCTATCTCCCT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAG-AAACCAGATCTTATCTCCCT
4781813 GAACTTGCAG
Statistics
Matches: 211, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
84 129 0.61
85 3 0.01
86 76 0.36
87 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (84 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCACATCA
Found at i:4781745 original size:170 final size:168
Alignment explanation
Indices: 4781505--4781812 Score: 501
Period size: 170 Copynumber: 1.8 Consensus size: 168
4781495 GCCAGCAGTC
* * *
4781505 TTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGTAGTAGTG
1 TTATCTCCCTAAGCAGTAGTGGAACAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
*
4781570 GAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAG-AAACCAGATCT
66 GAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAAACCA-ATCC
4781634 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
130 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
* *
4781673 TTATCTCCCTAAGCAGTAGTGGAATAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCAGTAG
1 TTATCTCCCTAAGCAGTAGTGGAACAGACAAAAGAAA-C-CAGATCTTATCTCCCTAAGCAGTAG
* * *
4781738 TGGAGCAGATCGCTTCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAATC
64 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAAACCAATC
4781803 CTATCTCCCT
129 CTATCTCCCT
4781813 GAACTTGCAG
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
168 34 0.27
169 1 0.01
170 87 0.68
171 6 0.05
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (168 bp):
TTATCTCCCTAAGCAGTAGTGGAACAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAAACCAATCCT
ATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
Found at i:4785091 original size:17 final size:17
Alignment explanation
Indices: 4785069--4785136 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 17
4785059 GGCAACCCAA
* *
4785069 TTTTTATTTTTATTTAT
1 TTTTTACTTTAATTTAT
*
4785086 TTTTTA-TTTTA-TT-T
1 TTTTTACTTTAATTTAT
*
4785100 TCTTTACTTTAATTTAT
1 TTTTTACTTTAATTTAT
*
4785117 TTATTACTTTAATTTAT
1 TTTTTACTTTAATTTAT
4785134 TTT
1 TTT
4785137 ATTTTATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 6 0.14
15 6 0.14
16 7 0.16
17 24 0.56
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTTTAATTTAT
Found at i:4785095 original size:5 final size:5
Alignment explanation
Indices: 4785070--4785144 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
4785060 GCAACCCAAT
* * * *
4785070 TTTTA TTTTTA TTTATT TTTTA TTTTA TTTT- CTTTA CTTTA ATTTA TTTATTA
1 TTTTA -TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
* *
4785123 CTTTA ATTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TT
4785145 AATTATTACT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
4 3 0.05
5 40 0.70
6 11 0.19
7 3 0.05
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:4785132 original size:22 final size:23
Alignment explanation
Indices: 4785088--4785145 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
4785078 TTATTTATTT
* *
4785088 TTTATTTTATTTTCTTTACTTTAA
1 TTTATTTTA-TTACTTTAATTTAA
*
4785112 TTTA-TTTATTACTTTAATTTAT
1 TTTATTTTATTACTTTAATTTAA
4785134 TTTATTTTATTA
1 TTTATTTTATTA
4785146 ATTATTACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.50
23 11 0.37
24 4 0.13
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTTTATTACTTTAATTTAA
Found at i:4785335 original size:22 final size:22
Alignment explanation
Indices: 4785307--4785356 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4785297 GCCCAGAATG
* *
4785307 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCC-AACCACCCTTATC
4785329 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
4785351 CCTGCA
1 CCTGCA
4785357 CCTAAGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.24, C:0.46, G:0.10, T:0.20
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:4786498 original size:101 final size:101
Alignment explanation
Indices: 4786309--4786499 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 101
4786299 AAGAACATGT
* * *
4786309 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCTCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATG
* * *
4786374 TTCTTAAGAAAAAATTATAATAAATTAGGAGTCTGC
66 TCCTAAAGAAAAAATAATAATAAATTAGGAGTCTGC
* * *
4786410 TGGGTTGAGTAACCGGAGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTC-G-ATA
* *
4786475 T-TCCTAAAGCATAAATAAT-ATAAAT
64 TGTCCTAAAGAAAAAATAATAATAAAT
4786500 AATAAATAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
101 60 0.78
102 14 0.18
103 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (101 bp):
TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATG
TCCTAAAGAAAAAATAATAATAAATTAGGAGTCTGC
Found at i:4787135 original size:15 final size:15
Alignment explanation
Indices: 4787115--4787144 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4787105 TATTTTAACT
*
4787115 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4787130 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4787145 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4788493 original size:30 final size:31
Alignment explanation
Indices: 4788457--4788517 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
4788447 CTTATTATGA
4788457 AAAGTCAAAGATAT-GAGTATC-AAATATTGG
1 AAAGTCAAAGATATAG-GTATCGAAATATTGG
4788487 AAAGTCAAAGATATAGGTATCGAAATATTGG
1 AAAGTCAAAGATATAGGTATCGAAATATTGG
4788518 CATAAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (31 bp):
AAAGTCAAAGATATAGGTATCGAAATATTGG
Found at i:4793105 original size:30 final size:31
Alignment explanation
Indices: 4793071--4793132 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
4793061 CCATATTATA
*
4793071 GAAAGTCAAAGATATGGGTATC-AAATATTG
1 GAAAGTCAAAGATATGAGTATCGAAATATTG
4793101 GAAAGTCAAAGATATGAGTATCGAAATATTG
1 GAAAGTCAAAGATATGAGTATCGAAATATTG
4793132 G
1 G
4793133 CATAAGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (31 bp):
GAAAGTCAAAGATATGAGTATCGAAATATTG
Found at i:4794568 original size:13 final size:13
Alignment explanation
Indices: 4794552--4794617 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
4794542 TTTAAACCAA
4794552 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
4794565 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * * *
4794578 ACATTTCTAGATC
1 ACTTTTCAAAAGC
*
4794591 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
4794604 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
4794617 A
1 A
4794618 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:4798464 original size:18 final size:18
Alignment explanation
Indices: 4798438--4798473 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4798428 TTCTTTAAAA
* *
4798438 ATTATAATGATATAATTT
1 ATTAAAATGATAAAATTT
4798456 ATTAAAATGATAAAATTT
1 ATTAAAATGATAAAATTT
4798474 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTAAAATGATAAAATTT
Found at i:4798803 original size:20 final size:20
Alignment explanation
Indices: 4798776--4798826 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
4798766 AAAATAAAAT
**
4798776 ATTTTTATTTATTTTGAAG-
1 ATTTTTATTTATTTACAAGA
4798795 ATGTTTTATTT-TTTACAAGA
1 AT-TTTTATTTATTTACAAGA
4798815 ATTTTTATTTAT
1 ATTTTTATTTAT
4798827 ATTTCTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (20 bp):
ATTTTTATTTATTTACAAGA
Found at i:4806311 original size:16 final size:18
Alignment explanation
Indices: 4806280--4806312 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4806270 GTTAATAGAA
4806280 TAAATTTAGTTTTAATTG
1 TAAATTTAGTTTTAATTG
4806298 TAAATTT-G-TTTAATT
1 TAAATTTAGTTTTAATT
4806313 TTTCATTTCA
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:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (18 bp):
TAAATTTAGTTTTAATTG
Found at i:4807324 original size:308 final size:299
Alignment explanation
Indices: 4806633--4807674 Score: 852
Period size: 308 Copynumber: 3.4 Consensus size: 299
4806623 GAAAATTACA
* * * * * *
4806633 GGAACGCACATCCATAATTAAAATAAAGAATATTTTTTGAGTGTATTTTAGTCTTTTCACTTTAA
1 GGAATGCACATCCGTAATTAAAAT-AATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
* * * * ** ** * *
4806698 AAATCAATAAAAAGCAAGGATATGATAGGATTCAAACCCATGCCAAGTGCATTAGTAAAATATTT
65 AAATCAATAAAAA-TATGCATATGGTA-GATTTGAACCCACACCAATTGCATTA-TAAAACATTT
* *
4806763 AATTTACCACTCAACTAAAGCTTCATTTTAATATTTTTATACATTTTAGTTTTATTATGCACATT
127 AATTTACCACTCAACTAAA-CTTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATT
* * * * *
4806828 CTATTATCTCCATTAAATGTATATTTATATCTATCTATACTATTGTTTAAACTCTTGACTGAGTT
191 TTATTACCTCCATTAAATATATATTTATATCTATCTATACTATTATTTAAACTCCTGACTGAGTT
* * * *
4806893 GGTGTCGCAAGTCAACCGAGCACGAACTAATTGGTTAGGAAATTATG
256 GATGTCACAACTCAACCGAGCACCAACTAA---GTTAGGAAATTATG
* * * *
4806940 GGAATGCACATCCTTAATTAAAATAAGTAATATTATTC-AGGGTATTTTAGTCTTTTTAATTTAA
1 GGAATGCACATCCGTAATTAAAATAA-TAATATTATTCGAGTGTATTTTAGTC-TTTTCACTTAA
* * * * *
4807004 AAAATGAATAAAAATATGTATATGGTGAGATTTGAATCTACACCAATTGCATTATAAAACCTTTA
64 AAAATCAATAAAAATATGCATATGGT-AGATTTGAACCCACACCAATTGCATTATAAAACATTTA
* *
4807069 ATTTACCACTCAACTAAACATTAATTTTAATATTTTTATAAATTTTAATTTTATTATGCAGATTT
128 ATTTACCACTCAACTAAAC-TTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTT
* * *
4807134 TATTACCTCCACTAATTATATATATATACTTGTATAT-TATTTATACTATTATTTCAGCTCCTG-
192 TATTACCT-C-C--ATTA-A-ATATATA-TT-TATATCTATCTATACTATTATTTAAACTCCTGA
* * *
4807197 CTGAGTTGATGTCAC-CCTCAACCGGGTCACCAACTCAA-TTAGGAAGTTATG
249 CTGAGTTGATGTCACAACTCAACCGAG-CACCAACT-AAGTTAGGAAATTATG
* *
4807248 GGAATGCACTTTCGTAATTAAAATGAATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
1 GGAATGCACATCCGTAATTAAAAT-AATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
* * *
4807313 AAACCAATAAAAATATACATATGGTAAAATTTGAACCCACACCAATTGCATTAATAAAACATTTA
65 AAATCAATAAAAATATGCATATGGT-AGATTTGAACCCACACCAATTGCATT-ATAAAACATTTA
* * * * * *
4807378 ATTTATC-GTGCAACTAAAGTTTA-TAT-ATATTTTTATACATTTTAATTTTATTATGCACACTT
128 ATTTACCACT-CAACTAAACTTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTT
* * * * * * *
4807440 TATTA---CC-TT---CAT-CAGTTGTA--TATCTATACTATTATTTAAATTCCTGA-TAAG-TC
192 TATTACCTCCATTAAATATATATTTATATCTATCTATACTATTATTTAAACTCCTGACTGAGTTG
* * * ** * **
4807493 AGTGCCACCA-TCAACCGGATCACCAACTCGGTTAGGAAGTTACA
257 A-TGTCACAACTCAACC-GAGCACCAACTAAGTTAGGAAATTATG
* * * * * * *
4807537 AGAATAC-CTTTCCATAACTAAACTAAGTAATATTATTTGAG-GATATTTTAGTCTTTTCACTTT
1 GGAATGCAC-ATCCGTAATTAAAATAA-TAATATTATTCGAGTG-TATTTTAGTCTTTTCAC--T
* * * * * * *
4807600 TAAAAAACCAATGAAAATATGCATATGATAGGATTTGAACCCATACTAATTGCATTAATCAAATA
61 TAAAAAATCAATAAAAATATGCATATGGTA-GATTTGAACCCACACCAATTGCATT-ATAAAACA
4807665 TTTAATTTAC
124 TTTAATTTAC
4807675 TATTTACTAT
Statistics
Matches: 607, Mismatches: 99, Indels: 74
0.78 0.13 0.09
Matches are distributed among these distances:
288 6 0.01
289 101 0.17
290 5 0.01
291 66 0.11
292 1 0.00
293 2 0.00
298 2 0.00
301 1 0.00
302 1 0.00
304 1 0.00
305 74 0.12
306 81 0.13
307 55 0.09
308 102 0.17
309 44 0.07
310 9 0.01
311 26 0.04
312 25 0.04
313 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (299 bp):
GGAATGCACATCCGTAATTAAAATAATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAAA
AATCAATAAAAATATGCATATGGTAGATTTGAACCCACACCAATTGCATTATAAAACATTTAATT
TACCACTCAACTAAACTTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTTTATT
ACCTCCATTAAATATATATTTATATCTATCTATACTATTATTTAAACTCCTGACTGAGTTGATGT
CACAACTCAACCGAGCACCAACTAAGTTAGGAAATTATG
Found at i:4816281 original size:19 final size:19
Alignment explanation
Indices: 4816259--4816295 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4816249 CTTGCATGCT
4816259 AATATACAAATAACATATA
1 AATATACAAATAACATATA
* *
4816278 AATATATACATAACATAT
1 AATATACAAATAACATAT
4816296 TAGTTAGGCA
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:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATACAAATAACATATA
Found at i:4819546 original size:16 final size:17
Alignment explanation
Indices: 4819525--4819558 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4819515 TCTTTCATTT
4819525 TTTTAAATAT-ATTTAA
1 TTTTAAATATAATTTAA
*
4819541 TTTTAAATCTAATTTAA
1 TTTTAAATATAATTTAA
4819558 T
1 T
4819559 GATTAAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATATAATTTAA
Found at i:4825220 original size:19 final size:19
Alignment explanation
Indices: 4825186--4825222 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4825176 TAAGTCCTTT
* *
4825186 TCAGATATATATAACAGAA
1 TCAGATATACAAAACAGAA
4825205 TCAGATATACAAAACAGA
1 TCAGATATACAAAACAGA
4825223 TGTACAAAAT
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:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (19 bp):
TCAGATATACAAAACAGAA
Found at i:4834263 original size:9 final size:9
Alignment explanation
Indices: 4834207--4834302 Score: 74
Period size: 9 Copynumber: 11.0 Consensus size: 9
4834197 TAAGTATAAT
4834207 TAAGTTATG
1 TAAGTTATG
*
4834216 TAACTTATG
1 TAAGTTATG
* * *
4834225 ATATGATATA
1 -TAAGTTATG
*
4834235 T-ATTTATG
1 TAAGTTATG
4834243 T-A-TTATG
1 TAAGTTATG
*
4834250 CAAGTTATG
1 TAAGTTATG
4834259 TAAGTTATG
1 TAAGTTATG
4834268 TAAGTTATG
1 TAAGTTATG
*
4834277 TGAG-TATG
1 TAAGTTATG
* *
4834285 CAAATTATG
1 TAAGTTATG
4834294 TAAGTTATG
1 TAAGTTATG
4834303 ATATATATTT
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
7 5 0.08
8 11 0.17
9 45 0.68
10 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4835472 original size:17 final size:17
Alignment explanation
Indices: 4835422--4835476 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 17
4835412 AAAATTGGAG
4835422 CAAAAAAGAACTTGCAA
1 CAAAAAAGAACTTGCAA
4835439 CAACATTAACCAGAACTTGCAA
1 CAA-A--AA--AGAACTTGCAA
4835461 CAAAAAAGAACTTGCA
1 CAAAAAAGAACTTGCA
4835477 GCGACATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 13 0.39
18 1 0.03
19 2 0.06
20 2 0.06
21 1 0.03
22 14 0.42
ACGTcount: A:0.53, C:0.22, G:0.11, T:0.15
Consensus pattern (17 bp):
CAAAAAAGAACTTGCAA
Found at i:4836863 original size:124 final size:125
Alignment explanation
Indices: 4836573--4836869 Score: 352
Period size: 126 Copynumber: 2.4 Consensus size: 125
4836563 ATTGTTCTGA
* * *
4836573 ACAATTTTTAATACATTGTTGCGGCGTTTTTAGACAAAACGCCACTAATGCTTACCTTTTGCGGC
1 ACAATTTTTAATACATTGTTGCGGCGTTTTT-GTCCAAACGCCACTAATGCATACCTTTTGCGGC
* * * *
4836638 GATTCTGAGAAAAATGCTACTAAAAAGTTAAAATCTTGTAAGCAAACGATGCCGTTTTTGT
65 GATTCTGAGAAAAATGCTACTAAAAAGTCAAAATCCTGTAACCAAAAGATGCCGTTTTTGT
* * * * *
4836699 ACACTTTTTAATACATTGTTGCGGCGTTTTTATAACAAACGCCGCTATTGCATACCTTTTGCGGC
1 ACAATTTTTAATACATTGTTGCGGCGTTTTTGT-CCAAACGCCACTAATGCATACCTTTTGCGGC
* *
4836764 -ATTGTGGAGAAAAATGGC-ACTAAAAA-TCAAATTCCTGTAACCAAATAG-TGCCG-TTTTGT
65 GATTCT-GAGAAAAAT-GCTACTAAAAAGTCAAAATCCTGTAACCAAA-AGATGCCGTTTTTGT
* * *
4836823 ACAATTTTTAAGACATTGTTGTGACGTTTTTGGTCCAAACGCCACTA
1 ACAATTTTTAATACATTGTTGCGGCGTTTTT-GTCCAAACGCCACTA
4836870 CTATTAAAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
124 44 0.30
125 25 0.17
126 74 0.51
127 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (125 bp):
ACAATTTTTAATACATTGTTGCGGCGTTTTTGTCCAAACGCCACTAATGCATACCTTTTGCGGCG
ATTCTGAGAAAAATGCTACTAAAAAGTCAAAATCCTGTAACCAAAAGATGCCGTTTTTGT
Found at i:4837170 original size:7 final size:7
Alignment explanation
Indices: 4837160--4837401 Score: 89
Period size: 7 Copynumber: 33.4 Consensus size: 7
4837150 TTAGACAAAA
4837160 AAACCCT
1 AAACCCT
4837167 AAA-CCT
1 AAACCCT
4837173 AAGACCCT
1 AA-ACCCT
4837181 AAACACCT
1 AAAC-CCT
4837189 GAAAACACCT
1 --AAAC-CCT
*
4837199 AAATCCT
1 AAACCCT
4837206 AAAACCCCT
1 -AAA-CCCT
*
4837215 AAACCAT
1 AAACCCT
***
4837222 AAAATTT
1 AAACCCT
4837229 AAACCCT
1 AAACCCT
* *
4837236 AATCTCT
1 AAACCCT
*
4837243 ATACCCT
1 AAACCCT
4837250 AAACCCTT
1 AAACCC-T
4837258 AAACCCT
1 AAACCCT
**
4837265 AGTCCCT
1 AAACCCT
*
4837272 AAATTACCAT
1 -AA--ACCCT
*
4837282 AAACCCA
1 AAACCCT
*
4837289 AAACCTT
1 AAACCCT
*
4837296 AAACCAT
1 AAACCCT
4837303 AAA-CCT
1 AAACCCT
** *
4837309 CCACCAT
1 AAACCCT
4837316 ATTAA--CT
1 A--AACCCT
**
4837323 AAACTTT
1 AAACCCT
**
4837330 AAACGTT
1 AAACCCT
4837337 AAACCCT
1 AAACCCT
4837344 AAACCCT
1 AAACCCT
4837351 AAACCCT
1 AAACCCT
*
4837358 AAACCTT
1 AAACCCT
*
4837365 AAACCCC
1 AAACCCT
*
4837372 AAACCAT
1 AAACCCT
*
4837379 AAA-CAT
1 AAACCCT
*
4837385 ACACCCT
1 AAACCCT
*
4837392 AAACCAT
1 AAACCCT
4837399 AAA
1 AAA
4837402 TATAGATATT
Statistics
Matches: 173, Mismatches: 45, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
5 2 0.01
6 13 0.08
7 116 0.67
8 25 0.14
9 6 0.03
10 11 0.06
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:4837455 original size:7 final size:7
Alignment explanation
Indices: 4837443--4837503 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
4837433 AAAGGAATCT
4837443 TAAACCC
1 TAAACCC
4837450 TAAACCC
1 TAAACCC
4837457 TAAACCC
1 TAAACCC
4837464 TAAACCC
1 TAAACCC
*
4837471 CAAACCC
1 TAAACCC
*
4837478 CAAACCC
1 TAAACCC
* * *
4837485 CAGACTC
1 TAAACCC
*
4837492 TAAACCA
1 TAAACCC
4837499 TAAAC
1 TAAAC
4837504 GCAAAACTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.44, C:0.43, G:0.02, T:0.11
Consensus pattern (7 bp):
TAAACCC
Found at i:4837560 original size:7 final size:7
Alignment explanation
Indices: 4837548--4837614 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
4837538 CATTTTATCA
4837548 TAAACCT
1 TAAACCT
*
4837555 TAAACCA
1 TAAACCT
* *
4837562 TAGACAT
1 TAAACCT
4837569 TAAACCT
1 TAAACCT
*
4837576 TAAATAC-
1 TAAA-CCT
**
4837583 TACCCCT
1 TAAACCT
*
4837590 TAAACCC
1 TAAACCT
4837597 TAAACCT
1 TAAACCT
4837604 TAAACCT
1 TAAACCT
4837611 TAAA
1 TAAA
4837615 ACCATAAAGT
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
6 1 0.02
7 42 0.95
8 1 0.02
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:4837974 original size:40 final size:40
Alignment explanation
Indices: 4837930--4838017 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
4837920 CAGAATGCCT
*
4837930 CACTAATTCTCGAACTTTTGCAGCGTTTGTAAAAAAGTGC
1 CACTAATTCTAGAACTTTTGCAGCGTTTGTAAAAAAGTGC
** * * ** *
4837970 CACTAATTCTAGATTTTTTGCGGCGTTTGTTAATTATTGC
1 CACTAATTCTAGAACTTTTGCAGCGTTTGTAAAAAAGTGC
4838010 CACTAATT
1 CACTAATT
4838018 GAAAAAGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (40 bp):
CACTAATTCTAGAACTTTTGCAGCGTTTGTAAAAAAGTGC
Found at i:4839665 original size:315 final size:315
Alignment explanation
Indices: 4839088--4839717 Score: 1206
Period size: 315 Copynumber: 2.0 Consensus size: 315
4839078 AGATGTCAAC
* *
4839088 TATCTTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCGACTATCTTATTTGAAGATAAT
1 TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
4839153 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
66 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
4839218 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
131 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
*
4839283 GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCGACTTCAACATTTGAAAGACTACTACATA
196 GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
4839348 AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
261 AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
4839403 TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
1 TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
*
4839468 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGAGATAGAACGAAACATATTTCACC
66 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
4839533 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
131 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
*
4839598 GTGATAATTTATCAGATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
196 GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
*
4839663 AGATTGGAATGCGTCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
261 AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
4839718 CAAAATAAGT
Statistics
Matches: 309, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
315 309 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (315 bp):
TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
Found at i:4840106 original size:8 final size:8
Alignment explanation
Indices: 4840093--4840120 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4840083 TATTTATTGC
4840093 TTTCATAT
1 TTTCATAT
4840101 TTTCATAT
1 TTTCATAT
4840109 TTTCATAT
1 TTTCATAT
4840117 TTTC
1 TTTC
4840121 TTTTTTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTCATAT
Found at i:4846869 original size:14 final size:15
Alignment explanation
Indices: 4846852--4846884 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4846842 AAATTTTAAG
4846852 AAAAAAATAAAA-AT
1 AAAAAAATAAAACAT
*
4846866 AAAAATATAAAACAT
1 AAAAAAATAAAACAT
4846881 AAAA
1 AAAA
4846885 CTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAACAT
Found at i:4850241 original size:17 final size:18
Alignment explanation
Indices: 4850211--4850256 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
4850201 ATTTAAATTG
4850211 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
4850229 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
4850245 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
4850257 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:4851596 original size:13 final size:13
Alignment explanation
Indices: 4851573--4851606 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4851563 AATTCTGATA
*
4851573 TCAACTTTCTTCT
1 TCAATTTTCTTCT
*
4851586 TCACTTTTCTTCT
1 TCAATTTTCTTCT
4851599 TCAATTTT
1 TCAATTTT
4851607 TTGCGTCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (13 bp):
TCAATTTTCTTCT
Found at i:4856190 original size:46 final size:46
Alignment explanation
Indices: 4856140--4856427 Score: 241
Period size: 46 Copynumber: 6.4 Consensus size: 46
4856130 TTAATAGAGA
* *
4856140 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGATGTAAATTAAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * *
4856186 TGTTAAAATGTTGCAAATTGAAGTATTTAAATGCTGTGAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
4856232 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * * *
4856278 TGTTTTAAGTACTG---A--G--GTGTATAAATGTTGTTAATTG-GG
1 TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* ** * *
4856317 ATGTTAAAGTGTTGTGAGTTGAGGTGTTTAAATGCTGTAAATTGAAG
1 -TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * * * * * * *
4856364 TATTTAATTGTTGTAAATTGAGGTGCTGAAATGATGTAAATCGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* *
4856410 TGTTTAAGTGTTGCAAAT
1 TGTTAAAGTGCTGCAAAT
4856428 AATATATGAT
Statistics
Matches: 196, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
39 9 0.05
40 20 0.10
42 1 0.01
44 2 0.01
46 154 0.79
47 10 0.05
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (46 bp):
TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
Found at i:4856282 original size:23 final size:23
Alignment explanation
Indices: 4856142--4856416 Score: 199
Period size: 23 Copynumber: 12.2 Consensus size: 23
4856132 AATAGAGATG
*
4856142 TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAA-TGCTGTAAATTGAAGTGT
* *
4856166 TTAAATGATGTAAATTAAAGTGT
1 TTAAATGCTGTAAATTGAAGTGT
* * * *
4856189 TAAAATGTTGCAAATTGAAGTAT
1 TTAAATGCTGTAAATTGAAGTGT
*
4856212 TTAAATGCTGTGAATTGAAGTG-
1 TTAAATGCTGTAAATTGAAGTGT
*
4856234 TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAA-TGCTGTAAATTGAAGTGT
4856258 TTAAATGCTGTAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGT
* * *
4856281 TTTAA----GT--ACTGAGGTGT
1 TTAAATGCTGTAAATTGAAGTGT
* * * *
4856298 ATAAATGTTGTTAATTG-GGATG-
1 TTAAATGCTGTAAATTGAAG-TGT
* * * *
4856320 TTAAAGTGTTGTGAGTTGAGGTGT
1 TTAAA-TGCTGTAAATTGAAGTGT
*
4856344 TTAAATGCTGTAAATTGAAGTAT
1 TTAAATGCTGTAAATTGAAGTGT
* * * *
4856367 TTAATTGTTGTAAATTGAGGTGC
1 TTAAATGCTGTAAATTGAAGTGT
* * *
4856390 TGAAATGATGTAAATCGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGT
4856413 TTAA
1 TTAA
4856417 GTGTTGCAAA
Statistics
Matches: 197, Mismatches: 42, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
17 11 0.06
19 2 0.01
21 2 0.01
22 11 0.06
23 154 0.78
24 17 0.09
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
TTAAATGCTGTAAATTGAAGTGT
Found at i:4857988 original size:28 final size:27
Alignment explanation
Indices: 4857904--4857990 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
4857894 CAACATGCAG
* * *
4857904 TAACAGTTTGGGCCTAAGCCCTATACAG
1 TAACAGTGTGGGCCT-AGCCCAATACAA
*
4857932 CAACAGTGTGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCC-TAGCCCAATACAA
4857960 TAACAGTGTGGGCCATAGCCCAATACAA
1 TAACAGTGTGGGCC-TAGCCCAATACAA
4857988 TAA
1 TAA
4857991 TAGTATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 51 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (27 bp):
TAACAGTGTGGGCCTAGCCCAATACAA
Found at i:4858130 original size:26 final size:25
Alignment explanation
Indices: 4858101--4858201 Score: 112
Period size: 26 Copynumber: 3.9 Consensus size: 25
4858091 CACCAATATC
*
4858101 GCAGCAAAGCTGTCAGTAATAGTGAT
1 GCAGCAAAGCTG-CAGTAACAGTGAT
*
4858127 GCAGTAAAGCTGCCAGTAACAGTGAT
1 GCAGCAAAGCTG-CAGTAACAGTGAT
*
4858153 GCAGCAAAGCTGCTAGTAACAGTGAC
1 GCAGCAAAGCTGC-AGTAACAGTGAT
* * *
4858179 GCAGTAAAGTTACCAGTAACAGT
1 GCAGCAAAGCT-GCAGTAACAGT
4858202 ATATGTGGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
25 1 0.02
26 63 0.97
27 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (25 bp):
GCAGCAAAGCTGCAGTAACAGTGAT
Found at i:4858183 original size:52 final size:52
Alignment explanation
Indices: 4858101--4858201 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 52
4858091 CACCAATATC
* * *
4858101 GCAGCAAAGCTGTCAGTAATAGTGATGCAGTAAAGCTGCCAGTAACAGTGAT
1 GCAGCAAAGCTGTCAGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGAT
*
4858153 GCAGCAAAGCTG-CTAGTAACAGTGACGCAGTAAAGTTACCAGTAACAGT
1 GCAGCAAAGCTGTC-AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGT
4858202 ATATGTGGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (52 bp):
GCAGCAAAGCTGTCAGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGAT
Found at i:4858227 original size:52 final size:52
Alignment explanation
Indices: 4858115--4858227 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 52
4858105 CAAAGCTGTC
* * * **
4858115 AGTAATAGTGATGCAGTAAAGCTGCCAGTAACAGTGATGCAGCAAAGCTGCT
1 AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGATGCAGCAAAGCCACT
* * **
4858167 AGTAACAGTGACGCAGTAAAGTTACCAGTAACAGTATATGTGGCAAAGCCACT
1 AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGT-GATGCAGCAAAGCCACT
4858220 AGT-ACAGT
1 AGTAACAGT
4858228 ATACTTCCCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 36 0.71
53 15 0.29
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (52 bp):
AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGATGCAGCAAAGCCACT
Found at i:4858424 original size:27 final size:26
Alignment explanation
Indices: 4858377--4858655 Score: 227
Period size: 27 Copynumber: 10.3 Consensus size: 26
4858367 GGGTATAGCA
* *
4858377 GTCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4858404 GTCATTTTACCTTGCCAGGGTATTTCA
1 GTCATTTTACCTT-CGAGGGTATTTCG
* * * **
4858431 GTAATTCTACCCTGCGAGGGTATTTTA
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* * * *
4858458 GTTATTTTA-CTAGTTGGGGGTATTTTG
1 GTCATTTTACCT--TCGAGGGTATTTCG
** *
4858485 GTCATTTTACCCTTTAAGGGTATTTCA
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* * *
4858512 GTCATTTTACCTTTTGAGGATATTTCA
1 GTCATTTTACC-TTCGAGGGTATTTCG
4858539 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4858566 ATTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4858593 ATCATTTTACCTTTTGAGGGTATTTCG
1 GTCATTTTACC-TTCGAGGGTATTTCG
4858620 GTCATTTTATCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
4858647 ATTATTTTA
1 GTCATTTTA
4858656 GGCCCATTAC
Statistics
Matches: 209, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 8 0.04
27 190 0.91
28 7 0.03
29 2 0.01
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCTTCGAGGGTATTTCG
Found at i:4858452 original size:54 final size:53
Alignment explanation
Indices: 4858366--4858645 Score: 267
Period size: 54 Copynumber: 5.2 Consensus size: 53
4858356 TCAACTACCA
** * * *
4858366 AGGGTATAGCAGTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTGCC
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTT-CG
* * * ** * *
4858420 AGGGTATTTCAGTAATTCTACCCTGCGAGGGTATTTTAGTTATTTTA-CTAGTTG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCT--TCG
* ** ** * *
4858474 GGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCTTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC-TTCG
* * *
4858528 AGGATATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTCG
* *
4858582 AGGGTATTTC-GATCATTTTACCTTTTGAGGGTATTTCGGTCATTTTATCCTTCG
1 AGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTCG
4858636 AGGGTATTTC
1 AGGGTATTTC
4858646 GATTATTTTA
Statistics
Matches: 182, Mismatches: 38, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
53 3 0.02
54 174 0.96
55 4 0.02
56 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (53 bp):
AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTTCG
Found at i:4858536 original size:81 final size:80
Alignment explanation
Indices: 4858366--4858655 Score: 280
Period size: 81 Copynumber: 3.6 Consensus size: 80
4858356 TCAACTACCA
** * *
4858366 AGGGTATAGCAGTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTA-CCTTGCCAGGGTATTTC
1 AGGGTATTTCAGTCATTTTACAC-TTGGGGGTATTTCGGTCATTTTACCCTT-CAAGGGTATTTC
* * * **
4858430 AGTAATTCTACCCTGCG
64 AGTCATTTTACCTTTTG
* * * * *
4858447 AGGGTATTTTAGTTATTTTACTAGTTGGGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTCA
1 AGGGTATTTCAGTCATTTTAC-ACTTGGGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCA
4858512 GTCATTTTACCTTTTG
65 GTCATTTTACCTTTTG
* * * * * *
4858528 AGGATATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTACCCTTCGAGGGTATTTC-
1 AGGGTATTTCAGTCATTTTACACTT-GGGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCA
4858592 GATCATTTTACCTTTTG
65 G-TCATTTTACCTTTTG
* * * *
4858609 AGGGTATTTCGGTCATTTTATC-CTTCGAGGGTATTTCGATTATTTTA
1 AGGGTATTTCAGTCATTTTA-CACTT-GGGGGTATTTCGGTCATTTTA
4858656 GGCCCATTAC
Statistics
Matches: 177, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
80 3 0.02
81 169 0.95
82 5 0.03
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (80 bp):
AGGGTATTTCAGTCATTTTACACTTGGGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAG
TCATTTTACCTTTTG
Found at i:4863070 original size:38 final size:36
Alignment explanation
Indices: 4863002--4863075 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 36
4862992 TATAGTATTA
*
4863002 TATATTATGATTTTAGTAAATTCATATAATAATAAT
1 TATATTATAATTTTAGTAAATTCATATAATAATAAT
* *
4863038 TATATTCATAATTTTATTAAATT-ATAT-TTAATAAT
1 TATATT-ATAATTTTAGTAAATTCATATAATAATAAT
4863073 TAT
1 TAT
4863076 TATGTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 10 0.29
36 10 0.29
37 14 0.41
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
TATATTATAATTTTAGTAAATTCATATAATAATAAT
Found at i:4863333 original size:16 final size:16
Alignment explanation
Indices: 4863312--4863366 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
4863302 TGAATTACTA
*
4863312 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
4863328 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
4863344 ATAACAGCTCTATTCC
1 ATTACAGCTCTATTCC
4863360 ATTACAG
1 ATTACAG
4863367 TAAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4864658 original size:35 final size:33
Alignment explanation
Indices: 4864592--4864659 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
4864582 ACGCTTGAAC
4864592 TAGAATGTCACATTATTCTCTATATATTTTTTT
1 TAGAATGTCACATTATTCTCTATATATTTTTTT
*
4864625 TAGAATGTCACATTATTCTCTATATATATTTTT
1 TAGAATGTCACATTATTCTCTATATATTTTTTT
4864658 TA
1 TA
4864660 CTTTTAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (33 bp):
TAGAATGTCACATTATTCTCTATATATTTTTTT
Found at i:4865653 original size:26 final size:25
Alignment explanation
Indices: 4865612--4865666 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
4865602 AGCTCGGCCC
4865612 AAATATTTTTTATTTTTTA-TTTTA
1 AAATATTTTTTATTTTTTATTTTTA
4865636 AAATACTTTTTTATTTTTTATTTTTA
1 AAATA-TTTTTTATTTTTTATTTTTA
4865662 AAATA
1 AAATA
4865667 AATTTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
AAATATTTTTTATTTTTTATTTTTA
Found at i:4865672 original size:25 final size:25
Alignment explanation
Indices: 4865619--4865672 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
4865609 CCCAAATATT
**
4865619 TTTTATTTTTTATTTTAAAATACTT
1 TTTTATTTTTTATTTTAAAATACAA
4865644 TTTTATTTTTTATTTTTAAAATA-AA
1 TTTTATTTTTTA-TTTTAAAATACAA
4865669 TTTT
1 TTTT
4865673 TAGTGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTATTTTTTATTTTAAAATACAA
Found at i:4865672 original size:26 final size:26
Alignment explanation
Indices: 4865618--4865683 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
4865608 GCCCAAATAT
**
4865618 TTTTTATTTTTTA-TTTTAAAATACT
1 TTTTTATTTTTTATTTTTAAAATAAA
4865643 TTTTTATTTTTTATTTTTAAAATAAA
1 TTTTTATTTTTTATTTTTAAAATAAA
* *
4865669 TTTTTAGTGTTTATT
1 TTTTTATTTTTTATT
4865684 AAAAAAATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 13 0.36
26 23 0.64
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTTATTTTTTATTTTTAAAATAAA
Found at i:4867964 original size:29 final size:29
Alignment explanation
Indices: 4867922--4867994 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
4867912 CTACACTTGG
*
4867922 AACAAAATGTAAGAAATCTATTTGCATTA
1 AACAAAATGTAAGAAATCTATGTGCATTA
*
4867951 AACAAAATGTAAGAAATCTATGTGTATTA
1 AACAAAATGTAAGAAATCTATGTGCATTA
4867980 AACAAAATGTAAGAA
1 AACAAAATGTAAGAA
4867995 CACATATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.27
Consensus pattern (29 bp):
AACAAAATGTAAGAAATCTATGTGCATTA
Found at i:4874908 original size:28 final size:29
Alignment explanation
Indices: 4874851--4874908 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
4874841 GGGAAAATGA
* *
4874851 CCCATTTCGATAAATAATAAAATACCGGG
1 CCCATTTCGATAAATAATAAAAAAACGGG
*
4874880 CCCATTTCAGA-AAAT-ATAAAAAAAGGGG
1 CCCATTTC-GATAAATAATAAAAAAACGGG
4874908 C
1 C
4874909 TTTTAGTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 11 0.44
29 12 0.48
30 2 0.08
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.21
Consensus pattern (29 bp):
CCCATTTCGATAAATAATAAAAAAACGGG
Found at i:4882535 original size:17 final size:17
Alignment explanation
Indices: 4882513--4882577 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 17
4882503 TTTTTATGCT
*
4882513 TTATATATATTATTTTA
1 TTATATATATTATTATA
4882530 TTATATATTATATATTATA
1 TTATATA-TAT-TATTATA
*
4882549 TTATAT-TA-TATTGTA
1 TTATATATATTATTATA
*
4882564 TTGTATTATATTAT
1 TTATA-TATATTAT
4882578 ATAAGTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
15 10 0.25
16 1 0.03
17 11 0.28
18 6 0.15
19 12 0.30
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATATATTATTATA
Found at i:4882540 original size:24 final size:24
Alignment explanation
Indices: 4882516--4882579 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
4882506 TTATGCTTTA
4882516 TATATATTAT-TT-TATTATATAT
1 TATATATTATATTATATTATATAT
4882538 TATATATTATATTATATTATAT-T
1 TATATATTATATTATATTATATAT
*
4882561 GTATTGTATTATATTATAT
1 -TA-TATATTATATTATAT
4882580 AAGTAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 10 0.27
23 3 0.08
24 10 0.27
25 14 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (24 bp):
TATATATTATATTATATTATATAT
Found at i:4882541 original size:5 final size:5
Alignment explanation
Indices: 4882513--4882579 Score: 72
Period size: 5 Copynumber: 14.2 Consensus size: 5
4882503 TTTTTATGCT
4882513 TTATA -TATA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
* *
4882559 TTGTA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
4882580 AAGTAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 1 0.02
4 11 0.20
5 41 0.76
6 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:4887598 original size:13 final size:13
Alignment explanation
Indices: 4887582--4887611 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4887572 AGTGCTGCAA
4887582 AAAAATGCTTATG
1 AAAAATGCTTATG
*
4887595 AAAAATGCTTTTG
1 AAAAATGCTTATG
4887608 AAAA
1 AAAA
4887612 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:4889161 original size:59 final size:58
Alignment explanation
Indices: 4889098--4889412 Score: 181
Period size: 59 Copynumber: 5.2 Consensus size: 58
4889088 CAAAATCAAT
*
4889098 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATCCGTATAAGAA
1 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAAT-CATATAAGAA
* * * * * ** * * * *
4889157 TATTTAATACTAAGAATTTTATTA-AATTATATATTTAT-ATTAAATTATAT-TTAATAATAA
1 TATTTTAGA-TTA-TATTTTA-TAGTATTATATA-TTATGATTTTAGTAAATCAT-ATAAGAA
4889217 TTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAA-TCATATAAGAA
* * * * * * ** * * * * *
4889277 TATTTTAATATTAAGAATTTTATTA-AATTATATTTTTTTATTAAATTATAT-TTAATAATTAT
1 TATTTT-AGATT-A-TATTTTA-TAGTATTATATATTATGATTTTAGTAAATCAT-ATAA-GAA
* * *
4889339 TATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAA
1 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAA-TCATATAAGAA
* *
4889398 TTTTATTAAATTATA
1 TATT-TTAGATTATA
4889413 ATATATTTAA
Statistics
Matches: 187, Mismatches: 49, Indels: 39
0.68 0.18 0.14
Matches are distributed among these distances:
58 8 0.04
59 62 0.33
60 38 0.20
61 41 0.22
62 36 0.19
63 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (58 bp):
TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATCATATAAGAA
Found at i:4889209 original size:16 final size:18
Alignment explanation
Indices: 4889172--4889206 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4889162 AATACTAAGA
4889172 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
4889189 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
4889207 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:4889218 original size:16 final size:17
Alignment explanation
Indices: 4889179--4889224 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
4889169 AGAATTTTAT
* *
4889179 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
4889197 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
4889214 T-AATTAT-TTTA
1 TAAATTATATTTA
4889225 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:4889220 original size:26 final size:25
Alignment explanation
Indices: 4889191--4889368 Score: 77
Period size: 26 Copynumber: 7.2 Consensus size: 25
4889181 AATTATATAT
4889191 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
4889217 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
*
4889242 TTATA-T--ATTATGATTTTAGTAA-A
1 TTATATTAAATTAT-A-TTTAATAATA
* *
4889265 TTCATA-TAAGAATAT-TTTAATATTA
1 TT-ATATTAA-ATTATATTTAATAATA
** ** * * *
4889290 AGA-ATTTTATTA-AATT-ATATTT
1 TTATATTAAATTATATTTAATAATA
*
4889312 TTTTATTAAATTATATTTAATAATTA
1 TTATATTAAATTATATTTAATAA-TA
* * *
4889338 TTATTTTAAATTATATTTTATACTA
1 TTATATTAAATTATATTTAATAATA
4889363 TTATAT
1 TTATAT
4889369 ATTATAATTT
Statistics
Matches: 108, Mismatches: 31, Indels: 27
0.65 0.19 0.16
Matches are distributed among these distances:
22 10 0.09
23 17 0.16
24 21 0.19
25 16 0.15
26 40 0.37
27 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:4889315 original size:18 final size:18
Alignment explanation
Indices: 4889294--4889329 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4889284 ATATTAAGAA
4889294 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
4889312 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
4889330 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:4889336 original size:13 final size:13
Alignment explanation
Indices: 4889320--4889377 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
4889310 TTTTTTATTA
*
4889320 AATTATATTTAAT
1 AATTATATTTTAT
4889333 AATTATTATTTTA-
1 AATTA-TATTTTAT
4889346 AATTATATTTTAT
1 AATTATATTTTAT
*
4889359 ACTATTATATATTAT
1 A--ATTATATTTTAT
4889374 AATT
1 AATT
4889378 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Done.