Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 8 of 117
Found at i:798288 original size:20 final size:20
Alignment explanation
Indices: 798263--798328 Score: 71
Period size: 25 Copynumber: 3.1 Consensus size: 20
798253 ATGCTTGAAA
798263 AAAAAAGAGAAAAAAAAATG
1 AAAAAAGAGAAAAAAAAATG
798283 AAAAAAGAAAATGAAAAAAAAAATG
1 AAAAAAG---A-G-AAAAAAAAATG
*
798308 AAAAAA-TGAAAAAAAAATG
1 AAAAAAGAGAAAAAAAAATG
798327 AA
1 AA
798329 TGAAAAAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
19 13 0.32
20 8 0.20
23 1 0.03
24 1 0.03
25 17 0.43
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (20 bp):
AAAAAAGAGAAAAAAAAATG
Found at i:798300 original size:25 final size:25
Alignment explanation
Indices: 798260--798319 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
798250 ATTATGCTTG
798260 AAAAA-AAAAGAGAAAAAAAAATGA
1 AAAAAGAAAAGAGAAAAAAAAATGA
798284 AAAAAGAAAATGA-AAAAAAAAATGA
1 AAAAAGAAAA-GAGAAAAAAAAATGA
798309 AAAAATGAAAA
1 AAAAA-GAAAA
798320 AAAAATGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.07
Consensus pattern (25 bp):
AAAAAGAAAAGAGAAAAAAAAATGA
Found at i:798324 original size:12 final size:12
Alignment explanation
Indices: 798260--798313 Score: 83
Period size: 12 Copynumber: 4.4 Consensus size: 12
798250 ATTATGCTTG
798260 AAAAAAAAA-GA
1 AAAAAAAAATGA
798271 GAAAAAAAAATGA
1 -AAAAAAAAATGA
798284 AAAAAGAAAATGA
1 AAAAA-AAAATGA
798297 AAAAAAAAATGA
1 AAAAAAAAATGA
798309 AAAAA
1 AAAAA
798314 TGAAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
12 26 0.65
13 14 0.35
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:798334 original size:12 final size:12
Alignment explanation
Indices: 798279--798335 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
798269 GAGAAAAAAA
798279 AATGAAAAAA-G
1 AATGAAAAAATG
**
798290 AAAATGAAAAAAAA
1 --AATGAAAAAATG
798304 AATGAAAAAATG
1 AATGAAAAAATG
*
798316 AA-AAAAAAATG
1 AATGAAAAAATG
798327 AATGAAAAA
1 AATGAAAAA
798336 GGAGGACTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
11 10 0.27
12 17 0.46
13 10 0.27
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (12 bp):
AATGAAAAAATG
Found at i:799373 original size:40 final size:40
Alignment explanation
Indices: 799328--799406 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
799318 CTATTTTTTG
* *
799328 AAGTTGTGATGCCCCTGT-TTAGAAGAGCCATTTATTTTCA
1 AAGTTGTGATGCCCCT-TATTAGAAGAGCAATTTACTTTCA
*
799368 AAGTTGTGATGCCTCTTATTAGAAGAGCAATTTACTTTC
1 AAGTTGTGATGCCCCTTATTAGAAGAGCAATTTACTTTC
799407 CAAAAGTCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (40 bp):
AAGTTGTGATGCCCCTTATTAGAAGAGCAATTTACTTTCA
Found at i:799455 original size:42 final size:42
Alignment explanation
Indices: 799357--799658 Score: 249
Period size: 42 Copynumber: 7.0 Consensus size: 42
799347 TAGAAGAGCC
* * *
799357 ATTTATTTTCAAAGTTG-TGATGCCTCT-TATTAGAAGAGC--A
1 ATTTATTTTCAAAGTCGTTGA-GCCTCTAT-TTAGAGGAGCTTT
* * *
799397 ATTTACTTTCCAAAAGTCGTTGAGTCTCTATTTAGATGAGCTTT
1 ATTTA-TTTTC-AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTT
799441 ATTTATTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCTTTGTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCT-ATTTAGAGGAGC----TTT
799487 ATTTATTTTCAAAGTCGTTGAGCCTCT-TATTAGAGGAGCTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTAT-TTAGAGGAGCTTT
* * * *
799529 ATTTATTTTCAAAGTCATTGAGCCTCTGTTTAGAAGAGTTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTT
** *
799571 ATTTATTTTCCAAAGTTTTTGAGCCTCT-TATTAGAGAAGCTTT
1 ATTTATTTT-CAAAGTCGTTGAGCCTCTAT-TTAGAGGAGCTTT
* * * * **
799614 GCTTAAGTTTTTCAAAGTCATTGAGCCTTTGCTTAGAGGAGCTTT
1 -ATTTA--TTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTT
799659 GTATATGTTT
Statistics
Matches: 219, Mismatches: 23, Indels: 35
0.79 0.08 0.13
Matches are distributed among these distances:
40 5 0.02
41 4 0.02
42 95 0.43
43 36 0.16
44 8 0.04
45 27 0.12
46 44 0.20
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (42 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTT
Found at i:799504 original size:46 final size:46
Alignment explanation
Indices: 799438--799704 Score: 275
Period size: 45 Copynumber: 6.0 Consensus size: 46
799428 TTAGATGAGC
*
799438 TTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
1 TTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* *
799484 TTTATTTATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGC----
1 TTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* *
799526 TTTATTTATTTTCAAAGTCATTGAGCCTCTGTTTAGAAGAG---T-
1 TTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
** * *
799568 TTTATTTATTTTCCAAAGTTTTTGAGCCTCTTATTAGAGAAGCTTTG
1 TTTATTTATTTT-CAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* ** * *
799615 CTTAAGT-TTTTCAAAGTCATTGAGCCTTTGCTTAGAGGAGCTTTG
1 TTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* * * * * *
799660 TATATGT-TTTTCAAAGTCATTAAGCCTCTGCTTATAAGAGCTTTG
1 TTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
799705 ATAAGAATTT
Statistics
Matches: 188, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
42 49 0.26
43 23 0.12
45 66 0.35
46 46 0.24
47 4 0.02
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (46 bp):
TTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
Found at i:799538 original size:88 final size:88
Alignment explanation
Indices: 799409--799688 Score: 329
Period size: 88 Copynumber: 3.2 Consensus size: 88
799399 TTACTTTCCA
* * *
799409 AAAGTCGTTGAGTCTC-TATTTAGATGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTA
1 AAAGTCGTTGAGCCTCTTA-TTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGATTA
799473 GAGGAGCTTTGTTTATTTATTTTC
65 GAGGAGCTTTGTTTATTTATTTTC
*
799497 AAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGTTTAG
1 AAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAG
*
799562 AAGAG---T-TTTATTTATTTTCC
66 AGGAGCTTTGTTTATTTATTTT-C
** * * * * *
799582 AAAGTTTTTGAGCCTCTTATTAGAGAAGCTTTGCTTAAGTTTTTCAAAGTCATTGAGCCTTTGCT
1 AAAGTCGTTGAGCCTCTTATTAGAGGAGCTTT-ATTTA--TTTTCAAAGTCATTGAGCCTCTGAT
* *
799647 TAGAGGAGCTTTGTATATGT-TTTTC
63 TAGAGGAGCTTTGTTTATTTATTTTC
* *
799672 AAAGTCATTAAGCCTCT
1 AAAGTCGTTGAGCCTCT
799689 GCTTATAAGA
Statistics
Matches: 165, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
84 12 0.07
85 31 0.19
86 3 0.02
88 92 0.56
89 2 0.01
90 15 0.09
91 5 0.03
92 5 0.03
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (88 bp):
AAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAG
AGGAGCTTTGTTTATTTATTTTC
Found at i:799626 original size:130 final size:130
Alignment explanation
Indices: 799360--799703 Score: 376
Period size: 130 Copynumber: 2.6 Consensus size: 130
799350 AAGAGCCATT
* * * * * *
799360 TATTTTCAAAGTTG-TGATGCCTCTTATTAGAAGAGC--AATTTACTTTCCAAAAGTCGTTGAGT
1 TATTTTCAAAGTCGTTGA-GCCTCTTATTAGAGGAGCTTTATTTA-TTTTC-AAAGTCATTGAGC
* * * *
799422 CTCTATTTAGATGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
63 CTCTGTTTAGAAGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCTTTGCTT
**
799487 ATT
128 AAG
799490 TATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTC
1 TATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTC
* ** *
799555 TGTTTAGAAGAGTTTTATTTATTTTCCAAAGTTTTTGAGCCTCTTATTAGAGAAGCTTTGCTTAA
66 TGTTTAGAAGAGCTTTATTTATTTT-CAAAGTCGTTGAGCCTCTGATTAGAGAAGCTTTGCTTAA
799620 G
130 G
* * *
799621 T-TTTTCAAAGTCATTGAGCCT-TTGCTTAGAGGAGCTTTGTATATGT-TTTTCAAAGTCATTAA
1 TATTTTCAAAGTCGTTGAGCCTCTT-ATTAGAGGAGC-TT-TAT-T-TATTTTCAAAGTCATTGA
* *
799683 GCCTCTGCTTATAAGAGCTTT
61 GCCTCTGTTTAGAAGAGCTTT
799704 GATAAGAATT
Statistics
Matches: 183, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
129 2 0.01
130 95 0.52
131 43 0.23
132 8 0.04
133 34 0.19
134 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (130 bp):
TATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTC
TGTTTAGAAGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCTTTGCTTAAG
Found at i:799638 original size:45 final size:44
Alignment explanation
Indices: 799409--799706 Score: 236
Period size: 45 Copynumber: 6.8 Consensus size: 44
799399 TTACTTTCCA
* * * *
799409 AAAGTCGTTGAGTCTC-TATTTAGATGAGCTTT-ATTTA-TTTTC
1 AAAGTCATTGAGCCTCTTA-TTAGAGGAGCTTTGATTAATTTTTC
* * * *
799451 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTATTTTC
1 AAAGTCATTGAGCCTCTTATTAGAGGAGCTTTGATTA-AT-TTTTC
* *
799497 AAAGTCGTTGAGCCTCTTATTAGAGGAGCTTT-ATTTA-TTTTC
1 AAAGTCATTGAGCCTCTTATTAGAGGAGCTTTGATTAATTTTTC
* * * *
799539 AAAGTCATTGAGCCTCTGT-TTAGAAGAG-TTTTATTTATTTTCC
1 AAAGTCATTGAGCCTCT-TATTAGAGGAGCTTTGATTAATTTTTC
** * *
799582 AAAGTTTTTGAGCCTCTTATTAGAGAAGCTTTGCTTAAGTTTTTC
1 AAAGTCATTGAGCCTCTTATTAGAGGAGCTTTGATTAA-TTTTTC
* *
799627 AAAGTCATTGAGCCT-TTGCTTAGAGGAGCTTTG-TATATGTTTTTC
1 AAAGTCATTGAGCCTCTT-ATTAGAGGAGCTTTGAT-TA-ATTTTTC
* ** * *
799672 AAAGTCATTAAGCCTCTGCTTATAAGAGCTTTGAT
1 AAAGTCATTGAGCCTCTTATTAGAGGAGCTTTGAT
799707 AAGAATTTTA
Statistics
Matches: 210, Mismatches: 30, Indels: 28
0.78 0.11 0.10
Matches are distributed among these distances:
41 3 0.01
42 62 0.30
43 30 0.14
44 9 0.04
45 68 0.32
46 38 0.18
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (44 bp):
AAAGTCATTGAGCCTCTTATTAGAGGAGCTTTGATTAATTTTTC
Found at i:799918 original size:13 final size:13
Alignment explanation
Indices: 799900--799932 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
799890 ATTTTATTTT
799900 TTTTATTTTTGTA
1 TTTTATTTTTGTA
*
799913 TTTTATATTTGTA
1 TTTTATTTTTGTA
799926 -TTTATTT
1 TTTTATTT
799933 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTGTA
Found at i:799933 original size:4 final size:4
Alignment explanation
Indices: 799924--800108 Score: 59
Period size: 4 Copynumber: 47.2 Consensus size: 4
799914 TTTATATTTG
*
799924 TATT TATT TATAT T-TT T-TT GTATCT TATG TATT TATT TA-T TATT ACTATT
1 TATT TATT TAT-T TATT TATT -TAT-T TATT TATT TATT TATT TATT --TATT
* * * * * * * *
799974 TATT AATA TATA TATT TATT TATT TTTAT TATT TATC T-GT TAGTA TATG
1 TATT TATT TATT TATT TATT TATT TAT-T TATT TATT TATT TA-TT TATT
* * * **
800023 TATG TATT TA-T TA-T TATT TATC TATT TATA TA-T TA-T TATT TACC
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * * *
800067 TA-T TA-T TATT TATC TATT AATA T-TT TATT TATC TAAT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
800109 TCTTTTAATT
Statistics
Matches: 135, Mismatches: 32, Indels: 28
0.69 0.16 0.14
Matches are distributed among these distances:
3 26 0.19
4 93 0.69
5 11 0.08
6 5 0.04
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:799990 original size:33 final size:33
Alignment explanation
Indices: 799953--800107 Score: 120
Period size: 33 Copynumber: 4.5 Consensus size: 33
799943 GTATCTTATG
*
799953 TATTTATTTATTATTACTATTTATTAATATATA
1 TATTTATTTATTATTATTATTTATTAATATATA
* * *
799986 TATTTATTTATTTTTATTATTTATCTGTTAGTATATG
1 TATTTATTTATTATTATTATTTA----TTAATATATA
* * *
800023 TATGTATTTATTATTATTTATCTATTTATATAT-
1 TATTTATTTATTATTA-TTATTTATTAATATATA
* *
800056 TA-TTATTTACCTATTATTATTTATCTATTA-ATA
1 TATTTATTTA-TTATTATTATTTAT-TAATATATA
800089 T-TTTATTTATCTAATTATT
1 TATTTATTTAT-T-ATTATT
800108 TTCTTTTAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
32 15 0.16
33 40 0.42
34 13 0.14
37 22 0.23
38 6 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (33 bp):
TATTTATTTATTATTATTATTTATTAATATATA
Found at i:800007 original size:9 final size:10
Alignment explanation
Indices: 799892--800007 Score: 58
Period size: 10 Copynumber: 10.7 Consensus size: 10
799882 GTAGGCCCAT
799892 TTTATTTTT-
1 TTTATTTTTA
799901 TTTATTTTTGTA
1 TTTA-TTTT-TA
799913 TTTTATATTTGTA
1 -TTTAT-TTT-TA
*
799926 TTTATTTATA
1 TTTATTTTTA
799936 TTT-TTTTGTA
1 TTTATTTT-TA
799946 TCTTATGTATTTA
1 T-TTAT-T-TTTA
799959 TTTATTATTACTA
1 TTTATT-TT--TA
**
799972 TTTATTAATA
1 TTTATTTTTA
* *
799982 TATATATTTA
1 TTTATTTTTA
799992 TTTATTTTTA
1 TTTATTTTTA
800002 -TTATTT
1 TTTATTT
800008 ATCTGTTAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
9 13 0.15
10 28 0.33
11 9 0.11
12 11 0.13
13 22 0.26
14 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:800023 original size:70 final size:70
Alignment explanation
Indices: 799949--800107 Score: 180
Period size: 70 Copynumber: 2.3 Consensus size: 70
799939 TTTTGTATCT
* * *
799949 TATGTATTTATTTATTATTA-CTATTTATTAATATATATATTTATTTA-TTTTTATTATTTATCT
1 TATGTATTTATTTATTATTATCTATCTATTAATATAT-TA-TTATTTACCTATTATTATTTATCT
* *
800012 GTTAGTA
64 ATTAATA
* * *
800019 TATGTATGTATTTATTATTATTTATCTATTTATATATTATTATTTACCTATTATTATTTATCTAT
1 TATGTATTTATTTATTATTATCTATCTATTAATATATTATTATTTACCTATTATTATTTATCTAT
800084 TAATA
66 TAATA
* *
800089 T-TTTATTTATCTAATTATT
1 TATGTATTTAT-TTATTATT
800108 TTCTTTTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
69 14 0.19
70 48 0.64
71 13 0.17
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (70 bp):
TATGTATTTATTTATTATTATCTATCTATTAATATATTATTATTTACCTATTATTATTTATCTAT
TAATA
Found at i:800062 original size:14 final size:14
Alignment explanation
Indices: 799911--800091 Score: 63
Period size: 14 Copynumber: 12.4 Consensus size: 14
799901 TTTATTTTTG
799911 TATTT-TATATT-T
1 TATTTATATATTAT
799923 GTATTTATTTATATT-T
1 -TATTTA--TATATTAT
* *
799939 T-TTTGTATCTTAT
1 TATTTATATATTAT
*
799952 GTATTTATTTATTAT
1 -TATTTATATATTAT
* * *
799967 TA-CTATTTATTAA
1 TATTTATATATTAT
*
799980 TATATATAT-TTATT
1 TATTTATATATTA-T
799994 TATTT-T-TATTATT
1 TATTTATATATTA-T
800007 TATCTGTTAGTATATGTAT
1 TA--T-TTA-TATAT-TAT
800026 GTATTTATTATTATTTAT
1 -TATTTA-TA-TA-TTAT
800044 CTATTTATATATTAT
1 -TATTTATATATTAT
**
800059 TATTTACCTATTAT
1 TATTTATATATTAT
* *
800073 TATTTATCTATTAA
1 TATTTATATATTAT
800087 TATTT
1 TATTT
800092 TATTTATCTA
Statistics
Matches: 132, Mismatches: 17, Indels: 37
0.71 0.09 0.20
Matches are distributed among these distances:
12 6 0.05
13 28 0.21
14 43 0.33
15 15 0.11
16 11 0.08
17 7 0.05
18 13 0.10
19 5 0.04
20 4 0.03
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (14 bp):
TATTTATATATTAT
Found at i:800094 original size:22 final size:21
Alignment explanation
Indices: 800072--800139 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 21
800062 TTACCTATTA
800072 TTATTTATCTATTAATA--TT
1 TTATTTATCTATTAATATTTT
*
800091 TTATTTATCTAATT-ATTTTCTT
1 TTATTTATCT-ATTAATATT-TT
*
800113 TTAATTATCTATTAATATTTT
1 TTATTTATCTATTAATATTTT
800134 TTATTT
1 TTATTT
800140 GATTTGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 12 0.30
20 3 0.08
21 10 0.25
22 15 0.38
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATTTATCTATTAATATTTT
Found at i:800757 original size:21 final size:21
Alignment explanation
Indices: 800728--800770 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
800718 CTGAAAAAAA
* *
800728 AACCTACCTTTAGCCTTATAT
1 AACCAACCTTCAGCCTTATAT
800749 AACCAACCTTCAGCCTTATAT
1 AACCAACCTTCAGCCTTATAT
800770 A
1 A
800771 CCCTTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (21 bp):
AACCAACCTTCAGCCTTATAT
Found at i:800939 original size:16 final size:17
Alignment explanation
Indices: 800918--800950 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
800908 TTTCATTTTT
800918 TTATTATTTA-TTATTA
1 TTATTATTTATTTATTA
800934 TTATTATTTATTTATTA
1 TTATTATTTATTTATTA
800951 GATTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTTATTTATTA
Found at i:801124 original size:58 final size:58
Alignment explanation
Indices: 801052--801317 Score: 407
Period size: 58 Copynumber: 4.7 Consensus size: 58
801042 TAAAAAATAT
*
801052 ATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
*
801110 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTC-AAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
* * * * *
801166 A-ATATTTGGGGAAAAGTTTAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTGAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
*
801223 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-TTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
* *
801280 ATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
801318 TAACAAAAGC
Statistics
Matches: 188, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
55 40 0.21
56 42 0.22
57 22 0.12
58 84 0.45
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.38
Consensus pattern (58 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
Found at i:801194 original size:113 final size:114
Alignment explanation
Indices: 801056--801317 Score: 454
Period size: 113 Copynumber: 2.3 Consensus size: 114
801046 AAATATATAT
* * *
801056 TTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAG
801121 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
66 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
* *
801170 -TTTGGGGAAAAGTTTAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTGAAAAATATTTTTGAG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAG
* *
801234 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTCTAAAAAATA
66 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
801283 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
801318 TAACAAAAGC
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
113 106 0.76
114 33 0.24
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.38
Consensus pattern (114 bp):
TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAG
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
Found at i:807656 original size:144 final size:144
Alignment explanation
Indices: 807414--807957 Score: 932
Period size: 144 Copynumber: 3.8 Consensus size: 144
807404 ACTGTTCTGA
* *
807414 GATAAAGTAAGTTCTGTAAGAGATACAAGCATCCCTATCTCTTGAGGTATTGACCCGGAAAGCTT
1 GATAAAATAAGTTCTGTAAGAGATACAAGCATCCCCATCTCTTGAGGTATTGACCCGGAAAGCTT
* *
807479 ATTTTTAGGAAGGTAGAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
66 ATTTTCAGGAAGGTAAAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
807544 AGAAATTGTTATCC
131 AGAAATTGTTATCC
* *
807558 GATAAAATAAGTTCTGTAAGAGATACAAGGATCCCCATCTCTTGGGGTATTGACCCGGAAAGCTT
1 GATAAAATAAGTTCTGTAAGAGATACAAGCATCCCCATCTCTTGAGGTATTGACCCGGAAAGCTT
807623 ATTTTCAGGAAGGTAAAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
66 ATTTTCAGGAAGGTAAAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
807688 AGAAATTGTTATCC
131 AGAAATTGTTATCC
*
807702 GATGAAATAAGTTCTGTAAGAGATACAAGCATCCCCATCTCTTGAGGTATTGACCCGGAAAGCTT
1 GATAAAATAAGTTCTGTAAGAGATACAAGCATCCCCATCTCTTGAGGTATTGACCCGGAAAGCTT
*
807767 ATTTTCAGAAAGGTAAAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
66 ATTTTCAGGAAGGTAAAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
807832 AGAAATTGTTATCC
131 AGAAATTGTTATCC
* *
807846 GATAAAATAAGTTCTGTAAGAGATACAAGCATCCCTATCTCTTGAGGTATTGACCCGCAAAGCTT
1 GATAAAATAAGTTCTGTAAGAGATACAAGCATCCCCATCTCTTGAGGTATTGACCCGGAAAGCTT
* *
807911 ATTTTCA--AAGAGTTTAAGACTTA-ACAAATTGGTTAAGTTTCCTATGG
66 ATTTTCAGGAAG-G-TAAAGAC-TAGACAATTTGGTTAAGTTTCCTATGG
807958 AATTAGGGAT
Statistics
Matches: 382, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
142 3 0.01
143 1 0.00
144 376 0.98
145 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (144 bp):
GATAAAATAAGTTCTGTAAGAGATACAAGCATCCCCATCTCTTGAGGTATTGACCCGGAAAGCTT
ATTTTCAGGAAGGTAAAGACTAGACAATTTGGTTAAGTTTCCTATGGGAGCGGGGATTGAACCAG
AGAAATTGTTATCC
Found at i:812421 original size:17 final size:17
Alignment explanation
Indices: 812401--812441 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
812391 TTGTTTTTTT
812401 ATTATTTCTATTTTATC
1 ATTATTTCTATTTTATC
* * *
812418 ATTATTTTTATTTTTTT
1 ATTATTTCTATTTTATC
812435 ATTATTT
1 ATTATTT
812442 AAATTAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTATTTCTATTTTATC
Found at i:817066 original size:17 final size:17
Alignment explanation
Indices: 817044--817076 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
817034 CTTGTTGTAA
817044 TTTATTT-TACTTAAGTT
1 TTTATTTCTA-TTAAGTT
817061 TTTATTTCTATTAAGT
1 TTTATTTCTATTAAGT
817077 ATATGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTATTTCTATTAAGTT
Found at i:817927 original size:60 final size:58
Alignment explanation
Indices: 817861--818076 Score: 220
Period size: 59 Copynumber: 3.6 Consensus size: 58
817851 TACATTTGTA
817861 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTCTTGATAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTT-TT-ATAATTTTTATTTT
* * * * * * *
817921 TAAGGAAAATTGGTACTTCCAAC-TTTTCCTCAAAATGTTTTTTTTTCTAAAGTTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCCT-AAAA--TATTTTTTTAT-AATTTTTATTTT
* * *
817982 CAAGGAAATTTGATACTTTCAACTTTTTCCTAAGACATTTTTTTA-AACTTTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTTTATAA--TTTTTATTTT
* * * *
818041 CAAGGGAAATTGCTACTTTCAACTTTCTCCCAAAAT
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAT
818077 GCTTTTGAAA
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
57 2 0.02
59 51 0.41
60 25 0.20
61 34 0.27
62 13 0.10
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTTTATAATTTTTATTTT
Found at i:817995 original size:121 final size:119
Alignment explanation
Indices: 817861--818082 Score: 313
Period size: 120 Copynumber: 1.8 Consensus size: 119
817851 TACATTTGTA
* *
817861 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTCTTGATAA-TTTTTATTTTTAAG
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAACATTTTT-TT-A-AACTTTTTATTTTCAAG
* *
817925 GAAAATTGGTACTTCCAACTTT-TCCTCAAAATGTTTTTTTTTCTAAAGTTTTAATTT
63 GAAAATTGCTACTTCCAACTTTCTCC-CAAAATGCTTTTTTTTCTAAAGTTTTAATTT
* * *
817982 CAAGGAAATTTGATACTTTCAACTTTTTCCTAAGACATTTTTTTAAACTTTTTTATTTTCAAGGG
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAACATTTTTTTAAAC-TTTTTATTTTCAAGGA
*
818047 AAATTGCTACTTTCAACTTTCTCCCAAAATGCTTTT
65 AAATTGCTACTTCCAACTTTCTCCCAAAATGCTTTT
818083 GAAAATTTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
118 2 0.02
119 1 0.01
120 45 0.50
121 42 0.47
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (119 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAACATTTTTTTAAACTTTTTATTTTCAAGGAA
AATTGCTACTTCCAACTTTCTCCCAAAATGCTTTTTTTTCTAAAGTTTTAATTT
Found at i:818098 original size:121 final size:120
Alignment explanation
Indices: 817861--818082 Score: 299
Period size: 121 Copynumber: 1.8 Consensus size: 120
817851 TACATTTGTA
* *
817861 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTCTTGATAATTTTTATTTTTAAGG
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAACATTTTTCTTGATAATTTTTATTTTCAAGG
* *
817926 AAAATTGGTACTTCCAACTTTTCCTCAAAATGTTTTTTTTTCTAAAGTTTTAATTT
66 AAAATTGCTACTTCCAACTTTTCCTCAAAATGTTTTATTTTCT-AAGTTTTAATTT
* *
817982 CAAGGAAATTTGATACTTTCAACTTTTTCCTAAGACATTTTT-TT-A-AACTTTTTTATTTTCAA
1 CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAACATTTTTCTTGATAA--TTTTTATTTTCAA
* *
818044 GGGAAATTGCTACTTTCAACTTTCTCC-CAAAATGCTTTT
64 GGAAAATTGCTACTTCCAACTTT-TCCTCAAAATG-TTTT
818083 GAAAATTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
118 2 0.02
119 1 0.01
120 41 0.46
121 46 0.51
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (120 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCCTAAAACATTTTTCTTGATAATTTTTATTTTCAAGG
AAAATTGCTACTTCCAACTTTTCCTCAAAATGTTTTATTTTCTAAGTTTTAATTT
Found at i:818686 original size:20 final size:20
Alignment explanation
Indices: 818661--818702 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
818651 CTCTTCATAT
818661 TTCCTTTTTTCTTTCTTCTC
1 TTCCTTTTTTCTTTCTTCTC
*
818681 TTCCTTTTTTTTTTCTTCTC
1 TTCCTTTTTTCTTTCTTCTC
818701 TT
1 TT
818703 TCTCTCTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCCTTTTTTCTTTCTTCTC
Found at i:819218 original size:17 final size:17
Alignment explanation
Indices: 819176--819211 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
819166 ATTGGTCAAG
819176 AAAAGATAAAGTAAAAA
1 AAAAGATAAAGTAAAAA
819193 AAAAGATAAA-TAAAAA
1 AAAAGATAAAGTAAAAA
819209 AAA
1 AAA
819212 TATATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAGATAAAGTAAAAA
Found at i:819541 original size:44 final size:44
Alignment explanation
Indices: 819427--819688 Score: 217
Period size: 44 Copynumber: 6.2 Consensus size: 44
819417 AAATTTTGAT
* * *
819427 CAAAGCTCCTCTAAGCAAAGGCTCAATGACTTTGAAAAAAATAAA
1 CAAAGCTCCTTTAATCAAAGGCTCAATGACTTT-AGAAAAATAAA
* *
819472 CAAAGCTCCTCTAAAT-AAAGGCTCAATAACTTTAGAAAAATAAA
1 CAAAGCTCCT-TTAATCAAAGGCTCAATGACTTTAGAAAAATAAA
* * * * *
819516 TAAAGCTTCTTTAATCAAAGACTCAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTTTAATCAAAGGCTCAATGACTTTAGAAAAATAAA
*
819560 CAAAGCTCCTTTAAT-------T--A-GACTTTGGAAAAATAAA
1 CAAAGCTCCTTTAATCAAAGGCTCAATGACTTTAGAAAAATAAA
* * ** *
819594 CAAAGCT-CTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAA
1 CAAAGCTCCTT-TAATCAAAGGCTCAATGACTTTAGAAAAATAAA
* ** *
819638 CAAAGCTCCTCTAAT-AAGAGGCTCAACAACTTTGGAAAAATAAA
1 CAAAGCTCCTTTAATCAA-AGGCTCAATGACTTTAGAAAAATAAA
819682 CAAAGCT
1 CAAAGCT
819689 TTTTGACAAT
Statistics
Matches: 183, Mismatches: 19, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
33 3 0.02
34 27 0.15
35 1 0.01
37 1 0.01
41 1 0.01
43 6 0.03
44 114 0.62
45 28 0.15
46 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (44 bp):
CAAAGCTCCTTTAATCAAAGGCTCAATGACTTTAGAAAAATAAA
Found at i:819629 original size:78 final size:78
Alignment explanation
Indices: 819500--819652 Score: 227
Period size: 78 Copynumber: 2.0 Consensus size: 78
819490 AGGCTCAATA
* * *
819500 ACTTTAGAAAAATAAATAAAGCTTCTTTAATCAAAGACTCAACGACTTTGGAAAAATAAACAAAG
1 ACTTTAGAAAAATAAACAAAGCTTCTTTAAACAAAGACTCAACAACTTTGGAAAAATAAACAAAG
*
819565 CTCCTTTAATTAG
66 CTCCTCTAATTAG
* * *
819578 ACTTTGGAAAAATAAACAAAGC-TCTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAACAAA
1 ACTTTAGAAAAATAAACAAAGCTTCTT-TAAACAAAGACTCAACAACTTTGGAAAAATAAACAAA
819642 GCTCCTCTAAT
65 GCTCCTCTAAT
819653 AAGAGGCTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
77 4 0.06
78 63 0.94
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (78 bp):
ACTTTAGAAAAATAAACAAAGCTTCTTTAAACAAAGACTCAACAACTTTGGAAAAATAAACAAAG
CTCCTCTAATTAG
Found at i:819680 original size:122 final size:123
Alignment explanation
Indices: 819454--819688 Score: 348
Period size: 122 Copynumber: 1.9 Consensus size: 123
819444 AAGGCTCAAT
* * *
819454 GACTTTGAAAAAAATAAACAAAGCTCCTCTAAATAAAGGCTCAATAACTTTAGAAAAATAAATAA
1 GACTTTGAAAAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACAACTTTAGAAAAATAAACAA
* * *
819519 AGCTTCTTTAATCAAAGACTCAACGACTTTGGAAAAATAAACAAAGCTCCTTTAATTA
66 AGCTCCTCTAATCAAAGACTCAACAACTTTGGAAAAATAAACAAAGCTCCTTTAATTA
* * * *
819577 GACTTTG-GAAAAATAAACAAAGCTCTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAACAA
1 GACTTTGAAAAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACAACTTTAGAAAAATAAACAA
*
819641 AGCTCCTCTAAT-AAGAGGCTCAACAACTTTGGAAAAATAAACAAAGCT
66 AGCTCCTCTAATCAA-AGACTCAACAACTTTGGAAAAATAAACAAAGCT
819689 TTTTGACAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
121 2 0.02
122 91 0.91
123 7 0.07
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.23
Consensus pattern (123 bp):
GACTTTGAAAAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACAACTTTAGAAAAATAAACAA
AGCTCCTCTAATCAAAGACTCAACAACTTTGGAAAAATAAACAAAGCTCCTTTAATTA
Found at i:819981 original size:16 final size:16
Alignment explanation
Indices: 819956--819986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
819946 TATGCTATGC
819956 GAAATGCAATGCATGT
1 GAAATGCAATGCATGT
*
819972 GAAATTCAATGCATG
1 GAAATGCAATGCATG
819987 CTATGCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (16 bp):
GAAATGCAATGCATGT
Found at i:820694 original size:4 final size:4
Alignment explanation
Indices: 820685--820716 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
820675 TTCATTTTTC
820685 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
820717 TAAGCATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:827435 original size:60 final size:59
Alignment explanation
Indices: 827357--827602 Score: 277
Period size: 60 Copynumber: 4.2 Consensus size: 59
827347 ATTTGGGAGT
*
827357 TTTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTCTTGATAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTT-TTGATAA
* * * * **
827416 TTTTTATTTTTAAGGAAAATTGATACTTCCAACTTTTCCTTAAAATGTTTTTTTTCTAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTGAT-AA
* * * *
827476 ATTTTAATTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAGATATTTTTTTTA-AA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTGATAA
* * * *
827534 TCTTTTTATTTTCAAGGGAAATTAATACTTTCAACTTTCTCCC--AAA-ATGTTTTTGAAAA
1 --TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTT-TCCCTAAAATATTTTTTTGATAA
827593 TTTTTATTTT
1 TTTTTATTTT
827603 AGAAATTTTA
Statistics
Matches: 160, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
57 10 0.06
58 10 0.06
59 17 0.11
60 119 0.74
61 4 0.03
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (59 bp):
TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTGATAA
Found at i:827506 original size:120 final size:119
Alignment explanation
Indices: 827357--827587 Score: 322
Period size: 120 Copynumber: 1.9 Consensus size: 119
827347 ATTTGGGAGT
* *
827357 TTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTCTTGATAA-TTTTT
1 TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTT-TTGA-AACTTTTT
* * *
827421 ATTTTTAAGGAAAATTGATACTTCCAACTTT-TCCTTAAAATGTTTTTTTTCTAAAA
64 ATTTTCAAGGAAAATTAATACTTCCAACTTTCTCC-CAAAATGTTTTTTTTCTAAAA
* * *
827477 TTTTAATTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAGATATTTTTTTTAAATCTTTTTA
1 TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTGAAA-CTTTTTA
* *
827542 TTTTCAAGGGAAATTAATACTTTCAACTTTCTCCCAAAATGTTTTT
65 TTTTCAAGGAAAATTAATACTTCCAACTTTCTCCCAAAATGTTTTT
827588 GAAAATTTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
118 2 0.02
119 3 0.03
120 90 0.92
121 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (119 bp):
TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTGAAACTTTTTAT
TTTCAAGGAAAATTAATACTTCCAACTTTCTCCCAAAATGTTTTTTTTCTAAAA
Found at i:827770 original size:54 final size:54
Alignment explanation
Indices: 827609--827770 Score: 166
Period size: 54 Copynumber: 2.9 Consensus size: 54
827599 TTTTAGAAAT
* * **
827609 TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTA
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTAAA
* * * ***
827664 TTTTTGTGTTCAA-AGGAAATTGATACATTCAAC-TTTCCTTCAATTTTTTTTTTAAA
1 TTTAT-T-TTCAAGA-AAAATTGATACTTTCAACTTTTCC-TCAAAAATTTTTTTAAA
*
827720 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGTTTTT
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTT
827771 CTTTGAGAAT
Statistics
Matches: 84, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
54 31 0.37
55 11 0.13
56 17 0.20
57 25 0.30
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (54 bp):
TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTAAA
Found at i:828210 original size:3 final size:3
Alignment explanation
Indices: 828202--828323 Score: 142
Period size: 3 Copynumber: 40.3 Consensus size: 3
828192 TGGCCCACAT
*
828202 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
828249 TT- TTA TTTA TTA TTCA TTTA TTA TCA TTA TTTA TT- TTA TTA TTA TTA
1 TTA TTA -TTA TTA TT-A -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
828296 TTA GTA TTA CTA TTA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
828324 CATTTTTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
2 6 0.06
3 87 0.84
4 8 0.08
5 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:829125 original size:12 final size:12
Alignment explanation
Indices: 829108--829141 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
829098 ATTCTTTATT
829108 TTTTATTTTTTA
1 TTTTATTTTTTA
*
829120 TTTTATTTTATA
1 TTTTATTTTTTA
829132 -TTTATTTTTT
1 TTTTATTTTTT
829142 TCAATGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:829240 original size:58 final size:56
Alignment explanation
Indices: 829149--829460 Score: 286
Period size: 58 Copynumber: 5.4 Consensus size: 56
829139 TTTTCAATGA
* * *
829149 TTTTCCTAAAATAACATTATAAAAAAAATATTTTT-AGGGAAAAGTTAAAGGTATCAAT
1 TTTTCTTAAAATAAAATT-TTAAAAAAATATTTTTGA-GGAAAAGTTAAA-GTATCAAT
*
829207 TTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTAGAAAGTATCAAT
1 TTTTCTT-AAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGT-TAAAGTATCAAT
* * **** * * *
829265 TTTTTTTGAAAAAAAAATTTTTTTTTTTAAATATTTTTAAGAAAAAATTGAAAGTATCAAT
1 TTTTCTT-AAAATAAAA---TTTTAAAAAAATATTTTTGAGGAAAAGTT-AAAGTATCAAT
* * * *
829326 TTTCCTTAAGATAAAATTTCCAAAAAAATATTTTTGAAGAAAAGTTAAAAGTATCAAT
1 TTTTCTTAAAATAAAATTT-TAAAAAAATATTTTTGAGGAAAAGTT-AAAGTATCAAT
* ** * *
829384 TTTTCCTAAAATAAAATTTCCAAAAAATACATTTTGAGGAAAAGTTGGAAGTATCAAT
1 TTTTCTTAAAATAAAATTTTAAAAAAATA-TTTTTGAGGAAAAGTT-AAAGTATCAAT
829442 TTTTCTTAAAA-AAAATTTT
1 TTTTCTTAAAATAAAATTTT
829461 TTTGTCAAGA
Statistics
Matches: 207, Mismatches: 38, Indels: 19
0.78 0.14 0.07
Matches are distributed among these distances:
57 19 0.09
58 130 0.63
59 14 0.07
60 7 0.03
61 37 0.18
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.38
Consensus pattern (56 bp):
TTTTCTTAAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTAAAGTATCAAT
Found at i:829421 original size:177 final size:178
Alignment explanation
Indices: 829170--829512 Score: 471
Period size: 177 Copynumber: 1.9 Consensus size: 178
829160 TAACATTATA
* * * *
829170 AAAAAAATATTTTTAGGGAAAAGTTAAAGGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAA
1 AAAAAAATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCCTGAAAATAAAATTTCAAAAAAA
* * *** *
829235 TATTTTTGAGGAAAAGTAGAAAGTATCAATTTTTTTTGAAAAAAAAATTTTTTT-T-TTTAAATA
66 TAATTTTGAGGAAAAGTAGAAAGTATCAATTTTTCTT--AAAAAAAATTTTTTTGTCAAGAAAAA
*
829298 -TTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTAAGATAAAATTTCC
129 CGTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTAAGATAAAATTTCC
*
829347 AAAAAAATATTTTT-GAAGAAAAGTTAAAAGTATCAATTTTTCCT-AAAATAAAATTTCCAAAAA
1 AAAAAAATATTTTTAG-AGAAAAGTTAAAAGTATCAATTTTTCCTGAAAATAAAATTTCAAAAAA
* *
829410 ATACATTTTGAGGAAAAGTTGGAAGTATCAATTTTTCTTAAAAAAAATTTTTTTGTCAAGAAAAA
65 ATA-ATTTTGAGGAAAAGTAGAAAGTATCAATTTTTCTTAAAAAAAATTTTTTTGTCAAGAAAAA
* *
829475 CGTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAA
129 CGTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTAA
829513 AATGAAAACT
Statistics
Matches: 145, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
175 15 0.10
176 22 0.15
177 74 0.51
178 34 0.23
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (178 bp):
AAAAAAATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCCTGAAAATAAAATTTCAAAAAAA
TAATTTTGAGGAAAAGTAGAAAGTATCAATTTTTCTTAAAAAAAATTTTTTTGTCAAGAAAAACG
TTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTAAGATAAAATTTCC
Found at i:835586 original size:16 final size:15
Alignment explanation
Indices: 835557--835633 Score: 75
Period size: 17 Copynumber: 4.9 Consensus size: 15
835547 GATGTGGATG
835557 GAAAAAG-GAAAAAA
1 GAAAAAGAGAAAAAA
835571 GAAAAAGAGTAAAAAAA
1 GAAAAAGAG--AAAAAA
* *
835588 AAAAAAAAGAAAAAA
1 GAAAAAGAGAAAAAA
*
835603 GAAAAAAGAGAAAAAT
1 G-AAAAAGAGAAAAAA
835619 GTAAAAGAGAGAAAA
1 G-AAAA-AGAGAAAA
835634 TGGAGACTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.13
15 7 0.13
16 17 0.33
17 21 0.40
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (15 bp):
GAAAAAGAGAAAAAA
Found at i:835624 original size:17 final size:16
Alignment explanation
Indices: 835558--835633 Score: 84
Period size: 16 Copynumber: 4.8 Consensus size: 16
835548 ATGTGGATGG
835558 AAAAAG-GAAAAAAG-
1 AAAAAGAGAAAAAAGA
*
835572 AAAAAGAGTAAAAAAAA
1 AAAAAGAG-AAAAAAGA
*
835589 AAAAAAAGAAAAAAGA
1 AAAAAGAGAAAAAAGA
*
835605 AAAAAGAGAAAAATGTA
1 AAAAAGAGAAAAAAG-A
*
835622 AAAGAGAGAAAA
1 AAAAAGAGAAAA
835634 TGGAGACTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
14 6 0.12
15 1 0.02
16 26 0.50
17 19 0.37
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAAAGAGAAAAAAGA
Found at i:835628 original size:15 final size:16
Alignment explanation
Indices: 835606--835635 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
835596 GAAAAAAGAA
835606 AAAAGAGA-AAAATGT
1 AAAAGAGAGAAAATGT
835621 AAAAGAGAGAAAATG
1 AAAAGAGAGAAAATG
835636 GAGACTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (16 bp):
AAAAGAGAGAAAATGT
Found at i:836728 original size:22 final size:22
Alignment explanation
Indices: 836703--836763 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
836693 TTTAAAACTC
*
836703 AAATGAGAATCTTTGAGTTTTA
1 AAATGAGAATCTTTGAGTTTCA
836725 AAATGAGAATCTTTGAGTTTCA
1 AAATGAGAATCTTTGAGTTTCA
836747 AAATGAGAAAT-TTTGAG
1 AAATGAG-AATCTTTGAG
836764 GTGTGAAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (22 bp):
AAATGAGAATCTTTGAGTTTCA
Found at i:837413 original size:41 final size:41
Alignment explanation
Indices: 837354--837666 Score: 213
Period size: 41 Copynumber: 7.6 Consensus size: 41
837344 GATGGTCAAA
837354 GAGC-ATTTAC-TTTCAAAGTTGTGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* * *
837393 GAGCAATTTACTTTTCAAAGTTATGGTGCCTTTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* * * * * *
837434 GAGCAGTTTACTTCTCAAGGTTGTGGTACCTCTGTTTAGAA
1 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* ** * * * * *
837475 TAGCCTTTTATTTTTTAAAGTTGTGGTTACCTCTGTTTAGAT
1 GAGCAATTTACTTTTCAAAGTTGTGG-TGCCTCTATTTAGAG
** * *
837517 GAGCAATTTA-TTTTCCAACTTTGTTGAGCCTCTGA-TTAGAG
1 GAGCAATTTACTTTT-CAAAGTTGTGGTGCCTCT-ATTTAGAG
* * *** *
837558 AAGCTTTATTTA-TTTTCCAAAGTTGTTAAGCCTCTATTTAGAT
1 GAGC--AATTTACTTTT-CAAAGTTGTGGTGCCTCTATTTAGAG
* * ** * *
837601 GAGCATTTTATTTTTCAAAGTCATGATTGTCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTTGTG-GTGCCTCTATTTAGAG
* *
837643 AAGCAATTTATTTTTCAAAGTTGT
1 GAGCAATTTACTTTTCAAAGTTGT
837667 TGAGTCTCTG
Statistics
Matches: 215, Mismatches: 49, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
39 4 0.02
40 6 0.03
41 107 0.50
42 65 0.30
43 33 0.15
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
Found at i:837575 original size:43 final size:43
Alignment explanation
Indices: 837522--837940 Score: 311
Period size: 44 Copynumber: 9.7 Consensus size: 43
837512 TAGATGAGCA
**
837522 ATTTATTTTCCAACTTTGTTGAGCCTCTGATTAGAGAAGCTTT
1 ATTTATTTTCCAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTT
* *
837565 ATTTATTTTCCAAAGTTGTTAAGCCTCT-ATTTAGATG-AGC-AT
1 ATTTATTTTCCAAAGTTGTTGAGCCTCTGA-TTAGA-GAAGCTTT
* * *
837607 -TTTATTTTTCAAAGTCATGATT--GTCTCT-ATTTAGAGAAGC--A
1 ATTTATTTTCCAAAGT--TG-TTGAGCCTCTGA-TTAGAGAAGCTTT
* * * *
837648 ATTTATTTTTCAAAGTTGTTGAGTCTCTGATTAAAGGAGCTTT
1 ATTTATTTTCCAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTT
* * *
837691 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGA-AGAGCTTC
1 ATTTATTTTCCAAAGTTGTTGAGCCTCTGATTAGAGA-AGCTTT
* ** *
837734 GTTTATTTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTT
1 ATTTA-TTTTCCAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTT
* * **
837778 GTTTATTTTTCAAAAGTTGTTGAGCCTCT-ATTTAGAGAAGCCAT
1 ATTTA-TTTTCCAAAGTTGTTGAGCCTCTGA-TTAGAGAAGCTTT
* * * *
837822 GTTTATGTTTCTAAAGTTGTTGAACCTCTGATTAGAGGAGCTTT
1 ATTTAT-TTTCCAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTT
* ** * * *
837866 GTTTATGTTTTCCAAAGTTGTAAAGCCTCTAATTAGAGGAGTTTT
1 ATTTA--TTTTCCAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTT
* * *
837911 ATTTTTATTTTTCAAAGTCGTTGAACCTCT
1 A--TTTATTTTCCAAAGTTGTTGAGCCTCT
837941 ACTTAAAGGA
Statistics
Matches: 309, Mismatches: 45, Indels: 42
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 29 0.09
42 33 0.11
43 76 0.25
44 112 0.36
45 50 0.16
46 1 0.00
47 4 0.01
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (43 bp):
ATTTATTTTCCAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTT
Found at i:837621 original size:126 final size:126
Alignment explanation
Indices: 837462--837753 Score: 345
Period size: 126 Copynumber: 2.3 Consensus size: 126
837452 GGTTGTGGTA
* * * *
837462 CCTCTGTTTAGAAT-AGCCTTTTATTTTTTAAAGTTGTGGTTACCTCTGTTTAGATG-AGCAATT
1 CCTCTGTTTAG-ATGAGCATTTTATTTTTAAAAGTTGTGATTACCTCTATTTAGA-GAAGCAATT
** * *
837525 TATTTTCCAACTTTGTTGAGCCTCTGATTAGAGAAGCTTTATTTATTTTCCAAAGTTGTTAAG
64 TATTTTCCAAAGTTGTTGAGCCTCTGATTAAAGAAGCTTTATTTATTTTCCAAAGTCGTTAAG
* * ** **
837588 CCTCTATTTAGATGAGCATTTTATTTTTCAAAGTCATGATTGTCTCTATTTAGAGAAGCAATTTA
1 CCTCTGTTTAGATGAGCATTTTATTTTTAAAAGTTGTGATTACCTCTATTTAGAGAAGCAATTTA
* * * *
837653 TTTTTCAAAGTTGTTGAGTCTCTGATTAAAGGAGCTTTATTTATTTTCCAAAGTCGTTGAG
66 TTTTCCAAAGTTGTTGAGCCTCTGATTAAAGAAGCTTTATTTATTTTCCAAAGTCGTTAAG
* *
837714 CCTCTGTTTAGAAGAGCTTCGTTTATTTTTTAAAAGTTGT
1 CCTCTGTTTAGATGAGCAT--TTTA-TTTTTAAAAGTTGT
837754 TGAGCCTCTG
Statistics
Matches: 138, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
125 3 0.02
126 120 0.87
128 4 0.03
129 11 0.08
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (126 bp):
CCTCTGTTTAGATGAGCATTTTATTTTTAAAAGTTGTGATTACCTCTATTTAGAGAAGCAATTTA
TTTTCCAAAGTTGTTGAGCCTCTGATTAAAGAAGCTTTATTTATTTTCCAAAGTCGTTAAG
Found at i:837755 original size:87 final size:87
Alignment explanation
Indices: 837539--837956 Score: 347
Period size: 88 Copynumber: 4.8 Consensus size: 87
837529 TTCCAACTTT
** * ** * *
837539 GTTGAGCCTCTGA-TTAGAGAAGCTTTATTTATTTTCCAAAGTTGTTAAGCCTCT-ATTTAGATG
1 GTTGAGCCTCT-ATTTAGAGAAGCCATGTTTATTTTTTAAAGTTGTTGAGCCTCTGA-TTAGAGG
*
837602 AGC-AT-TTTATTTTT-CAAAGTC
64 AGCTTTGTTTATTTTTCCAAAGTC
* * * * * *
837623 -ATGATTGTCTCTATTTAGAGAAG-CA-ATTTATTTTTCAAAGTTGTTGAGTCTCTGATTAAAGG
1 GTTGA--GCCTCTATTTAGAGAAGCCATGTTTATTTTTTAAAGTTGTTGAGCCTCTGATTAGAGG
*
837685 AGCTTTATTTA-TTTTCCAAAGTC
64 AGCTTTGTTTATTTTTCCAAAGTC
* *
837708 GTTGAGCCTCTGTTTAGA-AGAG-CTTCGTTTATTTTTTAAAAGTTGTTGAGCCTCTGATTAGAG
1 GTTGAGCCTCTATTTAGAGA-AGCCAT-GTTTATTTTTT-AAAGTTGTTGAGCCTCTGATTAGAG
* *
837771 GAGCTTTGTTTATTTTTCAAAAGTT
63 GAGCTTTGTTTATTTTTCCAAAGTC
* *
837796 GTTGAGCCTCTATTTAGAGAAGCCATGTTTATGTTTCTAAAGTTGTTGAACCTCTGATTAGAGGA
1 GTTGAGCCTCTATTTAGAGAAGCCATGTTTAT-TTTTTAAAGTTGTTGAGCCTCTGATTAGAGGA
*
837861 GCTTTGTTTATGTTTTCCAAAGTT
65 GCTTTGTTTAT-TTTTCCAAAGTC
** * * ** * * * * *
837885 GTAAAGCCTCTAATTAGAGGAGTTTTATTTTTATTTTTCAAAGTCGTTGAACCTCT-ACTTAAAG
1 GTTGAGCCTCTATTTAGAGAAG--CCATGTTTATTTTTTAAAGTTGTTGAGCCTCTGA-TTAGAG
837949 GAGCTTTG
63 GAGCTTTG
837957 ATCAAAATTT
Statistics
Matches: 277, Mismatches: 37, Indels: 34
0.80 0.11 0.10
Matches are distributed among these distances:
83 37 0.13
84 21 0.08
85 25 0.09
86 12 0.04
87 34 0.12
88 72 0.26
89 37 0.13
90 32 0.12
91 7 0.03
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (87 bp):
GTTGAGCCTCTATTTAGAGAAGCCATGTTTATTTTTTAAAGTTGTTGAGCCTCTGATTAGAGGAG
CTTTGTTTATTTTTCCAAAGTC
Found at i:837838 original size:88 final size:86
Alignment explanation
Indices: 837367--837903 Score: 364
Period size: 83 Copynumber: 6.3 Consensus size: 86
837357 CATTTACTTT
* * * * * * * *
837367 CAAAGTTGTGGTGCCTCTATTTAGAGGAGCA-ATTTACTTTTC-AAAGTTATGGTGCCTTTGTTT
1 CAAAGTTGTTGAGCCTCTATTTAGAGAAGCATATTTA-TTTTCTAAAGTTGTTGAGCCTCTGATT
* * *
837430 AGAGGAGC--AGTTTACTTCT-
65 AGAGGAGCTTTGTTTATTTTTC
* * * * * *
837449 CAAGGTTGTGGTA-CCTCTGTTTAGA-ATAGCCT-TTTATTTTTTAAAGTTGTGGTTA-CCTCTG
1 CAAAGTTGTTG-AGCCTCTATTTAGAGA-AGCATATTTATTTTCTAAAGTTGT--TGAGCCTCTG
* * **
837510 TTTAGATGAGC--AATTTA-TTTTC
62 ATTAGAGGAGCTTTGTTTATTTTTC
** * * *
837532 CAACTTTGTTGAGCCTCTGA-TTAGAGAAGCTTTATTTATTTTCCAAAGTTGTTAAGCCTCT-AT
1 CAAAGTTGTTGAGCCTCT-ATTTAGAGAAGC-ATATTTATTTTCTAAAGTTGTTGAGCCTCTGA-
* *
837595 TTAGATGAGC-AT-TTTATTTTT-
63 TTAGAGGAGCTTTGTTTATTTTTC
* *
837616 CAAAGTCATGATT--GTCTCTATTTAGAGAAGCA-ATTTATTTT-TCAAAGTTGTTGAGTCTCTG
1 CAAAGT--TG-TTGAGCCTCTATTTAGAGAAGCATATTTATTTTCT-AAAGTTGTTGAGCCTCTG
* *
837677 ATTAAAGGAGCTTTATTTA-TTTTC
62 ATTAGAGGAGCTTTGTTTATTTTTC
* * * * *
837701 CAAAGTCGTTGAGCCTCTGTTTAGA-AGAGCTTCGTTTATTTTTTAAAAGTTGTTGAGCCTCTGA
1 CAAAGTTGTTGAGCCTCTATTTAGAGA-AGCAT-ATTTATTTTCT-AAAGTTGTTGAGCCTCTGA
837765 TTAGAGGAGCTTTGTTTATTTTTC
63 TTAGAGGAGCTTTGTTTATTTTTC
* * *
837789 AAAAGTTGTTGAGCCTCTATTTAGAGAAGCCATGTTTATGTTTCTAAAGTTGTTGAACCTCTGAT
1 CAAAGTTGTTGAGCCTCTATTTAGAGAAG-CATATTTAT-TTTCTAAAGTTGTTGAGCCTCTGAT
837854 TAGAGGAGCTTTGTTTATGTTTTC
64 TAGAGGAGCTTTGTTTAT-TTTTC
** *
837878 CAAAGTTGTAAAGCCTCTAATTAGAG
1 CAAAGTTGTTGAGCCTCTATTTAGAG
837904 GAGTTTTATT
Statistics
Matches: 366, Mismatches: 53, Indels: 65
0.76 0.11 0.13
Matches are distributed among these distances:
81 4 0.01
82 41 0.11
83 77 0.21
84 46 0.13
85 45 0.12
86 10 0.03
87 37 0.10
88 72 0.20
89 34 0.09
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (86 bp):
CAAAGTTGTTGAGCCTCTATTTAGAGAAGCATATTTATTTTCTAAAGTTGTTGAGCCTCTGATTA
GAGGAGCTTTGTTTATTTTTC
Found at i:839979 original size:16 final size:15
Alignment explanation
Indices: 839935--839983 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
839925 TAAAAATTCT
839935 TTTAATTATTTAAAA
1 TTTAATTATTTAAAA
* *
839950 TTAAAATATATTAAACA
1 TTTAATTAT-TTAAA-A
839967 TTTAATTATTTAAAA
1 TTTAATTATTTAAAA
839982 TT
1 TT
839984 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.36
16 10 0.36
17 8 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAATTATTTAAAA
Found at i:840000 original size:20 final size:20
Alignment explanation
Indices: 839975--840046 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 20
839965 CATTTAATTA
839975 TTTAAAATTATTATTTTATT
1 TTTAAAATTATTATTTTATT
*
839995 TTTAAAATAATTAGTTTTTATT
1 TTTAAAATTATTA--TTTTATT
**
840017 ATTTAATTTTATTTATTCTTATT
1 -TTTAAAATTA-TTATT-TTATT
840040 TTATAAA
1 TT-TAAA
840047 TAATTTGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 12 0.29
22 11 0.27
23 15 0.37
24 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTAAAATTATTATTTTATT
Found at i:841543 original size:40 final size:40
Alignment explanation
Indices: 841488--841579 Score: 139
Period size: 40 Copynumber: 2.2 Consensus size: 40
841478 TTAACAAATA
* *
841488 TATATATTCCTTTGAACTATCCACATCATGGCTTTTTTCT
1 TATATATTCCTTTGAACTATCCAAATCATGGCTTCTTTCT
*
841528 TATATATTGCTTTGAACTATCCAAATCATGGCTTCTTTCT
1 TATATATTCCTTTGAACTATCCAAATCATGGCTTCTTTCT
841568 TAATATCATTCC
1 T-ATAT-ATTCC
841580 AAGTCTCGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 38 0.83
41 4 0.09
42 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.46
Consensus pattern (40 bp):
TATATATTCCTTTGAACTATCCAAATCATGGCTTCTTTCT
Found at i:844335 original size:50 final size:50
Alignment explanation
Indices: 844230--844335 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
844220 TCCATAATTG
* *
844230 ATTCAACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAATTGAGAT
1 ATTCAACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAACTAAGAT
* **
844280 CTTCAACCATTAAACCACAAAATCAAATCATT-GATTCTCCGAACTAAGAT
1 ATTCAACCATTAAACCACAAAATCAAATC-TTGGATTCTCAAAACTAAGAT
844330 ATTCAA
1 ATTCAA
844336 ATTCCCACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 47 0.96
51 2 0.04
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (50 bp):
ATTCAACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAACTAAGAT
Found at i:844408 original size:16 final size:16
Alignment explanation
Indices: 844387--844417 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
844377 TTCCTTTGAC
844387 CAAAAATAAAATTAAA
1 CAAAAATAAAATTAAA
844403 CAAAAATAAAATTAA
1 CAAAAATAAAATTAA
844418 GATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
CAAAAATAAAATTAAA
Found at i:844660 original size:8 final size:8
Alignment explanation
Indices: 844649--844691 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
844639 ATTTTTCTTT
844649 TTTTGTTG
1 TTTTGTTG
*
844657 TTTTGTTT
1 TTTTGTTG
844665 TTTTGTTG
1 TTTTGTTG
* *
844673 TTTTTTTT
1 TTTTGTTG
*
844681 TTTTTTTG
1 TTTTGTTG
844689 TTT
1 TTT
844692 CAAAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (8 bp):
TTTTGTTG
Found at i:844665 original size:16 final size:16
Alignment explanation
Indices: 844641--844691 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
844631 TTCAAAAAAT
844641 TTTTCTTTTTTTGTTG
1 TTTTCTTTTTTTGTTG
*
844657 TTTTGTTTTTTTGTTG
1 TTTTCTTTTTTTGTTG
* *
844673 TTTTTTTTTTTTTTTG
1 TTTTCTTTTTTTGTTG
844689 TTT
1 TTT
844692 CAAAAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTTTTGTTG
Found at i:844673 original size:19 final size:19
Alignment explanation
Indices: 844646--844690 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
844636 AAAATTTTTC
844646 TTTTT-TTGTTGTTTTGTT
1 TTTTTGTTGTTGTTTTGTT
* *
844664 TTTTTGTTGTTTTTTTTTT
1 TTTTTGTTGTTGTTTTGTT
844683 TTTTTGTT
1 TTTTTGTT
844691 TCAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (19 bp):
TTTTTGTTGTTGTTTTGTT
Found at i:853609 original size:17 final size:16
Alignment explanation
Indices: 853586--853624 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
853576 ATTTTCAAAC
* *
853586 AAAAATATATATATAT
1 AAAAATATAAAAATAT
853602 ATAAAATATAAAAATAT
1 A-AAAATATAAAAATAT
853619 AAAAAT
1 AAAAAT
853625 CTTTGGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATATAAAAATAT
Found at i:853615 original size:8 final size:8
Alignment explanation
Indices: 853586--853624 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
853576 ATTTTCAAAC
853586 AAAAATAT
1 AAAAATAT
* *
853594 ATATATAT
1 AAAAATAT
853602 ATAAAATAT
1 A-AAAATAT
853611 AAAAATAT
1 AAAAATAT
853619 AAAAAT
1 AAAAAT
853625 CTTTGGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:859365 original size:50 final size:50
Alignment explanation
Indices: 859268--859365 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 50
859258 TGATTTAACC
*
859268 ATTAAACCACAAAATCAAATCTTAGATTCTCAAAATTAAGATTTTCAATT
1 ATTAAACCACAAAATCAAATCTTAGATTCTCAAAATTAAGATATTCAATT
* *** *
859318 ATTAAACCACAAAATCAAATCTTTGATTCTTTGAATTTAGATATTCAA
1 ATTAAACCACAAAATCAAATCTTAGATTCTCAAAATTAAGATATTCAA
859366 ATTCTAACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (50 bp):
ATTAAACCACAAAATCAAATCTTAGATTCTCAAAATTAAGATATTCAATT
Found at i:860945 original size:27 final size:25
Alignment explanation
Indices: 860915--860968 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
860905 TCATCATCCT
*
860915 TTATTACTCATTTCTTTTCTCTTGTAG
1 TTATTACTCAGTTCTTTT-TCTT-TAG
* *
860942 TTATTTCTTAGTTCTTTTTCTTTAG
1 TTATTACTCAGTTCTTTTTCTTTAG
860967 TT
1 TT
860969 TTATTTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 4 0.17
27 15 0.62
ACGTcount: A:0.13, C:0.15, G:0.07, T:0.65
Consensus pattern (25 bp):
TTATTACTCAGTTCTTTTTCTTTAG
Found at i:863195 original size:26 final size:28
Alignment explanation
Indices: 863150--863202 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
863140 TTTGAAAAAT
*
863150 AATTTTCTTGATTTTTTTATTTATTATA
1 AATTTTCTTGATTTATTTATTTATTATA
863178 AATTTT-TT-ATTTATTTATTTATTAT
1 AATTTTCTTGATTTATTTATTTATTAT
863203 TTATTGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 2 0.08
28 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
AATTTTCTTGATTTATTTATTTATTATA
Found at i:863469 original size:21 final size:21
Alignment explanation
Indices: 863434--863485 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
863424 CGATGCACAT
*
863434 ATTTTA-TTCTTGTTTTAGAA
1 ATTTTATTTATTGTTTTAGAA
**
863454 ATTTTATTTATTGTTTTATTA
1 ATTTTATTTATTGTTTTAGAA
863475 ATTTT-TTTATT
1 ATTTTATTTATT
863486 TTTAATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
ATTTTATTTATTGTTTTAGAA
Found at i:863498 original size:21 final size:23
Alignment explanation
Indices: 863451--863500 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
863441 TCTTGTTTTA
*
863451 GAAATTTTATTTATTGTTTTATT
1 GAAATTTTATTTATTGTTTAATT
863474 --AATTTT-TTTATT-TTTAATT
1 GAAATTTTATTTATTGTTTAATT
863493 GAAATTTT
1 GAAATTTT
863501 GAAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 6 0.25
20 6 0.25
21 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
GAAATTTTATTTATTGTTTAATT
Found at i:864850 original size:23 final size:23
Alignment explanation
Indices: 864820--864863 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
864810 TAAAGCTTTC
864820 TGGGATTCGAATCCCATATTTTA
1 TGGGATTCGAATCCCATATTTTA
864843 TGGGATTCGAATCCCATATTT
1 TGGGATTCGAATCCCATATTT
864864 CAACACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (23 bp):
TGGGATTCGAATCCCATATTTTA
Found at i:865303 original size:18 final size:18
Alignment explanation
Indices: 865251--865329 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
865241 AATTTTTGTC
* *
865251 CAAAAAAAATAAATAAAAA
1 CAAAAATAATAAA-AAATA
* * *
865270 CAATAATATTACAAAATA
1 CAAAAATAATAAAAAATA
865288 CAAAATATAA-AAAAAATA
1 CAAAA-ATAATAAAAAATA
*
865306 CCAAAAATAATACAAAATA
1 -CAAAAATAATAAAAAATA
865325 CAAAA
1 CAAAA
865330 CAAAAAAATC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
18 24 0.50
19 24 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.16
Consensus pattern (18 bp):
CAAAAATAATAAAAAATA
Found at i:865334 original size:22 final size:23
Alignment explanation
Indices: 865308--865359 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
865298 AAAAAATACC
*
865308 AAAAATAAT-ACAAAATACAAAA
1 AAAAATAATCAAAAAATACAAAA
865330 CAAAAA-AATCAAAAAATACAAAA
1 -AAAAATAATCAAAAAATACAAAA
865353 AAAAATA
1 AAAAATA
865360 GAAGACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAAATAATCAAAAAATACAAAA
Found at i:865343 original size:8 final size:9
Alignment explanation
Indices: 865282--865354 Score: 57
Period size: 9 Copynumber: 8.4 Consensus size: 9
865272 ATAATATTAC
865282 AAAATACAA
1 AAAATACAA
* *
865291 AATATAAAA
1 AAAATACAA
*
865300 AAAATACCA
1 AAAATACAA
865309 AAAATA-ATA
1 AAAATACA-A
865318 CAAAATAC--
1 -AAAATACAA
*
865326 AAAACA-AA
1 AAAATACAA
865334 AAAAT-CAA
1 AAAATACAA
865342 AAAATACAA
1 AAAATACAA
865351 AAAA
1 AAAA
865355 AAATAGAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
7 5 0.10
8 11 0.22
9 27 0.55
10 6 0.12
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATACAA
Found at i:865359 original size:12 final size:11
Alignment explanation
Indices: 865289--865356 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
865279 TACAAAATAC
*
865289 AAAATATAAAA
1 AAAATACAAAA
865300 AAAATACCAAAA
1 AAAATA-CAAAA
*
865312 ATAATACAAAA
1 AAAATACAAAA
865323 TACAAA-AC-AAA
1 -A-AAATACAAAA
865334 AAAAT-C--AA
1 AAAATACAAAA
865342 AAAATACAAAA
1 AAAATACAAAA
865353 AAAA
1 AAAA
865357 ATAGAAGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
8 7 0.15
9 5 0.11
10 1 0.02
11 20 0.43
12 12 0.26
13 2 0.04
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:866409 original size:22 final size:23
Alignment explanation
Indices: 866383--866425 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
866373 TTTTTTATGC
*
866383 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
866405 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
866426 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:869620 original size:9 final size:9
Alignment explanation
Indices: 869606--869703 Score: 69
Period size: 9 Copynumber: 10.8 Consensus size: 9
869596 TTTGCTTTAA
*
869606 AAAAAAAGC
1 AAAAAAATC
869615 AAAAAAAATC
1 -AAAAAAATC
869625 --AAAAATC
1 AAAAAAATC
869632 AAAAAAATC
1 AAAAAAATC
869641 AAAAAAATC
1 AAAAAAATC
869650 -AAAAAAT-
1 AAAAAAATC
* *
869657 AAATAAATA
1 AAAAAAATC
*
869666 AATAAAAATAA
1 AA-AAAAAT-C
*
869677 ATAAAAAATGA
1 A-AAAAAAT-C
*
869688 AAAAAAATG
1 AAAAAAATC
869697 AAAAAAA
1 AAAAAAA
869704 AATGAAAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
7 7 0.09
8 13 0.17
9 25 0.33
10 20 0.26
11 10 0.13
12 1 0.01
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:869635 original size:25 final size:25
Alignment explanation
Indices: 869606--869654 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
869596 TTTGCTTTAA
869606 AAAAAAAGCAAAAAAAATCAAAAATC
1 AAAAAAAGC-AAAAAAATCAAAAATC
*
869632 AAAAAAATCAAAAAAATCAAAAA
1 AAAAAAAGCAAAAAAATCAAAAA
869655 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.80, C:0.10, G:0.02, T:0.08
Consensus pattern (25 bp):
AAAAAAAGCAAAAAAATCAAAAATC
Found at i:869636 original size:18 final size:18
Alignment explanation
Indices: 869615--869694 Score: 83
Period size: 18 Copynumber: 4.4 Consensus size: 18
869605 AAAAAAAAGC
*
869615 AAAAAAAATCAAAAATCA
1 AAAAAAAATAAAAAATCA
*
869633 AAAAAATCA-AAAAAATCA
1 AAAAAA-AATAAAAAATCA
869651 AAAAATAAATAAATAAAT-A
1 AAAAA-AAATAAA-AAATCA
* *
869670 AAAATAAATAAAAAATGA
1 AAAAAAAATAAAAAATCA
869688 AAAAAAA
1 AAAAAAA
869695 TGAAAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.08
18 34 0.65
19 10 0.19
20 4 0.08
ACGTcount: A:0.80, C:0.05, G:0.01, T:0.14
Consensus pattern (18 bp):
AAAAAAAATAAAAAATCA
Found at i:869638 original size:10 final size:10
Alignment explanation
Indices: 869605--869725 Score: 82
Period size: 10 Copynumber: 12.8 Consensus size: 10
869595 TTTTGCTTTA
*
869605 AAAAAAAAGC
1 AAAAAAAATC
869615 AAAAAAAATC
1 AAAAAAAATC
869625 ---AAAAATC
1 AAAAAAAATC
869632 -AAAAAAATC
1 AAAAAAAATC
869641 -AAAAAAATC
1 AAAAAAAATC
869650 --AAAAAAT-
1 AAAAAAAATC
*
869657 -AAATAAAT-
1 AAAAAAAATC
*
869665 AAATAAAAATA
1 AAA-AAAAATC
*
869676 AATAAAAAATG
1 AA-AAAAAATC
*
869687 AAAAAAAATGA
1 AAAAAAAAT-C
*
869698 AAAAAAAATG
1 AAAAAAAATC
*
869708 AAAAAAAATG
1 AAAAAAAATC
869718 AAAAAAAA
1 AAAAAAAA
869726 AAAATGAGAA
Statistics
Matches: 97, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
7 7 0.07
8 13 0.13
9 18 0.19
10 39 0.40
11 19 0.20
12 1 0.01
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:869660 original size:12 final size:11
Alignment explanation
Indices: 869653--869730 Score: 69
Period size: 11 Copynumber: 7.4 Consensus size: 11
869643 AAAAATCAAA
869653 AAATAAATAAAT
1 AAATAAA-AAAT
869665 AAAT-AAAAAT
1 AAATAAAAAAT
869675 AAATAAAAAAT
1 AAATAAAAAAT
*
869686 GAA-AAAAAAT
1 AAATAAAAAAT
869696 GAAA-AAAAAAT
1 -AAATAAAAAAT
*
869707 GAA-AAAAAAT
1 AAATAAAAAAT
869717 GAAA-AAAAAA-
1 -AAATAAAAAAT
869727 AAAT
1 AAAT
869731 GAGAAAGGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
9 3 0.05
10 24 0.41
11 27 0.47
12 4 0.07
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:869690 original size:7 final size:7
Alignment explanation
Indices: 869617--869713 Score: 56
Period size: 8 Copynumber: 12.9 Consensus size: 7
869607 AAAAAAGCAA
869617 AAAAAAT
1 AAAAAAT
*
869624 CAAAAAT
1 AAAAAAT
869631 CAAAAAAAT
1 --AAAAAAT
869640 CAAAAAAAT
1 --AAAAAAT
869649 CAAAAAAT
1 -AAAAAAT
869657 AAATAAAT
1 AAA-AAAT
869665 AAATAAA-
1 AAA-AAAT
*
869672 AATAAAT
1 AAAAAAT
869679 AAAAAAT
1 AAAAAAT
869686 GAAAAAA-
1 -AAAAAAT
*
869693 AATGAAA-
1 AA-AAAAT
869700 AAAAAAT
1 AAAAAAT
869707 GAAAAAA
1 -AAAAAA
869714 AATGAAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
6 8 0.11
7 22 0.29
8 30 0.40
9 15 0.20
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:869693 original size:21 final size:22
Alignment explanation
Indices: 869653--869727 Score: 102
Period size: 21 Copynumber: 3.5 Consensus size: 22
869643 AAAAATCAAA
869653 AAATAAATAAAT-AAATAAAAAT-
1 AAATAAA-AAATGAAA-AAAAATG
869675 AAATAAAAAATGAAAAAAAATG
1 AAATAAAAAATGAAAAAAAATG
869697 AAA-AAAAAATGAAAAAAAATG
1 AAATAAAAAATGAAAAAAAATG
*
869718 AAAAAAAAAA
1 AAATAAAAAA
869728 AATGAGAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
21 31 0.62
22 19 0.38
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.13
Consensus pattern (22 bp):
AAATAAAAAATGAAAAAAAATG
Found at i:869711 original size:9 final size:9
Alignment explanation
Indices: 869625--869724 Score: 69
Period size: 9 Copynumber: 10.6 Consensus size: 9
869615 AAAAAAAATC
*
869625 AAAAATCAA
1 AAAAATGAA
*
869634 AAAAATCAA
1 AAAAATGAA
*
869643 AAAAAT-CA
1 AAAAATGAA
869651 AAAAAT-AA
1 AAAAATGAA
* *
869659 ATAAATAAA
1 AAAAATGAA
*
869668 TAAAAATAAATA
1 -AAAAAT-GA-A
869680 AAAAATGAAA
1 AAAAATG-AA
869690 AAAAATGAAAA
1 AAAAATG--AA
869701 AAAAATGAAA
1 AAAAATG-AA
869711 AAAAATGAA
1 AAAAATGAA
869720 AAAAA
1 AAAAA
869725 AAAAATGAGA
Statistics
Matches: 80, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
8 13 0.16
9 24 0.30
10 23 0.29
11 19 0.24
12 1 0.01
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (9 bp):
AAAAATGAA
Found at i:870800 original size:35 final size:35
Alignment explanation
Indices: 870755--871302 Score: 150
Period size: 38 Copynumber: 15.0 Consensus size: 35
870745 TCCCGACTTG
870755 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
1 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
* * * * * * *
870790 TGGTTTAATCCCGGTCATTTCATTAATTCTCTGACTTA
1 CGGTTCAATCCCAGTCA--TCTTTAGTT-TTTGACTCA
* *
870828 CGGTTCAATCCCAGTCATCTTTAGTCTTTGACTCG
1 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
* * * ** **
870863 CGGTTTAATCCC-GATCATTTCATTAATTCTCCGACTTG
1 CGGTTCAATCCCAG-TCA--TCTTTAGTT-TTTGACTCA
* * * * * *
870901 TGGTTCAGTCCCAGTCATCTTTAATTTCCTAACTCG
1 CGGTTCAATCCCAGTCATCTTTAGTTT-TTGACTCA
* * * * * **
870937 CGGTTTAATCCC-GATTATTTCATTAATTCTCTGACTTG
1 CGGTTCAATCCCAG-TCA--TCTTTAGTT-TTTGACTCA
* * * * *
870975 TGGTTCAATTCCAGTCATCTTTAATTCTCTGACTCG
1 CGGTTCAATCCCAGTCATCTTTAGTT-TTTGACTCA
* * ** * * * **
871011 CGGTTTAATTCTGGTCATTTCCTTAATCTTTGACTTG
1 CGGTTCAATCCCAGTCA--TCTTTAGTTTTTGACTCA
* ** *
871048 CGGTTCAATCCCAGTCATCTTTAATCCTTGACTCG
1 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
* * * * **
871083 CGGTTTAATCCC-GATCATTTCATTAATTCTCTGACTTG
1 CGGTTCAATCCCAG-TCA--TCTTTAGTT-TTTGACTCA
* * * ** * *
871121 CGGTTCAGTCCCAGTCATTTTTAATCCTCGACTCG
1 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
* * * *
871156 CAGTTTAATCCC-GATCATTTCATTAATTTTCTGACTCA
1 CGGTTCAATCCCAG-TCA--TCTTTAGTTTT-TGACTCA
*
871194 CGGTTCAATCCCAATCATCTTTAGTTTTTGACTCA
1 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
* * * ** * * * *
871229 TGATTTAATCCTGGTCATTTCATTAATTCTCTGACTTA
1 CGGTTCAATCCCAGTCA--TCTTTAGTT-TTTGACTCA
* *
871267 CGGTTCAATCCCAATCATCTTTAGTCTTTGACTCA
1 CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
871302 C
1 C
871303 AATTTAATCC
Statistics
Matches: 376, Mismatches: 108, Indels: 58
0.69 0.20 0.11
Matches are distributed among these distances:
34 3 0.01
35 108 0.29
36 81 0.22
37 54 0.14
38 126 0.34
39 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (35 bp):
CGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCA
Found at i:870868 original size:73 final size:73
Alignment explanation
Indices: 870749--872372 Score: 1778
Period size: 73 Copynumber: 22.4 Consensus size: 73
870739 ATAGTCTCCC
* * ** *
870749 GACTTGCGGTTCAATCCCAGTCATCTTTAGTTTTTGACTCATGGTTTAATCCCGGTCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
870814 AATTCTCT
66 AATTCTCT
* *
870822 GACTTACGGTTCAATCCCAGTCATCTTTAGTCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
*
870887 AATTCTCC
66 AATTCTCT
* * * *
870895 GACTTGTGGTTCAGTCCCAGTCATCTTTAAT-TTCCTAACTCGCGGTTTAATCCCGATTATTTCA
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTT--TGACTCGCGGTTTAATCCCGATCATTTCA
870959 TTAATTCTCT
64 TTAATTCTCT
* * * * * * *
870969 GACTTGTGGTTCAATTCCAGTCATCTTTAATTCTCTGACTCGCGGTTTAATTCTGGTCATTTCCT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAA-TCTTTGACTCGCGGTTTAATCCCGATCATTTCAT
*
871034 TAA-TCTTT
65 TAATTCTCT
*
871042 GACTTGCGGTTCAATCCCAGTCATCTTTAATCCTTGACTCGCGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871107 AATTCTCT
66 AATTCTCT
* * * * *
871115 GACTTGCGGTTCAGTCCCAGTCATTTTTAATCCTCGACTCGCAGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
*
871180 AATTTTCT
66 AATTCTCT
** * * * ** * * *
871188 GACTCACGGTTCAATCCCAATCATCTTTAGTTTTTGACTCATGATTTAATCCTGGTCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871253 AATTCTCT
66 AATTCTCT
* * * * **
871261 GACTTACGGTTCAATCCCAATCATCTTTAGTCTTTGACTCACAATTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871326 AATTCT-T
66 AATTCTCT
** * * *
871333 CGACTTATGGTTTAGTCCCAGTCATCTTTAAT-TTCCTAACTCGCGGTTTAATCCCGATCATTTC
1 -GACTTGCGGTTCAATCCCAGTCATCTTTAATCTT--TGACTCGCGGTTTAATCCCGATCATTTC
871397 ATTAATTCTCT
63 ATTAATTCTCT
* * * * * * * *
871408 GACTTGTGGTTCAATTCCAGTCATCTTTAATTCTCTAACTCGCGGTTTAATTCTGGTC-TTTCCT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAA-TCTTTGACTCGCGGTTTAATCCCGATCATTTCAT
*
871472 TAA-TCTTT
65 TAATTCTCT
* *
871480 GACTTGCGGTTCAATCCCAGTCATCTTTAATCCTTGACTCACGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871545 AATTCTCT
66 AATTCTCT
* * * * *
871553 GACTTGCGGTTCAGTCCCAATCATTTTTAATCCTCGACTCGCGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871618 AATTCTCT
66 AATTCTCT
* * * * *
871626 GACTTGTGGTTCAGTCCCAATCATCTTT-ATCCTTTGACTCGCGGTTTAACCCCGATCGTTTCAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAAT-CTTTGACTCGCGGTTTAATCCCGATCATTTCAT
871690 TAATTCTCT
65 TAATTCTCT
* * ** * * * *
871699 AACTTGCGATTCTGTCCCAGTCATTTTTAACCCTTGACTCGCGGTTTAATCCCGATCATTTTATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
*
871764 ATTTCTCT
66 AATTCTCT
* * * * *
871772 GACTTTCGGTTCAATCCTAGTCACCTTTAATTTTTGACTCGCGGTTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
*
871837 AATTTTCT
66 AATTCTCT
* ** * * *
871845 AACTCACAGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCA-TT-A-T
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871907 --TTCTCT
66 AATTCTCT
* * * *
871913 GACTTACGGTTCAATCACAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTCGATCA-TT-ATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
871976 --TT-TCT
66 AATTCTCT
* * *
871981 GACTTGGGGCTCAATCCCAGTCATCTTTAATCTTTGACTCGCAGTTTAATCCC-AGTCATTTCAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGA-TCATTTCAT
*
872045 T-ATTCCTTT
65 TAATT-CTCT
* * * * * *
872054 GACTTGCGATTCAGTTCCAGTCATCTTTAA-CATTTGACTCGTGGTTTAATCCTGATCATTTTAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATC-TTTGACTCGCGGTTTAATCCCGATCATTTCAT
*
872118 TAATTTTCT
65 TAATTCTCT
* * *
872127 GACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
872192 AATGTC-CT
66 AAT-TCTCT
* * * * * *
872200 AACTTACGGTTTAGTCCCAGTCATTTTTAATCTTT-AGCTCGTGGTTTAATCCCGATCATTTCAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGA-CTCGCGGTTTAATCCCGATCATTTCAT
872264 TAATT-TCCT
65 TAATTCT-CT
* * * * * * * *
872273 CGATTTACGATTCAGTCCCAGTCATCGTTAATATTTGATTCGTGGTTTAATCCCGATC--TTC-T
1 -GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCAT
*
872335 T-ATTCTTT
65 TAATTCTCT
872343 GA-TTCGCGGTTCAATCCC-GATC-TCTTTAAT
1 GACTT-GCGGTTCAATCCCAG-TCATCTTTAAT
872373 TTAAAATCGT
Statistics
Matches: 1331, Mismatches: 185, Indels: 75
0.84 0.12 0.05
Matches are distributed among these distances:
67 1 0.00
68 122 0.09
69 19 0.01
70 8 0.01
71 26 0.02
72 86 0.06
73 839 0.63
74 224 0.17
75 4 0.00
76 2 0.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (73 bp):
GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
AATTCTCT
Found at i:871051 original size:37 final size:38
Alignment explanation
Indices: 870791--872268 Score: 662
Period size: 35 Copynumber: 40.7 Consensus size: 38
870781 TTTGACTCAT
**
870791 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTTAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
870829 GGTTCAATCCCAGTCA--TC-TTTAGTCTTTGACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
870864 GGTTTAATCCCGATCATTTCATTAATTCTCCGACTTGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
870902 GGTTCAGTCCCAGTCA--TCTTTAATT-TCCTAACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCT-CTGACTCGC
* * * *
870938 GGTTTAATCCCGATTATTTCATTAATTCTCTGACTTGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
870976 GGTTCAATTCCAGTCA--TCTTTAATTCTCTGACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871012 GGTTTAATTCTGGTCATTTCCTTAA-TCTTTGACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
871049 GGTTCAATCCCAGTCA--TCTTTAATCCT-TGACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* *
871084 GGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
871122 GGTTCAGTCCCAGTCATTT--TTAATCCTC-GACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
871157 AGTTTAATCCCGATCATTTCATTAATTTTCTGACTCAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* ** * * * **
871195 GGTTCAATCCCAATCA--TCTTTAGTT-TTTGACTCAT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * **
871230 GATTTAATCCTGGTCATTTCATTAATTCTCTGACTTAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* ** * * * *
871268 GGTTCAATCCCAATCA--TC-TTTAGTCTTTGACTCAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
** * ***
871303 AATTTAATCCCGATCATTTCATTAATTCT-TCGACTTAT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCT-GACTCGC
* * * *
871341 GGTTTAGTCCCAGTCA--TCTTTAATT-TCCTAACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCT-CTGACTCGC
* * *
871377 GGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871415 GGTTCAATTCCAGTCA--TCTTTAATTCTCTAACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871451 GGTTTAATTCTGGTC-TTTCCTTAA-TCTTTGACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871487 GGTTCAATCCCAGTCA--TCTTTAATCCT-TGACTCAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* *
871522 GGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * ** *
871560 GGTTCAGTCCCAATCATTT--TTAATCCTC-GACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * *
871595 GGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * ** * * *
871633 GGTTCAGTCCCAATCA--TC-TTTATCCTTTGACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871668 GGTTTAACCCCGATCGTTTCATTAATTCTCTAACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * **
871706 GATTCT-GTCCCAGTCATTT--TTAACCCT-TGACTCGC
1 GGTT-TAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * **
871741 GGTTTAATCCCGATCATTTTATTATTTCTCTGACTTTC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* ** * * *
871779 GGTTCAATCCTAGTCA--CCTTTAATT-TTTGACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871814 GGTTTAATCTCGATCATTTCATTAATTTTCTAACTCAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * * *
871852 AGTTCAATCCCAGTCA--TCTTTAA-TCTTTGACTCGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
**
871887 GGTTTAATCCCGGTCA-TT-A-T--TTCTCTGACTTAC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * * *
871920 GGTTCAATCACAGTCA--TCTTTAA-TCTTTGACTCGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
871955 GGTTTAATCTCGATCA-TT-ATT--TT-TCTGACTTGG
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
871988 GGCTCAATCCCAGTCA--TCTTTAA-TCTTTGACTCGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * *
872023 AGTTTAATCCCAGTCATTTCATT-ATTCCTTTGACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATT-CTCTGACTCGC
* * * * * * * *
872061 GATTCAGTTCCAGTCA--TCTTTAA--CATTTGACTCGT
1 GGTTTAATCCCGGTCATTTCATTAATTC-TCTGACTCGC
* * * * *
872096 GGTTTAATCCTGATCATTTTATTAATTTTCTGACTTGC
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * * * *
872134 GGTTTAGTCCCAGTCA--TCTTTAA-TCTTTGACTCGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
* * **
872169 GGTTTAATCCCGATCATTTCATTAATGTC-CTAACTTAC
1 GGTTTAATCCCGGTCATTTCATTAAT-TCTCTGACTCGC
* * * *
872207 GGTTTAGTCCCAGTCATTT--TTAA-TCT-TTAGCTCGT
1 GGTTTAATCCCGGTCATTTCATTAATTCTCTGA-CTCGC
*
872242 GGTTTAATCCCGATCATTTCATTAATT
1 GGTTTAATCCCGGTCATTTCATTAATT
872269 TCCTCGATTT
Statistics
Matches: 1036, Mismatches: 324, Indels: 160
0.68 0.21 0.11
Matches are distributed among these distances:
32 2 0.00
33 41 0.04
34 10 0.01
35 342 0.33
36 192 0.19
37 109 0.11
38 335 0.32
39 5 0.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (38 bp):
GGTTTAATCCCGGTCATTTCATTAATTCTCTGACTCGC
Found at i:872816 original size:9 final size:8
Alignment explanation
Indices: 872804--872842 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
872794 ATACAAAACA
872804 AAAAAATC
1 AAAAAATC
872812 AAAAAATC
1 AAAAAATC
872820 AAAAAATC
1 AAAAAATC
872828 AAAAAATAC
1 AAAAAAT-C
872837 AAAAAA
1 AAAAAA
872843 AATAGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATC
Found at i:872826 original size:31 final size:31
Alignment explanation
Indices: 872761--872833 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
872751 ACAAAATATG
* *
872761 AAATACAAAAAAAAATACCAAAAATAATACA
1 AAATACAAAAAAAAAAACCAAAAATAATAAA
*
872792 AAATACAAAACAAAAAAATC-AAAA-AATCAAA
1 AAATACAAAA-AAAAAAACCAAAAATAAT-AAA
872823 AAAT-CAAAAAA
1 AAATACAAAAAA
872834 TACAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.05
30 8 0.22
31 20 0.54
32 7 0.19
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.11
Consensus pattern (31 bp):
AAATACAAAAAAAAAAACCAAAAATAATAAA
Found at i:872854 original size:12 final size:11
Alignment explanation
Indices: 872761--872856 Score: 56
Period size: 12 Copynumber: 8.3 Consensus size: 11
872751 ACAAAATATG
872761 AAATACAAAAAA
1 AAATAC-AAAAA
872773 AAATACCAAAAA
1 AAATA-CAAAAA
*
872785 TAATACAAAATA
1 AAATACAAAA-A
872797 CAAA-AC-AAAA
1 -AAATACAAAAA
872807 AAAT-CAAAAA
1 AAATACAAAAA
*
872817 ATCAA-AAAATCAAA
1 A--AATACAA--AAA
872831 AAATACAAAAA
1 AAATACAAAAA
*
872842 AAATAGAAGAAA
1 AAATACAA-AAA
872854 AAA
1 AAA
872857 AAATTAAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 24
0.70 0.05 0.25
Matches are distributed among these distances:
9 4 0.06
10 6 0.09
11 18 0.27
12 29 0.43
13 6 0.09
14 4 0.06
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.10
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:873757 original size:22 final size:23
Alignment explanation
Indices: 873731--873773 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
873721 TTTTTTATGC
*
873731 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
873753 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
873774 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:875831 original size:3 final size:3
Alignment explanation
Indices: 875823--875874 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
875813 TTCATCTTAC
875823 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
875871 AAT A
1 AAT A
875875 TAACATTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:876954 original size:20 final size:21
Alignment explanation
Indices: 876907--876988 Score: 75
Period size: 20 Copynumber: 4.1 Consensus size: 21
876897 TATATATATA
* *
876907 TATTTTT-TTTTTCTTCATTT
1 TATTTTTATTTTTATTTATTT
*
876927 TATTTTTATTTTTATTTTTTT
1 TATTTTTATTTTTATTTATTT
**
876948 TA-TTTTA-CATT-TTTATTT
1 TATTTTTATTTTTATTTATTT
*
876966 TATTTTTATTGTTA-TTATTT
1 TATTTTTATTTTTATTTATTT
876986 TAT
1 TAT
876989 ATATGTATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.16
19 7 0.14
20 23 0.46
21 12 0.24
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (21 bp):
TATTTTTATTTTTATTTATTT
Found at i:876959 original size:22 final size:22
Alignment explanation
Indices: 876923--876971 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
876913 TTTTTTCTTC
*
876923 ATTTTATTTTTATTTTTATTTT
1 ATTTTATTTTCATTTTTATTTT
876945 -TTTTATTTTACATTTTTATTTT
1 ATTTTATTTT-CATTTTTATTTT
876967 ATTTT
1 ATTTT
876972 TATTGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 4 0.17
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (22 bp):
ATTTTATTTTCATTTTTATTTT
Found at i:876959 original size:33 final size:33
Alignment explanation
Indices: 876907--877019 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 33
876897 TATATATATA
876907 TATTTTTTTT-TTCTT-CATTTTATTTTTATTTT
1 TATTTTTTTTATT-TTACATTTTATTTTTATTTT
876939 TATTTTTTTTATTTTACATTTT-TATTTTATTTT
1 TATTTTTTTTATTTTACATTTTAT-TTTTATTTT
* * * * * *
876972 TATTGTTATTATTTTATATATGTATATATATTTT
1 TATTTTTTTTATTTTACAT-TTTATTTTTATTTT
*
877006 TCTTTTCTTTTATT
1 TATTTT-TTTTATT
877020 ATTATTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
32 13 0.20
33 33 0.50
34 13 0.20
35 7 0.11
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (33 bp):
TATTTTTTTTATTTTACATTTTATTTTTATTTT
Found at i:876965 original size:6 final size:6
Alignment explanation
Indices: 876924--876981 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
876914 TTTTTCTTCA
*
876924 TTTTAT TTTTAT TTTTA- -TTT-T TTTTAT TTTACAT TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT
*
876969 TTTTAT TGTTAT T
1 TTTTAT TTTTAT T
876982 ATTTTATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 3 0.07
5 8 0.18
6 28 0.64
7 5 0.11
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:876972 original size:26 final size:26
Alignment explanation
Indices: 876907--876972 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
876897 TATATATATA
*
876907 TATTTTTTTTTTCTTCATTTTATTTT
1 TATTTTATTTTTCTTCATTTTATTTT
*
876933 TATTTTTATTTTT-TTTATTTTACATTTT
1 TA-TTTTATTTTTCTTCATTTT--ATTTT
876961 TATTTTATTTTT
1 TATTTTATTTTT
876973 ATTGTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 9 0.26
27 19 0.54
28 7 0.20
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (26 bp):
TATTTTATTTTTCTTCATTTTATTTT
Found at i:877148 original size:22 final size:23
Alignment explanation
Indices: 877107--877171 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
877097 TTTTTCCCTG
877107 TTAATATTTATATATTATCTGTT-AT
1 TTAAT-TTTA-AT-TTATCTGTTAAT
877132 TTAATTTTAATTTATCTGTTAAT
1 TTAATTTTAATTTATCTGTTAAT
* *
877155 TT-TTTTTGATTTATCTG
1 TTAATTTTAATTTATCTG
877172 ATTTATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 22 0.59
23 6 0.16
24 4 0.11
25 5 0.14
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (23 bp):
TTAATTTTAATTTATCTGTTAAT
Found at i:877186 original size:24 final size:22
Alignment explanation
Indices: 877121--877190 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
877111 TATTTATATA
* *
877121 TTATCTGTT-ATTTAATTTTAAT
1 TTATCTGTTAATTT-TTTTTGAT
877143 TTATCTGTTAATTTTTTTTGAT
1 TTATCTGTTAATTTTTTTTGAT
*
877165 TTATCTGATTTATTTTTGTTTGAT
1 TTATCTG-TTAATTTTT-TTTGAT
877189 TT
1 TT
877191 TTCTTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
22 22 0.52
23 12 0.29
24 8 0.19
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (22 bp):
TTATCTGTTAATTTTTTTTGAT
Found at i:878037 original size:4 final size:4
Alignment explanation
Indices: 878025--878063 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
878015 AGGTTTTTTT
* *
878025 TTTA ATTA TTTA TTTA TTTG TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
878064 TATCTATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:878111 original size:11 final size:11
Alignment explanation
Indices: 878095--878153 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
878085 TTAATATTCT
878095 TTTTATCTTTA
1 TTTTATCTTTA
*
878106 TTTTATTTTTA
1 TTTTATCTTTA
*
878117 TTTT-TGTTTTA
1 TTTTAT-CTTTA
*
878128 CTTT-TCTTTA
1 TTTTATCTTTA
878138 TTTTAT-TTTA
1 TTTTATCTTTA
878148 TTTTAT
1 TTTTAT
878154 TTTTTCATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 18 0.43
11 24 0.57
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:878112 original size:5 final size:5
Alignment explanation
Indices: 878095--878194 Score: 73
Period size: 5 Copynumber: 19.4 Consensus size: 5
878085 TTAATATTCT
* *
878095 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
* *
878143 TTTTA TTTTA -TTT- TTTCA TTTCTA -TTTA TTTTCA CTTTTA TTTTG
1 TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTT-A -TTTTA TTTTA
878188 TTTTA TT
1 TTTTA TT
878195 ATTCTATTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
4 10 0.13
5 41 0.53
6 22 0.29
7 4 0.05
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:878371 original size:59 final size:60
Alignment explanation
Indices: 878220--878374 Score: 262
Period size: 60 Copynumber: 2.6 Consensus size: 60
878210 AATAAAAATA
* * *
878220 AAAAAAAT--ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC
1 AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
878278 AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
878338 -AAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAA
1 AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAA
878375 CTACAGTGCT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
58 8 0.09
59 37 0.40
60 47 0.51
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (60 bp):
AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:878373 original size:27 final size:27
Alignment explanation
Indices: 878284--878374 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
878274 TTTCAAAAAA
878284 ATCAATTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTTGAGGAAAAGTTGAAAGT
* ** * * **
878311 ATCAATTTTCCTTAAAAATAAAATTTCAAAAA
1 ATCAA-TTT--TT--GAGGAAAAGTTGAAAGT
878343 ATCAATTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTTGAGGAAAAGTTGAAAGT
878370 ATCAA
1 ATCAA
878375 CTACAGTGCT
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
27 20 0.44
28 3 0.07
29 2 0.04
30 2 0.04
31 3 0.07
32 15 0.33
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (27 bp):
ATCAATTTTTGAGGAAAAGTTGAAAGT
Found at i:884614 original size:8 final size:8
Alignment explanation
Indices: 884567--884653 Score: 74
Period size: 7 Copynumber: 10.8 Consensus size: 8
884557 CTATGCTTGA
884567 AAAAAATAG
1 AAAAAAT-G
*
884576 AAAAAAAAG
1 -AAAAAATG
*
884585 GAAAAAT-
1 AAAAAATG
884592 AAAAAGATAG
1 AAAAA-AT-G
884602 AAAAAATG
1 AAAAAATG
884610 -AAAAATG
1 AAAAAATG
884617 -AAAAATG
1 AAAAAATG
*
884624 -AAAAATAA
1 AAAAAAT-G
884632 AAAAAATG
1 AAAAAATG
884640 AAAAAATG
1 AAAAAATG
884648 AAAAAA
1 AAAAAA
884654 AAAAGTGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
7 24 0.36
8 22 0.33
9 9 0.14
10 11 0.17
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:884620 original size:31 final size:32
Alignment explanation
Indices: 884578--884665 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 32
884568 AAAAATAGAA
*
884578 AAAAAAGGAAAAATAAAAAGATAGAAAAAATG
1 AAAAAATGAAAAATAAAAAGATAGAAAAAATG
* *
884610 -AAAAATGAAAAATGAAAA-ATAAAAAAAATG
1 AAAAAATGAAAAATAAAAAGATAGAAAAAATG
884640 AAAAAATGAAAAA-AAAAAG-T-GAAAAA
1 AAAAAATGAAAAATAAAAAGATAGAAAAA
884666 GGAGGACTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
29 5 0.10
30 16 0.33
31 28 0.57
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (32 bp):
AAAAAATGAAAAATAAAAAGATAGAAAAAATG
Found at i:884628 original size:38 final size:36
Alignment explanation
Indices: 884587--884665 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 36
884577 AAAAAAAGGA
*
884587 AAAAT-AAAAAGATAGAAAAAATGAAAAATGAAAAATGA
1 AAAATAAAAAAAAT-GAAAAAATGAAAAA--AAAAATGA
884625 AAAATAAAAAAAATGAAAAAATGAAAAAAAAAAGTGA
1 AAAATAAAAAAAATGAAAAAATGAAAAAAAAAA-TGA
884662 AAAA
1 AAAA
884666 GGAGGACTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
36 5 0.13
37 7 0.18
38 19 0.50
39 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (36 bp):
AAAATAAAAAAAATGAAAAAATGAAAAAAAAAATGA
Found at i:884636 original size:23 final size:23
Alignment explanation
Indices: 884567--884657 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 23
884557 CTATGCTTGA
884567 AAAAAATAGAAAAAAAAGGAAAAAT-
1 AAAAAAT-GAAAAAAAA--AAAAATG
**
884592 AAAAAGATAGAAAAAATGAAAAATG
1 AAAAA-AT-GAAAAAAAAAAAAATG
884617 -AAAAATGAAAAATAAAAAAAATG
1 AAAAAATGAAAAA-AAAAAAAATG
884640 AAAAAATGAAAAAAAAAA
1 AAAAAATGAAAAAAAAAA
884658 GTGAAAAAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
22 6 0.10
23 15 0.26
24 22 0.38
25 5 0.09
26 10 0.17
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.10
Consensus pattern (23 bp):
AAAAAATGAAAAAAAAAAAAATG
Found at i:884662 original size:13 final size:12
Alignment explanation
Indices: 884566--884665 Score: 73
Period size: 11 Copynumber: 8.2 Consensus size: 12
884556 ACTATGCTTG
*
884566 AAAAAAAT-AGA
1 AAAAAAATGAAA
*
884577 AAAAAAAGGAAA
1 AAAAAAATGAAA
*
884589 AATAAAAA-GATA
1 AA-AAAAATGAAA
*
884601 GAAAAAATGAAA
1 AAAAAAATGAAA
884613 AATGAAAAATGAAA
1 AA--AAAAATGAAA
884627 AATAAAAA--AAA
1 AA-AAAAATGAAA
*
884638 TGAAAAAATGAAA
1 -AAAAAAATGAAA
884651 AAAAAAAGTGAAA
1 AAAAAAA-TGAAA
884664 AA
1 AA
884666 GGAGGACTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
11 20 0.28
12 19 0.27
13 20 0.28
14 12 0.17
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (12 bp):
AAAAAAATGAAA
Found at i:885691 original size:41 final size:41
Alignment explanation
Indices: 885646--885858 Score: 261
Period size: 41 Copynumber: 5.2 Consensus size: 41
885636 CATGATTGTC
* **
885646 AAGGAGCAATTTACTTTTCAAAGT-TTCATAGCCTCTGTTTA
1 AAGGAGCAATTTACTTTTCAAAGTCGTGGT-GCCTCTGTTTA
*
885687 AAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 AAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
*
885728 GAA-TAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTA
1 -AAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
* *
885768 GAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTA
1 AAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
* * * *
885809 GAGGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTA
1 AAGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTA
*
885852 GAGGAGC
1 AAGGAGC
885859 TTTGGTCAAA
Statistics
Matches: 153, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.01
40 36 0.24
41 81 0.53
42 7 0.05
43 28 0.18
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
AAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
Found at i:885766 original size:81 final size:81
Alignment explanation
Indices: 885649--885858 Score: 269
Period size: 81 Copynumber: 2.5 Consensus size: 81
885639 GATTGTCAAG
* * * * *
885649 GAGCAATTTACTTTTCAAAGT-TTCATAGCCTCTGTTTAAAGGAGCAATTTATTTTTCAAAGTCG
1 GAGCAATTTAC-TTTCAAAGTCGTCGT-GCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
885713 TGGTGCCTCTGTTTAGAA
64 TGGTGCCTCTGTTTAGAA
* *
885731 TAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
1 GAGCAATTTACTTTCAAAGTCGTCGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
*
885796 GTGCCTCTGTTTAGAG
66 GTGCCTCTGTTTAGAA
* * *
885812 GAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 GAGCAATTTA--CTT-TCAAAGTCGTCGTGCCTCTGTTTAGAGGAGC
885859 TTTGGTCAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
81 69 0.62
82 12 0.11
83 2 0.02
84 29 0.26
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (81 bp):
GAGCAATTTACTTTCAAAGTCGTCGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
GTGCCTCTGTTTAGAA
Found at i:885879 original size:8 final size:8
Alignment explanation
Indices: 885866--885909 Score: 63
Period size: 8 Copynumber: 5.4 Consensus size: 8
885856 AGCTTTGGTC
885866 AAAACAAA
1 AAAACAAA
885874 AAAACAAA
1 AAAACAAA
885882 AAAACACAA
1 AAAACA-AA
885891 AAAA-ATAA
1 AAAACA-AA
885899 AAAACAAA
1 AAAACAAA
885907 AAA
1 AAA
885910 TGACAATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAACAAA
Found at i:885892 original size:15 final size:15
Alignment explanation
Indices: 885866--885909 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
885856 AGCTTTGGTC
*
885866 AAAACAAAAAAACAAAA
1 AAAAC-AAAAAA-ATAA
885883 AAACACAAAAAAATAA
1 AAA-ACAAAAAAATAA
885899 AAAACAAAAAA
1 AAAACAAAAAA
885910 TGACAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
17 9 0.36
18 2 0.08
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAACAAAAAAATAA
Found at i:886119 original size:6 final size:6
Alignment explanation
Indices: 886104--886231 Score: 54
Period size: 6 Copynumber: 20.2 Consensus size: 6
886094 GTATTTTACG
*
886104 TATT-T TATTAT TATTAT TATGTAT TAATA- TATGTA- TATCT-T TATTTATT
1 TATTAT TATTAT TATTAT TAT-TAT TATTAT TAT-TAT TAT-TAT TA-TTA-T
* *
886153 TATTTATT TGTTAA TATT-T ATATGTAT T-TTATT TATATAGT TATATAT
1 TA-TTA-T TATTAT TATTAT -TAT-TAT TATTA-T TAT-TA-T TAT-TAT
886201 TTATTAT TA-TAT TATTAT TATTAT TATTAT T
1 -TATTAT TATTAT TATTAT TATTAT TATTAT T
886232 TTTTGTAATA
Statistics
Matches: 100, Mismatches: 8, Indels: 29
0.73 0.06 0.21
Matches are distributed among these distances:
5 13 0.13
6 48 0.48
7 16 0.16
8 23 0.23
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (6 bp):
TATTAT
Found at i:886850 original size:20 final size:20
Alignment explanation
Indices: 886813--886851 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
886803 TTCCGACGAA
* * *
886813 AAAACCTAGATTCTGGTGAC
1 AAAACCTAAAATCCGGTGAC
886833 AAAACCTAAAATCCGGTGA
1 AAAACCTAAAATCCGGTGA
886852 ATCTTCAACT
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:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAACCTAAAATCCGGTGAC
Found at i:887200 original size:12 final size:12
Alignment explanation
Indices: 887183--887242 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
887173 TGCTCCAGTT
887183 TTTTTTTTTTAA
1 TTTTTTTTTTAA
*
887195 -TTTTTTTTTCA
1 TTTTTTTTTTAA
*
887206 TTTCTTTGTTT-A
1 TTT-TTTTTTTAA
*
887218 TTTGTTTTTTTTA
1 TTT-TTTTTTTAA
887231 TTTTTTTATTTA
1 TTTTTTT-TTTA
887243 TTAGATTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 10 0.26
12 16 0.41
13 13 0.33
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTTAA
Found at i:887233 original size:25 final size:26
Alignment explanation
Indices: 887196--887244 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
887186 TTTTTTTAAT
*
887196 TTTTTTTTCATTTCTTTGTTTATTTG
1 TTTTTTTTCATTTCTTTATTTATTTG
*
887222 TTTTTTTT-ATTTTTTTATTTATT
1 TTTTTTTTCATTTCTTTATTTATT
887245 AGATTAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (26 bp):
TTTTTTTTCATTTCTTTATTTATTTG
Found at i:887289 original size:17 final size:17
Alignment explanation
Indices: 887267--887318 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
887257 TTTAATATTC
887267 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
887284 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
887301 -CTTT-TCTTTATTTT-
1 TTTTTATCTTTATTTTA
887315 TTTT
1 TTTT
887319 ATTATTCTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 10 0.36
16 3 0.11
17 15 0.54
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:887332 original size:27 final size:26
Alignment explanation
Indices: 887274--887336 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
887264 TTCTTTTTAT
* *
887274 CTTTATTTTATTTTTATTTTTGTTTTA
1 CTTT-TTTTATTTTTATTTTTATTCTA
887301 CTTTTCTTTATTTTT-TTTATTATTCTA
1 CTTTT-TTTATTTTTATTT-TTATTCTA
*
887328 TTTTTTTTA
1 CTTTTTTTA
887337 AATGAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (26 bp):
CTTTTTTTATTTTTATTTTTATTCTA
Found at i:887510 original size:58 final size:57
Alignment explanation
Indices: 887348--887691 Score: 413
Period size: 58 Copynumber: 5.8 Consensus size: 57
887338 ATGAAAATCA
**
887348 AAATTTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAAT
1 AAATTTT-CAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
** *
887407 CAAGGTTTCAAAAAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 -AAATTTTC----AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
887470 AAATTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTTCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
887528 CAAAATTTTC-GAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*** *
887587 AAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAATTTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
887645 AAACTTTC-AAAAAATACTTTTGGGGAAAAGTTGAAAATATCAATTTT
1 AAATTTTCAAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTT
887692 GCCTGCACAA
Statistics
Matches: 248, Mismatches: 24, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
57 39 0.16
58 98 0.40
59 43 0.17
60 16 0.06
62 7 0.03
63 45 0.18
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
AAATTTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:887596 original size:117 final size:115
Alignment explanation
Indices: 887348--887691 Score: 447
Period size: 117 Copynumber: 2.9 Consensus size: 115
887338 ATGAAAATCA
* **
887348 AAATTTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAGGT
1 AAATTTT-CAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAACT
* *
887413 TTCAAAAAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
64 TTC---AAAAAATA-TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
887470 AAATTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
1 AAATTTTCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAACT
* *
887535 TTCGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
64 TTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*** * *
887587 AAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAACTT
1 AAATTTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAACTT
* * *
887651 TCAAAAAATACTTTTGGGGAAAAGTTGAAAATATCAATTTT
65 TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
887692 GCCTGCACAA
Statistics
Matches: 202, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
115 42 0.21
117 83 0.41
118 8 0.04
119 6 0.03
120 3 0.01
121 47 0.23
122 13 0.06
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (115 bp):
AAATTTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAACTTT
CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:893081 original size:147 final size:143
Alignment explanation
Indices: 892788--893131 Score: 474
Period size: 147 Copynumber: 2.4 Consensus size: 143
892778 NNNNNNNNNN
* * *
892788 GGTAGAAAAAAGATAAGTTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTT
1 GGTAGAGAACAGATAA-CTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTT
* *
892853 TGATTCAACTCAAAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAA
65 TGACTCAACTCAAAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCACAAAA
*
892918 CATATTATGATGAA
130 CATATTATGATAAA
* * *
892932 GGTAGAG-ACTGGATAAACTGGTCAAGTTTCTTATGGAAGCAGGGATTGAGCCAGAGAAAATTAT
1 GGTAGAGAAC-AGAT-AACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAG-AAATTAT
* * *
892996 TTTGACTCAACTCAAAGTCATTGAAGGAGATTTAAGCATCCCTATTTCTTGAGGTATCGATCCAC
63 TTTGACTCAACTCAAAGTCAGTG-A-GAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAC
*
893061 AAAACATATTTTGATAAA
126 AAAACATATTATGATAAA
* * *
893079 GGTGGAGAACAGATAAGTAGGTCAAGTTTCCTATGGAAGCAGGGATAGAACCA
1 GGTAGAGAACAGATAACT-GGTCAAGTTTCCTATGGAAGCAGGGATTGAACCA
893132 CGTAGATAGT
Statistics
Matches: 174, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
143 1 0.01
144 45 0.26
145 30 0.17
146 4 0.02
147 92 0.53
148 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (143 bp):
GGTAGAGAACAGATAACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTT
GACTCAACTCAAAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCACAAAAC
ATATTATGATAAA
Found at i:898943 original size:17 final size:17
Alignment explanation
Indices: 898918--898953 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
898908 TGGATTTTTT
*
898918 TATAAAAAAGTTG-CAA
1 TATAAAAAAATTGTCAA
898934 TATAAAAAAATTGTCAA
1 TATAAAAAAATTGTCAA
898951 TAT
1 TAT
898954 TGATGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (17 bp):
TATAAAAAAATTGTCAA
Found at i:899987 original size:19 final size:20
Alignment explanation
Indices: 899959--900001 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
899949 ATTATTTAAC
*
899959 ATTTATAAAATTAATAAATT
1 ATTTATAAAATCAATAAATT
*
899979 ATTTA-AAAATCAGTAAATT
1 ATTTATAAAATCAATAAATT
899998 ATTT
1 ATTT
900002 TTATGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTATAAAATCAATAAATT
Found at i:902337 original size:49 final size:49
Alignment explanation
Indices: 902280--902376 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
902270 TTATGCATCA
*
902280 GCTATAATTTTATATATTGATAATGAAAATTTAAAAATTTAAAAATGAT
1 GCTATAATTTTATATATTGATAACGAAAATTTAAAAATTTAAAAATGAT
* *
902329 GCTATAATTTTATATATTGATAACGAAATTTTTAAAATTTAAAAATGA
1 GCTATAATTTTATATATTGATAACGAAAATTTAAAAATTTAAAAATGA
902377 GATAAGGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.41
Consensus pattern (49 bp):
GCTATAATTTTATATATTGATAACGAAAATTTAAAAATTTAAAAATGAT
Done.