Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, 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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 39
Found at i:1915 original size:72 final size:71
Alignment explanation
Indices: 1813--1956 Score: 193
Period size: 72 Copynumber: 2.0 Consensus size: 71
1803 AAAAAAAAAT
*
1813 ATTATTGTACATAGAGAGAGTACTTAAATCCAAATCCAACAAGTTTCAACTTCATCCAATTTAAA
1 ATTATTGTACATAGAGAGAGTAATTAAATCCAAATCCAACAAGTTTCAACTTCATCCAATTT-AA
*
1878 CAATATC
65 CAAGATC
* * * *
1885 ATTATTGTACATAGAGATG-GTAAATT-AATCCCAATCCATCAGGTTTCAACTTCATTCAATTTA
1 ATTATTGTACATAGAGA-GAGT-AATTAAATCCAAATCCAACAAGTTTCAACTTCATCCAATTTA
1948 ACAAGATC
64 ACAAGATC
1956 A
1 A
1957 ATTTTTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
71 9 0.14
72 51 0.80
73 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (71 bp):
ATTATTGTACATAGAGAGAGTAATTAAATCCAAATCCAACAAGTTTCAACTTCATCCAATTTAAC
AAGATC
Found at i:8038 original size:2 final size:2
Alignment explanation
Indices: 8031--8055 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8021 TCTCAGCAAC
8031 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8056 ATGTTGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11861 original size:20 final size:20
Alignment explanation
Indices: 11767--12135 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
11757 GATTTTCCAT
* ** *
11767 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
11787 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
11807 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
11827 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
11847 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
11867 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
11887 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
11907 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
11927 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
11947 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
11967 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
11987 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
12007 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
12027 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
12047 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
12067 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
12087 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
12107 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
12127 AATCACAAC
1 AATCGCAAC
12136 ACTTAAATTT
Statistics
Matches: 303, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
19 4 0.01
20 295 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:12849 original size:24 final size:24
Alignment explanation
Indices: 12810--12856 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12800 AAATTTGGTC
12810 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
12834 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
12857 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:15352 original size:19 final size:19
Alignment explanation
Indices: 15330--15622 Score: 367
Period size: 19 Copynumber: 16.4 Consensus size: 19
15320 CGGAAAATAC
*
15330 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
15349 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
15363 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
15383 AATCGCAA--CG--A-G-G
1 AATCGCAATGCGAAATGAA
15396 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15415 AATCGCAATGCGAAATGAAA
1 AATCGCAATGCGAAATG-AA
*
15435 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
15449 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
15468 AATCGCAATGCGGAATGAA
1 AATCGCAATGCGAAATGAA
15487 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15506 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15525 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15544 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15563 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
15577 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15596 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15615 AATCGCAA
1 AATCGCAA
15623 CGAGATAATC
Statistics
Matches: 241, Mismatches: 10, Indels: 46
0.81 0.03 0.15
Matches are distributed among these distances:
13 8 0.03
14 29 0.12
15 3 0.01
16 11 0.05
17 10 0.04
18 6 0.02
19 151 0.63
20 23 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:15660 original size:52 final size:52
Alignment explanation
Indices: 15330--15644 Score: 310
Period size: 52 Copynumber: 5.9 Consensus size: 52
15320 CGGAAAATAC
* *
15330 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
* * * *
15383 AATCGCAACGAGGAATCG-CAAT-GCGAA--ATGAAAATCGCAATGCGAAATGAAA
1 AATCGCAATGCGAAAT-GAAAATCGC-AACGA-GAAAATCGCAATGCGAAATG-AA
* * *
15435 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGGAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
15487 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
15544 AATCGCAATGCGAAATGAAAATCGCAACGA-AAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA-AATCGCAATGCGAAATGAA
*
15596 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
15645 TATAAACGCA
Statistics
Matches: 232, Mismatches: 13, Indels: 35
0.83 0.05 0.12
Matches are distributed among these distances:
47 5 0.02
48 3 0.01
50 2 0.01
51 8 0.03
52 102 0.44
53 41 0.18
54 5 0.02
55 3 0.01
57 63 0.27
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:15693 original size:38 final size:36
Alignment explanation
Indices: 15651--15750 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 36
15641 AAATTATAAA
15651 CGCATTGCGATTTTCATTTCCGCATTGCGATTTCATTT
1 CGCATTGCGA-TTTCATTT-CGCATTGCGATTTCATTT
*
15689 CGCATTGCGA-TTC-TCTCG--TTGCGATTTTCATTT
1 CGCATTGCGATTTCATTTCGCATTGCGA-TTTCATTT
15722 CGCATTGCGATTTCATTTCGCATTGCGAT
1 CGCATTGCGATTTCATTTCGCATTGCGAT
15751 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
32 6 0.11
33 18 0.33
34 5 0.09
35 6 0.11
36 4 0.07
37 6 0.11
38 10 0.18
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (36 bp):
CGCATTGCGATTTCATTTCGCATTGCGATTTCATTT
Found at i:15758 original size:19 final size:18
Alignment explanation
Indices: 15651--15750 Score: 136
Period size: 18 Copynumber: 5.6 Consensus size: 18
15641 AAATTATAAA
15651 CGCATTGCGATTTTCATTT
1 CGCATTGCGA-TTTCATTT
15670 CCGCATTGCGATTTCATTT
1 -CGCATTGCGATTTCATTT
*
15689 CGCATTGCGA-TTC-TCT
1 CGCATTGCGATTTCATTT
15705 CG--TTGCGATTTTCATTT
1 CGCATTGCGA-TTTCATTT
15722 CGCATTGCGATTTCATTT
1 CGCATTGCGATTTCATTT
15740 CGCATTGCGAT
1 CGCATTGCGAT
15751 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
18 29 0.40
19 14 0.19
20 10 0.14
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (18 bp):
CGCATTGCGATTTCATTT
Found at i:15876 original size:14 final size:14
Alignment explanation
Indices: 15857--15893 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15847 CATCAATTAC
15857 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
15871 ACAAATCATCTTTT
1 ACAAATCAACTTTT
15885 ACAAATCAA
1 ACAAATCAA
15894 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:17813 original size:20 final size:19
Alignment explanation
Indices: 17788--17851 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
17778 TAGTTTACTT
*
17788 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
17808 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
*
17826 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACTAAAA
17844 TCGCAACG
1 TCGCAACG
17852 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 27 0.68
20 13 0.32
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:17861 original size:14 final size:14
Alignment explanation
Indices: 17842--17898 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
17832 CGCGAAATGA
*
17842 AATCGCAACGACAG
1 AATCGCAACGAAAG
17856 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
17873 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
17889 AATCGCAACG
1 AATCGCAACG
17899 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:17880 original size:19 final size:17
Alignment explanation
Indices: 17805--17920 Score: 100
Period size: 18 Copynumber: 6.8 Consensus size: 17
17795 ACGAAACTTA
*
17805 AAATCGCAACGCGAAACC
1 AAATCGCAACGCGAAA-G
17823 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAA-G
*
17841 AAATCGCAA--CGACAG
1 AAATCGCAACGCGAAAG
*
17856 -AATCGCAATGCGAAATG
1 AAATCGCAACGCGAAA-G
17873 AAAATCGCAA--CGAAAG
1 -AAATCGCAACGCGAAAG
17889 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAAA-G
*
17906 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
17921 TTTTCATTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 19
0.78 0.05 0.18
Matches are distributed among these distances:
14 16 0.19
15 1 0.01
16 14 0.17
17 7 0.08
18 25 0.30
19 20 0.24
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (17 bp):
AAATCGCAACGCGAAAG
Found at i:17883 original size:33 final size:33
Alignment explanation
Indices: 17788--17915 Score: 159
Period size: 33 Copynumber: 3.8 Consensus size: 33
17778 TAGTTTACTT
* * *
17788 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
17826 TCGCAACGCGAAATG-AAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
17858 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
17891 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
17916 TGCGATTTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
32 16 0.20
33 40 0.49
34 4 0.05
36 9 0.11
37 1 0.01
38 12 0.15
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:17970 original size:20 final size:19
Alignment explanation
Indices: 17916--17978 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
17906 AAAATCGCAA
17916 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTT-AGTTTCGCGT
*
17935 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
17954 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-AGTTTCGCGT
17974 TGCGA
1 TGCGA
17979 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 26 0.67
20 13 0.33
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:18313 original size:93 final size:93
Alignment explanation
Indices: 18022--18492 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
18012 TTGAATGGAT
18022 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18087 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18115 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18179 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18207 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18272 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
18300 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18363 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18391 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
18456 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18484 AAATTTACT
1 AAATTTACT
18493 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 3, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 86 0.23
92 100 0.27
93 186 0.50
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:18459 original size:184 final size:185
Alignment explanation
Indices: 18022--18492 Score: 917
Period size: 184 Copynumber: 2.6 Consensus size: 185
18012 TTGAATGGAT
18022 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18087 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
18152 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
18207 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18272 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
18336 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
18391 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
18456 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
18493 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
184 157 0.55
185 127 0.45
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:20205 original size:14 final size:14
Alignment explanation
Indices: 20186--20275 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
20176 TTGAAATGAA
20186 AATCGCAACGAGAG
1 AATCGCAACGAGAG
20200 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
20217 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
20233 AATCGCAACGTGAAATGAA
1 AATCGCAAC--G--A-GAG
20252 AATCGCAACGAGAG
1 AATCGCAACGAGAG
20266 AATCGCAACG
1 AATCGCAACG
20276 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 29 0.45
15 1 0.02
16 7 0.11
17 7 0.11
18 1 0.02
19 19 0.30
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:20223 original size:33 final size:33
Alignment explanation
Indices: 20178--20292 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
20168 TCTTTTGGTT
20178 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
20211 GAGATGACAATCGCAACGAGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
20244 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
20277 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
20293 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:20224 original size:19 final size:18
Alignment explanation
Indices: 20185--20297 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
20175 GTTGAAATGA
20185 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
20200 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
20217 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
* *
20233 -AATCGCAACGTGAAATG
1 AAATCGCAACGCGAGATG
20250 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
20266 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
20283 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
20298 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
14 24 0.31
16 14 0.18
17 11 0.14
19 28 0.36
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:20328 original size:14 final size:14
Alignment explanation
Indices: 20309--20383 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
20299 TTTGGTTTCG
20309 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
20323 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
20342 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
20356 CGTTGCGACAGTCTCTCT
1 CGTTGCG--A-T-TCTCT
20374 CGTTGCGATT
1 CGTTGCGATT
20384 TTCATTTATC
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
14 18 0.36
15 1 0.02
16 5 0.10
17 4 0.08
18 12 0.24
19 10 0.20
ACGTcount: A:0.09, C:0.27, G:0.23, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:20341 original size:33 final size:33
Alignment explanation
Indices: 20293--20363 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
20283 AAAATCGCAA
**
20293 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
20326 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
20359 TGCGA
1 TGCGA
20364 CAGTCTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:20520 original size:31 final size:32
Alignment explanation
Indices: 20482--20550 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
20472 AATACTAACT
20482 TGAAAATCGCAACG-AGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAAGAATAGCAACGCGAAA
* *
20513 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGA-AGAATAGCAACGCGAAA
20546 TGAAA
1 TGAAA
20551 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 14 0.41
33 20 0.59
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.12
Consensus pattern (32 bp):
TGAAAATCGCAACGAAGAATAGCAACGCGAAA
Found at i:20781 original size:22 final size:22
Alignment explanation
Indices: 20729--20783 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
20719 TGGTTGTGAG
**
20729 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
20751 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
20773 GGATTTCTTCG
1 GGATTTCTTCG
20784 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:20954 original size:20 final size:20
Alignment explanation
Indices: 20929--21102 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
20919 CTTTAAATAT
20929 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
20949 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
20971 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
20990 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
21010 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
21030 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
21050 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
21070 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
21090 CGCGTTGCGATTT
1 CGCGTTGCGATTT
21103 TCATATTCGC
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 113 0.86
21 15 0.11
22 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:21111 original size:20 final size:20
Alignment explanation
Indices: 20928--21121 Score: 66
Period size: 20 Copynumber: 9.7 Consensus size: 20
20918 GCTTTAAATA
***
20928 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* *
20948 ACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGA-TTTATATAT
** ***
20969 TATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* * ***
20989 ACGCGTTGCGATATACGGAT
1 TCGCGTTGCGATTTATATAT
* * ***
21009 ACGCATTGCGATTTACCCAT
1 TCGCGTTGCGATTTATATAT
* ***
21029 ACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* * ***
21049 ACACGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* * *
21069 ACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTATATAT
21089 TCGCGTTGCGATTT-TCATAT
1 TCGCGTTGCGATTTAT-ATAT
*
21109 TCGCATTGCGATT
1 TCGCGTTGCGATT
21122 ATGGAAAATC
Statistics
Matches: 144, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
19 1 0.01
20 128 0.89
21 15 0.10
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTATATAT
Found at i:21121 original size:60 final size:60
Alignment explanation
Indices: 20929--21102 Score: 249
Period size: 60 Copynumber: 2.9 Consensus size: 60
20919 CTTTAAATAT
**
20929 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
20990 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* *
21050 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
21103 TCATATTCGC
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.71
61 28 0.29
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:21202 original size:20 final size:20
Alignment explanation
Indices: 21177--21228 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
21167 AAGAATCGCG
*
21177 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
21197 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
21217 TTGCGATTCTGG
1 TTGCGATTCTGG
21229 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:21859 original size:52 final size:51
Alignment explanation
Indices: 21749--21864 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 51
21739 ATAATTAATT
* * *
21749 TTCAATGTGAACTGATTAATAATATTAAAATAAAATCATAAATTAATCATA
1 TTCAATGTGAACTGATTAATAATATTAAAATAAAATAAAAAATTAACCATA
* * * *
21800 TTACAATGTGAATTGATTAATAATATTCAAATAAAATAAAAAATTAACCTTG
1 TT-CAATGTGAACTGATTAATAATATTAAAATAAAATAAAAAATTAACCATA
21852 TCTCAATGTGAAC
1 T-TCAATGTGAAC
21865 ATGAATCATA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 2 0.04
52 52 0.95
53 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (51 bp):
TTCAATGTGAACTGATTAATAATATTAAAATAAAATAAAAAATTAACCATA
Found at i:22661 original size:24 final size:24
Alignment explanation
Indices: 22626--22707 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
22616 TTTAAGATTA
* *
22626 AGGG-TTTTAGGTTAAAATAGTTT
1 AGGGTTTTTAGGTTAAAGTGGTTT
22649 AGGGTTTTTAGGTTAAAGTGGTTT
1 AGGGTTTTTAGGTTAAAGTGGTTT
*
22673 TGGGTTTTTTTAGGTTAAAGTGGTTT
1 AGGG--TTTTTAGGTTAAAGTGGTTT
*
22699 AGGTTTTTT
1 AGGGTTTTT
22708 TTTTAAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 25 0.49
26 22 0.43
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (24 bp):
AGGGTTTTTAGGTTAAAGTGGTTT
Found at i:22689 original size:26 final size:26
Alignment explanation
Indices: 22630--22709 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 26
22620 AGATTAAGGG
* *
22630 TTTTAGGTTAAAATAGTTTAGGG--T
1 TTTTAGGTTAAAGTGGTTTAGGGTTT
*
22654 TTTTAGGTTAAAGTGGTTTTGGGTTT
1 TTTTAGGTTAAAGTGGTTTAGGGTTT
*
22680 TTTTAGGTTAAAGTGGTTTAGGTTTT
1 TTTTAGGTTAAAGTGGTTTAGGGTTT
22706 TTTT
1 TTTT
22710 TTAAAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
24 20 0.41
26 29 0.59
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (26 bp):
TTTTAGGTTAAAGTGGTTTAGGGTTT
Found at i:23039 original size:53 final size:51
Alignment explanation
Indices: 22970--23083 Score: 158
Period size: 53 Copynumber: 2.2 Consensus size: 51
22960 TAGAAAATAC
*
22970 ACATTGAAAATATTAGAAAATACA-ATTACATTAAAATATTAGAATCAAGCACAT
1 ACATTG-AAATATTAGAAAATA-ATATTACATTAAAATATTAGAA--AAACACAT
*
23024 ACATTGAAATATTAGAAAATAATATTACATTGAAATATTAGAAAAACACAT
1 ACATTGAAATATTAGAAAATAATATTACATTAAAATATTAGAAAAACACAT
*
23075 ACATAGAAA
1 ACATTGAAA
23084 ATAAAATTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
51 15 0.27
52 1 0.02
53 34 0.61
54 6 0.11
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (51 bp):
ACATTGAAATATTAGAAAATAATATTACATTAAAATATTAGAAAAACACAT
Found at i:23085 original size:26 final size:28
Alignment explanation
Indices: 22970--23086 Score: 126
Period size: 26 Copynumber: 4.4 Consensus size: 28
22960 TAGAAAATAC
22970 ACATTGAAAATATTAGAAAATACA-ATT
1 ACATTGAAAATATTAGAAAATACACATT
*
22997 ACATT-AAAATATTAGAATCAA-GCACA-T
1 ACATTGAAAATATTAGAA--AATACACATT
*
23024 ACATTG-AAATATTAGAAAATA-ATATT
1 ACATTGAAAATATTAGAAAATACACATT
23050 ACATTG-AAATATTAGAAAA-ACACA-T
1 ACATTGAAAATATTAGAAAATACACATT
*
23075 ACATAGAAAATA
1 ACATTGAAAATA
23087 AAATTACATA
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
25 11 0.14
26 39 0.51
27 24 0.31
28 3 0.04
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (28 bp):
ACATTGAAAATATTAGAAAATACACATT
Found at i:26089 original size:67 final size:67
Alignment explanation
Indices: 25981--26116 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
25971 TCGATATAAC
25981 AAATTAACTATTATTGAATTTTAAGATTTTATTCAATTTTAAATCATATATTCGATTTAATTAAT
1 AAATTAACTATTATTGAATTTTAAGATTTTATTCAATTTTAAATCATATATTCGATTTAATTAAT
26046 CG
66 CG
*
26048 AAATTAACTATTATTGAATTTTAAGATTTTATTCAATTTTAAATCATATATTCGATTTAATTATT
1 AAATTAACTATTATTGAATTTTAAGATTTTATTCAATTTTAAATCATATATTCGATTTAATTAAT
26113 CG
66 CG
26115 AA
1 AA
26117 TATAAAAAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (67 bp):
AAATTAACTATTATTGAATTTTAAGATTTTATTCAATTTTAAATCATATATTCGATTTAATTAAT
CG
Found at i:26486 original size:21 final size:21
Alignment explanation
Indices: 26460--26514 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
26450 TACTGAGTGC
26460 ACCGATACACCTAGAGAATGT
1 ACCGATACACCTAGAGAATGT
26481 ACCGATACACCTAGAGAATGT
1 ACCGATACACCTAGAGAATGT
26502 ACCGATACACCTA
1 ACCGATACACCTA
26515 CGCTCCCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.18
Consensus pattern (21 bp):
ACCGATACACCTAGAGAATGT
Found at i:32778 original size:12 final size:13
Alignment explanation
Indices: 32755--32788 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
32745 CATATTATGA
32755 TTTCAAACAATA-T
1 TTTCAAA-AATAGT
32768 TTTCAAAAATAGT
1 TTTCAAAAATAGT
32781 TTTCAAAA
1 TTTCAAAA
32789 TTGCCCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (13 bp):
TTTCAAAAATAGT
Found at i:34556 original size:12 final size:13
Alignment explanation
Indices: 34530--34563 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
34520 ATTTTTAGTA
*
34530 ATTTTCAAAATTG
1 ATTTTCAAAAATG
34543 ATTTT-AAAAATG
1 ATTTTCAAAAATG
34555 ATTTTCAAA
1 ATTTTCAAA
34564 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:35067 original size:21 final size:21
Alignment explanation
Indices: 35041--35080 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
35031 ATTTTACACT
35041 GAGTGTACCGATACACCTAGA
1 GAGTGTACCGATACACCTAGA
35062 GAGTGTACCGATACACCTA
1 GAGTGTACCGATACACCTA
35081 CGCTCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (21 bp):
GAGTGTACCGATACACCTAGA
Found at i:41501 original size:7 final size:7
Alignment explanation
Indices: 41491--41524 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
41481 TAAATAATAA
*
41491 ATTTATT
1 ATTTTTT
41498 ATTTTTT
1 ATTTTTT
41505 A-TTTTT
1 ATTTTTT
41511 ATTTTTT
1 ATTTTTT
41518 ATTTTTT
1 ATTTTTT
41525 GTGTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:41514 original size:13 final size:13
Alignment explanation
Indices: 41491--41523 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
41481 TAAATAATAA
41491 ATTTATTATTTTTT
1 ATTT-TTATTTTTT
41505 ATTTTTATTTTTT
1 ATTTTTATTTTTT
41518 ATTTTT
1 ATTTTT
41524 TGTGTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:46335 original size:170 final size:169
Alignment explanation
Indices: 45839--46450 Score: 659
Period size: 170 Copynumber: 3.6 Consensus size: 169
45829 GCAACAATTT
* * *
45839 TTCACTTAATAATAGCCATAAATGATGTCCCCCATTGGGGAACTATTCTCATC-A-CCCTATCT-
1 TTCAGTTAATAATAGCCATAAATGATGT-CCCCATTGGGAAACTATTCACATCAACCCCTAT-TA
* * *
45901 TGTTTGATAGGATGTGACACTATGGCATGGA-AGAGATTCTCTGGAAAAGGTGAAAGCGCTTCTT
64 TGTTTGATGGGATGAGACACTATGGCAT-GACAGAGATTCTCTGAAAAAGGTGAAAGCGCTTCTT
* * * *
45965 GTGGGACGCG-TCTTCCCTTTTCGTCAAAGATTCTCTGTATTA
128 GTGGGACGCGCT-TTCCCTTTTCGTTAGAGATTCTCTGCATTC
* * * *
46007 TTTAGTTAATGATAGCCATAAATGATGTCCCCCTTGGAGAAA-TATTCACGTCAACCCCTATTAT
1 TTCAGTTAATAATAGCCATAAATGATGTCCCCATTGG-GAAACTATTCACATCAACCCCTATTAT
* * * * * ** * * * *
46071 ATTTGAAGGGATTAGATACTATGACATGGTAGAGATTCTCTGGAAAAA-GAGAAAACGCTTATTT
65 GTTTGATGGGATGAGACACTATGGCATGACAGAGATTCTCT-GAAAAAGGTGAAAGCGCTTCTTG
* * **
46135 TGGAACGCGCCTTCTATTTTC-TTCAGAGATTCTCTGCATTC
129 TGGGACGCGCTTTCCCTTTTCGTT-AGAGATTCTCTGCATTC
* *
46176 TTCAGTTAATAATAGCCATAAATGATGTCTCTCATTGGGAAACTATTCACGTCAACCCCTATTAT
1 TTCAGTTAATAATAGCCATAAATGATGTC-CCCATTGGGAAACTATTCACATCAACCCCTATTAT
* * * *
46241 GTTTGATGGGATGAGACATTATGGCATGACAGAGATTATCTAAAAAAGGTGAAAGCACTTCTTGT
65 GTTTGATGGGATGAGACACTATGGCATGACAGAGATTCTCTGAAAAAGGTGAAAGCGCTTCTTGT
* * *
46306 GGGATGTGCTTTCCCTTTTCGTTAGAGATTCTCTTCATTC
130 GGGACGCGCTTTCCCTTTTCGTTAGAGATTCTCTGCATTC
* **
46346 TTCAGTTAATAATAGCCATAAATGATGTCCCCTATAAGGG-AACTATTCACATCAACCTTTATTA
1 TTCAGTTAATAATAGCCATAAATGATGTCCCC-AT-TGGGAAACTATTCACATCAACCCCTATTA
* * * *
46410 TGTTTGCTGGGAT-AGACATTATAGCATTACAGAGATTCTCT
64 TGTTTGATGGGATGAGACACTATGGCATGACAGAGATTCTCT
46451 TATCACATCA
Statistics
Matches: 367, Mismatches: 63, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
167 16 0.04
168 32 0.09
169 143 0.39
170 171 0.47
171 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (169 bp):
TTCAGTTAATAATAGCCATAAATGATGTCCCCATTGGGAAACTATTCACATCAACCCCTATTATG
TTTGATGGGATGAGACACTATGGCATGACAGAGATTCTCTGAAAAAGGTGAAAGCGCTTCTTGTG
GGACGCGCTTTCCCTTTTCGTTAGAGATTCTCTGCATTC
Found at i:46641 original size:31 final size:32
Alignment explanation
Indices: 46547--46644 Score: 119
Period size: 31 Copynumber: 3.1 Consensus size: 32
46537 ATATATAGAT
* *
46547 TTTGTTTGTGGTCCTAACTTTTAAAACTTCTCA
1 TTTGTTTGTGGTCCT-ACCTTTCAAACTTCTCA
* *
46580 TTGTGTTTGTGGTCTTAACTTTCAAA-TTCTCA
1 TT-TGTTTGTGGTCCTACCTTTCAAACTTCTCA
*
46612 TTTGTTTGTGGTCCT-CCCTTCAAACTTCTCA
1 TTTGTTTGTGGTCCTACCTTTCAAACTTCTCA
46643 TT
1 TT
46645 AAGTTTCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 7 0.12
31 20 0.36
32 8 0.14
33 9 0.16
34 12 0.21
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.49
Consensus pattern (32 bp):
TTTGTTTGTGGTCCTACCTTTCAAACTTCTCA
Found at i:47311 original size:6 final size:6
Alignment explanation
Indices: 47288--47352 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
47278 TTGTAATGTC
* * *
47288 AATTTG AATGTA AATTTG AATTTG AATTT- AGATTTG AATTTG GATTTG
1 AATTTG AATTTG AATTTG AATTTG AATTTG A-ATTTG AATTTG AATTTG
47336 TAA-TTG AATTTG AATTT
1 -AATTTG AATTTG AATTT
47353 TTATTTTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 3 0.06
6 44 0.90
7 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
AATTTG
Found at i:48205 original size:36 final size:36
Alignment explanation
Indices: 48126--48197 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
48116 AATGAAAATG
* * *
48126 TTAAACATTTAACAACCATAAAGATAATTAAAAAAA
1 TTAAACATTTAACAAACATAAACAAAATTAAAAAAA
48162 TTAAACATTTAACACAACATAAACAAATATTAAAAA
1 TTAAACATTTAACA-AACATAAACAAA-ATTAAAAA
48198 CATAACATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 14 0.45
37 9 0.29
38 8 0.26
ACGTcount: A:0.61, C:0.12, G:0.01, T:0.25
Consensus pattern (36 bp):
TTAAACATTTAACAAACATAAACAAAATTAAAAAAA
Found at i:50331 original size:18 final size:17
Alignment explanation
Indices: 50308--50405 Score: 71
Period size: 17 Copynumber: 5.6 Consensus size: 17
50298 TAAATACATC
*
50308 TAATTATATTAAAATAAA
1 TAATTATAATAAAAT-AA
50326 TAATTAATATATTAAAATAA
1 TAATT-ATA-A-TAAAATAA
*
50346 T-A-TATAATAAAAAAA
1 TAATTATAATAAAATAA
50361 TAACTTATAAT-AAATAA
1 TAA-TTATAATAAAATAA
50378 TAATTAATAA-AAAATTAA
1 TAATT-ATAATAAAA-TAA
*
50396 T-TTTATAATA
1 TAATTATAATA
50406 TTATATTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
15 8 0.12
16 8 0.12
17 21 0.32
18 16 0.24
19 4 0.06
20 3 0.05
21 6 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATTATAATAAAATAA
Found at i:50338 original size:21 final size:24
Alignment explanation
Indices: 50292--50345 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 24
50282 ATAACATTAA
50292 TAAAATTAAATACATCTAATTATAT
1 TAAAA-TAAATACATCTAATTATAT
50317 TAAAATAAATA-AT-TAA-TATAT
1 TAAAATAAATACATCTAATTATAT
50338 TAAAATAA
1 TAAAATAA
50346 TATATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.45
22 3 0.10
23 2 0.07
24 6 0.21
25 5 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAATAAATACATCTAATTATAT
Found at i:50386 original size:32 final size:33
Alignment explanation
Indices: 50340--50405 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
50330 TAATATATTA
50340 AAATAATATATAATAAAAAAATAA-CTTATAAT
1 AAATAATATATAATAAAAAAATAATCTTATAAT
* *
50372 AAATAATA-ATTAATAAAAAATTAATTTTATAAT
1 AAATAATATA-TAATAAAAAAATAATCTTATAAT
50405 A
1 A
50406 TTATATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 1 0.03
32 21 0.70
33 8 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (33 bp):
AAATAATATATAATAAAAAAATAATCTTATAAT
Found at i:54547 original size:21 final size:21
Alignment explanation
Indices: 54499--54559 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
54489 TTCAAAAATT
* * **
54499 ATTTCACGAAAAGATTAAATC
1 ATTTCATGAAAAGGTTAAGGC
54520 ATTTCATGAAAAGGTTAAGGC
1 ATTTCATGAAAAGGTTAAGGC
* *
54541 ATTTCATCAAAAGGATAAG
1 ATTTCATGAAAAGGTTAAG
54560 TCTTTTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (21 bp):
ATTTCATGAAAAGGTTAAGGC
Found at i:54574 original size:21 final size:22
Alignment explanation
Indices: 54550--54595 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
54540 CATTTCATCA
* *
54550 AAAGGA-TAAGTCTTTTAATTG
1 AAAGGACTAAGTCCTTTAATCG
54571 AAA-GACTAAGTCCTTTAATCG
1 AAAGGACTAAGTCCTTTAATCG
54592 AAAG
1 AAAG
54596 TGTTGAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (22 bp):
AAAGGACTAAGTCCTTTAATCG
Found at i:63161 original size:131 final size:129
Alignment explanation
Indices: 62835--63198 Score: 453
Period size: 130 Copynumber: 2.8 Consensus size: 129
62825 TCGATATTGA
* *
62835 AAATAGTAATATCTCATTATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCAT
1 AAATAGTAATATCTC-TTATTTCGATTGGAGTAATAAATGACTATTTTAAGGCATGAGAGGTCAT
* * * * * * *
62900 TTATTCTCGATTGGAAAGAATAAGATATTACCATTTTCTCTCGAGTTAATATTGATTTTAAGACG
65 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTAATTTTAAGACG
* * * * *
62965 GAATAGTGATATCTCTTTATTTCGATTGGAGTAATAAAT-AGT-TGCTATAAGGCATGAGAGATC
1 AAATAGTAATATCTC-TTATTTCGATTGGAGTAATAAATGACTAT--TTTAAGGCATGAGAGGTC
* * *
63028 ATTTATTCTCGTTTGGAAATCATTAGATATTATCGTTTTCACTCGAATCAATATTAAATTTTAAG
63 ATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATT-AATTTTAAG
63093 ACG
127 ACG
* * * *
63096 AAATAGTAATATCTCTTCATTTCAATTGGGGTAAGAAATGACTATTTTAAGGCATGAAAGGTCAT
1 AAATAGTAATATCTCTT-ATTTCGATTGGAGTAATAAATGACTATTTTAAGGCATGAGAGGTCAT
* *
63161 TTATTATCGATTGGAAATAATTAGATATTATCTTTTTC
65 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTC
63199 TCTCTTAAAA
Statistics
Matches: 197, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
129 2 0.01
130 99 0.50
131 93 0.47
132 2 0.01
133 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (129 bp):
AAATAGTAATATCTCTTATTTCGATTGGAGTAATAAATGACTATTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTAATTTTAAGACG
Found at i:65670 original size:136 final size:135
Alignment explanation
Indices: 65321--65837 Score: 615
Period size: 135 Copynumber: 3.8 Consensus size: 135
65311 CTCATGGCAT
* * ** *
65321 ATCCCTTTTTTTTTCCAGATTTGATCTTCTTTGAGGAACAGTGGAACAAGTCTGCCTTGATTCAA
1 ATCCCTCTTTTTCTCCAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
* * ** *
65386 TCTTCCCTGAAGAACAGTAGAATCAATCAACATTTCTAGATTTGATTTTCCCTTTAGAAGCAGTG
66 TCTTCCCTGAAGAACAGTGGAATCAATCAACATTTCTAGATCTGATTTTCCCTCAAGAAGCA-TC
65451 AAACAA
130 AAACAA
* * *
65457 ATCCCTC-TTTTCTCAAGATTTGATCTTCCATGAGGAACAGTGAAACAAGTCTACCTCGATTCAA
1 ATCCCTCTTTTTCTCCAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
* * ** * * *
65521 TCTTCCCTGAAGAACAATGGAATGAATTGATATTTCCAGATCTGATTTTCCCTCGAGAAGCATCA
66 TCTTCCCTGAAGAACAGTGGAATCAATCAACATTTCTAGATCTGATTTTCCCTCAAGAAGCATCA
*
65586 TAACAG
131 -AACAA
* * *
65592 ATCCCTCTTTTTCTCCATATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAA
1 ATCCCTCTTTTTCTCCAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
* * * * * * *
65657 TCTTCCCTTAAGAATATTGGAATTAATCAACGTTTCTAAATCTGATTTTCCCTCAAGAAGCAGCG
66 TCTTCCCTGAAGAACAGTGGAATCAATCAACATTTCTAGATCTGATTTTCCCTCAAGAAGCATC-
65722 AAACAA
130 AAACAA
* * * * * *
65728 ATCCCTCTTTTT-TTCAGACTTGATCTTCCATAAGGAACAGTGGAAAAAGTATGTCTCGATTCAA
1 ATCCCTCTTTTTCTCCAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
* * ** *
65792 TCTTCCCTGAAAAACAGTGGAATAAATCAATGTTTCTTGATCTGAT
66 TCTTCCCTGAAGAACAGTGGAATCAATCAACATTTCTAGATCTGAT
65838 CTACCGTGAA
Statistics
Matches: 322, Mismatches: 56, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
134 2 0.01
135 194 0.60
136 125 0.39
137 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (135 bp):
ATCCCTCTTTTTCTCCAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
TCTTCCCTGAAGAACAGTGGAATCAATCAACATTTCTAGATCTGATTTTCCCTCAAGAAGCATCA
AACAA
Found at i:65836 original size:271 final size:271
Alignment explanation
Indices: 65321--65837 Score: 714
Period size: 271 Copynumber: 1.9 Consensus size: 271
65311 CTCATGGCAT
* * ** *
65321 ATCCCTTTTTTTTTCCAGATTTGATCTTCTTTGAGGAACAGTGGAACAAGTCTGCCTTGATTCAA
1 ATCCCTCTTTTTCTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
* * ** *
65386 TCTTCCCTGAAGAACAGTAGAATCAATCAACATTTCTAGATTTGATTTTCCCTTTAGAAGCAGTG
66 TCTTCCCTGAAGAACAGTAGAATCAATCAACATTTCTAAATCTGATTTTCCCTCAAGAAGCAGCG
* * *
65451 AAACAAATCCCTCTTTTCTCAAGATTTGATCTTCCATGAGGAACAGTGAAACAAGTCTACCTCGA
131 AAACAAATCCCTCTTTTCTCAAGACTTGATCTTCCATAAGGAACAGTGAAACAAGTATACCTCGA
* * **
65516 TTCAATCTTCCCTGAAGAACAATGGAATGAATTGATATTTCCAGATCTGATTTTCCCTCGAGAAG
196 TTCAATCTTCCCTGAAAAACAATGGAATAAATCAATATTTCCAGATCTGATTTTCCCTCGAGAAG
65581 CATCATAACAG
261 CATCATAACAG
* *
65592 ATCCCTCTTTTTCTCCATATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAA
1 ATCCCTCTTTTTCTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
* * * * * *
65657 TCTTCCCTTAAGAATATTGGAATTAATCAACGTTTCTAAATCTGATTTTCCCTCAAGAAGCAGCG
66 TCTTCCCTGAAGAACAGTAGAATCAATCAACATTTCTAAATCTGATTTTCCCTCAAGAAGCAGCG
* **
65722 AAACAAATCCCTCTTTTTTTC-AGACTTGATCTTCCATAAGGAACAGTGGAAA-AAGTATGTCTC
131 AAACAAATCCCTC-TTTTCTCAAGACTTGATCTTCCATAAGGAACAGT-GAAACAAGTATACCTC
* * **
65785 GATTCAATCTTCCCTGAAAAACAGTGGAATAAATCAATGTTTCTTGATCTGAT
194 GATTCAATCTTCCCTGAAAAACAATGGAATAAATCAATATTTCCAGATCTGAT
65838 CTACCGTGAA
Statistics
Matches: 212, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
271 202 0.95
272 10 0.05
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (271 bp):
ATCCCTCTTTTTCTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTCTGCCTCGATTCAA
TCTTCCCTGAAGAACAGTAGAATCAATCAACATTTCTAAATCTGATTTTCCCTCAAGAAGCAGCG
AAACAAATCCCTCTTTTCTCAAGACTTGATCTTCCATAAGGAACAGTGAAACAAGTATACCTCGA
TTCAATCTTCCCTGAAAAACAATGGAATAAATCAATATTTCCAGATCTGATTTTCCCTCGAGAAG
CATCATAACAG
Found at i:66159 original size:17 final size:17
Alignment explanation
Indices: 66137--66180 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
66127 AATCAACCCG
66137 AAGCCCAATAATAAATC
1 AAGCCCAATAATAAATC
66154 AAGCCCAATAATAAATC
1 AAGCCCAATAATAAATC
*
66171 AGGCCCAATA
1 AAGCCCAATA
66181 CCCAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.09, T:0.16
Consensus pattern (17 bp):
AAGCCCAATAATAAATC
Found at i:67164 original size:63 final size:63
Alignment explanation
Indices: 67050--67188 Score: 156
Period size: 63 Copynumber: 2.2 Consensus size: 63
67040 CATGAAGTGT
* * **
67050 ATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAGTGTATCGATGCACAAG-TGGTGC
1 ATCGATGCAC-CCTCTAAAATAAAAACATCGAATGCCATCAGTGTACCGATGCA-AAGTTACTGC
* ** * *
67114 ATCGATGCACCCTCTAAAATAGAAACATCGAATGTGATTTA-TGTACCGATGCATAGTTACTGC
1 ATCGATGCACCCTCTAAAATAAAAACATCGAATGCCA-TCAGTGTACCGATGCAAAGTTACTGC
67177 ATCGATGCACCC
1 ATCGATGCACCC
67189 ATTAAGGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 2 0.03
63 50 0.78
64 12 0.19
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (63 bp):
ATCGATGCACCCTCTAAAATAAAAACATCGAATGCCATCAGTGTACCGATGCAAAGTTACTGC
Found at i:76172 original size:15 final size:15
Alignment explanation
Indices: 76146--76193 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
76136 TTCAAACATC
*
76146 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
76162 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
76179 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
76194 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:78182 original size:22 final size:22
Alignment explanation
Indices: 78157--78199 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
78147 ACCAGAACCC
*
78157 TAGGGGGGTATCGATTCCCCTG
1 TAGGGGGGAATCGATTCCCCTG
* *
78179 TAGGTGGGAATCGGTTCCCCT
1 TAGGGGGGAATCGATTCCCCT
78200 TCAAAGGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (22 bp):
TAGGGGGGAATCGATTCCCCTG
Found at i:78234 original size:20 final size:20
Alignment explanation
Indices: 78205--78242 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78195 CCCCTTCAAA
*
78205 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
78225 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
78243 TGCACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:82079 original size:22 final size:21
Alignment explanation
Indices: 82037--82076 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
82027 GAGTTTATTT
*
82037 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
82058 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
82077 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:83871 original size:20 final size:20
Alignment explanation
Indices: 83846--83886 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
83836 CTGTTACACA
83846 GGGGGGAATCGGTACCCTCT
1 GGGGGGAATCGGTACCCTCT
*
83866 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
83886 G
1 G
83887 AGCATACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.22
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCTCT
Found at i:84351 original size:2 final size:2
Alignment explanation
Indices: 84344--84374 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
84334 AATGCATTGT
*
84344 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84375 TATGCCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:86924 original size:132 final size:130
Alignment explanation
Indices: 86568--86926 Score: 481
Period size: 131 Copynumber: 2.7 Consensus size: 130
86558 GAAAATAGTA
* **
86568 ATATCTCATCATTTCGGTTGGAGTAATAAATGACTGATTTAAGGCATGAAATGTCATTTATTCTT
1 ATATCTCTTCATTTCAATTGGAGTAATAAATGACTGATTTAAGGCATGAAATGTCATTTATTC-T
* * * *
86633 GATTGGAAATAACTATATATTATTGTTTTCTCTTGAGTCAATATTGATTTTTAAGACGAAATAAT
65 GATTGGAAATAATTATATATTATTGTTTTCTCTCGAGTCAATATTAAATTTTAAGACGAAATAAT
86698 G
130 G
* * *
86699 ATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGATGTCATTTATTCTC
1 ATATCTCTTCATTTCAATTGGAGTAATAAATGACTGATTTAAGGCATGAAATGTCATTTATTCT-
***
86764 GATTGGAAAGCTTTATATATTATTGTTTT-TACTCGAGTCAATATTAAATTTTAAGACGAAATAA
65 GATTGGAAATAATTATATATTATTGTTTTCT-CTCGAGTCAATATTAAATTTTAAGACGAAATAA
86828 TG
129 TG
* * *
86830 ATATCTCTTCATTTCAATTAGGA-TAAATAAATGATTGTTTTAAGGCATGAAAGGTCATTTATTC
1 ATATCTCTTCATTTCAATT-GGAGT-AATAAATGACTGATTTAAGGCATGAAATGTCATTTATTC
*
86894 TGAATTGGAAATAATTAGATATT-TTCGTTTTCT
64 TG-ATTGGAAATAATTATATATTATT-GTTTTCT
86927 ATTAAAATTA
Statistics
Matches: 201, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
130 2 0.01
131 138 0.69
132 60 0.30
133 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (130 bp):
ATATCTCTTCATTTCAATTGGAGTAATAAATGACTGATTTAAGGCATGAAATGTCATTTATTCTG
ATTGGAAATAATTATATATTATTGTTTTCTCTCGAGTCAATATTAAATTTTAAGACGAAATAATG
Found at i:89228 original size:39 final size:36
Alignment explanation
Indices: 89149--89238 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 36
89139 ATACGGTATA
89149 GTTTTTGAAAACATA-ATATATAATTTTAAAAAAAT
1 GTTTTTGAAAACATATATATATAATTTTAAAAAAAT
*
89184 GTTTTTGAAAACATATATAATATAATTTTTGAAAACATAT
1 GTTTTTGAAAACATATAT-ATATAA-TTTT-AAAA-AAAT
*
89224 -TTTTTGAAAATATAT
1 GTTTTTGAAAACATAT
89239 GTAAACACCA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
35 15 0.31
36 2 0.04
37 6 0.12
38 4 0.08
39 18 0.38
40 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (36 bp):
GTTTTTGAAAACATATATATATAATTTTAAAAAAAT
Found at i:89229 original size:15 final size:15
Alignment explanation
Indices: 89209--89238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89199 TATAATATAA
89209 TTTTTGAAAACATAT
1 TTTTTGAAAACATAT
*
89224 TTTTTGAAAATATAT
1 TTTTTGAAAACATAT
89239 GTAAACACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (15 bp):
TTTTTGAAAACATAT
Found at i:89940 original size:29 final size:29
Alignment explanation
Indices: 89898--89985 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
89888 TACCGGGGGT
*
89898 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
89927 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
89956 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
89985 A
1 A
89986 TCCAACGACC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.18, C:0.41, G:0.27, T:0.14
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:90251 original size:29 final size:29
Alignment explanation
Indices: 90190--90273 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
90180 ATGAATCCTT
** * **
90190 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
90219 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
90248 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
90274 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:92259 original size:11 final size:11
Alignment explanation
Indices: 92243--92275 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
92233 TTCAATTCTT
92243 TTATTATTTTA
1 TTATTATTTTA
92254 TTATTATTTTA
1 TTATTATTTTA
92265 TT-TTATTTTA
1 TTATTATTTTA
92275 T
1 T
92276 ATCCTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:92265 original size:5 final size:5
Alignment explanation
Indices: 92246--92275 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
92236 AATTCTTTTA
92246 TTATT TTATT ATTATT TTATT TTATT TTAT
1 TTATT TTATT -TTATT TTATT TTATT TTAT
92276 ATCCTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:94155 original size:14 final size:14
Alignment explanation
Indices: 94136--94163 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94126 TGTTAATTGA
94136 ACTTACGTCATTTT
1 ACTTACGTCATTTT
94150 ACTTACGTCATTTT
1 ACTTACGTCATTTT
94164 CTAAGGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
ACTTACGTCATTTT
Found at i:95132 original size:19 final size:19
Alignment explanation
Indices: 95110--95219 Score: 69
Period size: 19 Copynumber: 6.1 Consensus size: 19
95100 AAACACACAC
*
95110 AAAAAGAAAGTAAAAATAG
1 AAAAAGAAAGAAAAAATAG
*
95129 AAAAAG--AG--AAAACAG
1 AAAAAGAAAGAAAAAATAG
* *
95144 AAAGAGAAAGAAAAAAAAG
1 AAAAAGAAAGAAAAAATAG
95163 -AAAA-AAAGAAAAAATAG
1 AAAAAGAAAGAAAAAATAG
95180 AGAAAA-AATAGAGAAAAGA-AG
1 A-AAAAGAA-AGA-AAAA-ATAG
95201 -AAAA-AAAGAAGAAAATAG
1 AAAAAGAAAGAA-AAAATAG
95219 A
1 A
95220 CAGATTCAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
15 11 0.15
17 18 0.24
18 11 0.15
19 24 0.32
20 3 0.04
21 6 0.08
22 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (19 bp):
AAAAAGAAAGAAAAAATAG
Found at i:95160 original size:28 final size:28
Alignment explanation
Indices: 95129--95215 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 28
95119 GTAAAAATAG
*
95129 AAAAAGAGAAAACAGAAAGAGAA-AGA-AA
1 AAAAAGAGAAAAAAGAAA-A-AATAGAGAA
95157 AAAAAGA-AAAAAAGAAAAAATAGAGAA
1 AAAAAGAGAAAAAAGAAAAAATAGAGAA
95184 AAAATAGAGAAAAGAAGAAAAAA-AGAAGAA
1 AAAA-AGAGAAAA-AAGAAAAAATAG-AGAA
95214 AA
1 AA
95216 TAGACAGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
25 2 0.04
26 4 0.08
27 15 0.29
28 10 0.19
29 6 0.12
30 15 0.29
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.02
Consensus pattern (28 bp):
AAAAAGAGAAAAAAGAAAAAATAGAGAA
Found at i:95164 original size:9 final size:9
Alignment explanation
Indices: 95129--95207 Score: 70
Period size: 9 Copynumber: 8.4 Consensus size: 9
95119 GTAAAAATAG
*
95129 AAAAAGAGA
1 AAAAAGAAA
*
95138 AAACAGAAA
1 AAAAAGAAA
*
95147 GAGAAAGAAA
1 -AAAAAGAAA
95157 AAAAAG-AA
1 AAAAAGAAA
95165 AAAAAGAAA
1 AAAAAGAAA
95174 AAATAGAGAAA
1 AAA-A-AGAAA
*
95185 AAATAGAGAA
1 AAAAAGA-AA
*
95195 AAGAAGAAA
1 AAAAAGAAA
95204 AAAA
1 AAAA
95208 GAAGAAAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
8 8 0.14
9 25 0.45
10 15 0.27
11 8 0.14
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:95183 original size:11 final size:11
Alignment explanation
Indices: 95169--95196 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
95159 AAAGAAAAAA
95169 AGAAAAAATAG
1 AGAAAAAATAG
95180 AGAAAAAATAG
1 AGAAAAAATAG
95191 AGAAAA
1 AGAAAA
95197 GAAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (11 bp):
AGAAAAAATAG
Found at i:95215 original size:8 final size:8
Alignment explanation
Indices: 95111--95215 Score: 68
Period size: 9 Copynumber: 11.8 Consensus size: 8
95101 AACACACACA
95111 AAAAGAAAG
1 AAAA-AAAG
*
95120 TAAAAATAG
1 -AAAAAAAG
*
95129 AAAAAGAG
1 AAAAAAAG
*
95137 -AAAACAG
1 AAAAAAAG
95144 AAAGAGAAAG
1 AAA-A-AAAG
95154 AAAAAAAAG
1 -AAAAAAAG
95163 AAAAAAAG
1 AAAAAAAG
95171 AAAAAATAGAG
1 -AAAAA-A-AG
95182 AAAAAATAG
1 AAAAAA-AG
95191 AGAAAAGAAG
1 A-AAAA-AAG
95201 AAAAAAAG
1 AAAAAAAG
95209 AAGAAAA
1 AA-AAAA
95216 TAGACAGATT
Statistics
Matches: 80, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
7 6 0.08
8 22 0.28
9 25 0.31
10 21 0.26
11 6 0.08
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:96228 original size:20 final size:20
Alignment explanation
Indices: 96205--96263 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
96195 AACAGATTCC
96205 CCCCTGGGGAGGTATCGATT
1 CCCCTGGGGAGGTATCGATT
96225 CCCC--GGGA---A-CAGATT
1 CCCCTGGGGAGGTATC-GATT
96240 CCCCCTGGGG-GGTATCGATT
1 -CCCCTGGGGAGGTATCGATT
96260 CCCC
1 CCCC
96264 CCTAAATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 17
0.65 0.00 0.35
Matches are distributed among these distances:
14 1 0.03
15 5 0.16
16 4 0.13
18 7 0.23
19 4 0.13
20 9 0.29
21 1 0.03
ACGTcount: A:0.15, C:0.34, G:0.31, T:0.20
Consensus pattern (20 bp):
CCCCTGGGGAGGTATCGATT
Found at i:96261 original size:35 final size:37
Alignment explanation
Indices: 96192--96263 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
96182 TATGTGCAGG
96192 GGGAACAGATTCCCCCCTGGGGAGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGAGGTATCGATTCCCC
96229 GGGAACAGATT-CCCCCTGGGG-GGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGAGGTATCGATTCCCC
96264 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 14 0.40
36 10 0.29
37 11 0.31
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.19
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGAGGTATCGATTCCCC
Found at i:96722 original size:46 final size:46
Alignment explanation
Indices: 96671--96821 Score: 259
Period size: 46 Copynumber: 3.3 Consensus size: 46
96661 CTATGTGACT
* * *
96671 ATATGAAATGATATATGAATATGCAATACATGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
*
96717 ATATGAAATGACATATGAATACGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
96763 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
96809 ATATGAAAT-ACAT
1 ATATGAAATGACAT
96822 GGTTACACAT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.04
46 96 0.96
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
Found at i:97017 original size:38 final size:39
Alignment explanation
Indices: 96970--97067 Score: 126
Period size: 38 Copynumber: 2.5 Consensus size: 39
96960 TATAAGACAT
* *
96970 ATGATAGGTCCTACGGGACATAGATTACATCC-TTCGGG
1 ATGATAGGTCCTTCGGGACATAGATGACATCCTTTCGGG
* * * *
97008 ATGACAGGTCCTTCGAGACACAGATGACATCCTTTTGGG
1 ATGATAGGTCCTTCGGGACATAGATGACATCCTTTCGGG
*
97047 ATGATAGGTCCTTTGGGACAT
1 ATGATAGGTCCTTCGGGACAT
97068 TTATACGGGC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
38 27 0.55
39 22 0.45
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
ATGATAGGTCCTTCGGGACATAGATGACATCCTTTCGGG
Found at i:98918 original size:2 final size:2
Alignment explanation
Indices: 98911--99002 Score: 177
Period size: 2 Copynumber: 46.5 Consensus size: 2
98901 TATCATTGGA
98911 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98994 AT AT AT AT A
1 AT AT AT AT A
99003 ATAATTTGAT
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 88 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:99459 original size:2 final size:2
Alignment explanation
Indices: 99452--99487 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
99442 TATTTGGATC
99452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99488 GATTAAGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102851 original size:46 final size:46
Alignment explanation
Indices: 102800--102950 Score: 268
Period size: 46 Copynumber: 3.3 Consensus size: 46
102790 CTATGTGACT
* *
102800 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
*
102846 ATATGAAATGACATATGAATATATAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
102892 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
102938 ATATGAAAT-ACAT
1 ATATGAAATGACAT
102951 GGTTACACAT
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.04
46 97 0.96
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
Found at i:102883 original size:24 final size:24
Alignment explanation
Indices: 102856--102929 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
102846 ATATGAAATG
102856 ACATATGAATATATAATACGTGAT
1 ACATATGAATATATAATACGTGAT
*
102880 ACATGTGATATGATATGAA-A--TG--
1 ACATATGA-AT-ATAT-AATACGTGAT
*
102902 ACATATGAATATGTAATACGTGAT
1 ACATATGAATATATAATACGTGAT
102926 ACAT
1 ACAT
102930 GTGATATGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 2 0.05
22 9 0.23
24 13 0.33
25 2 0.05
26 5 0.13
27 2 0.05
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (24 bp):
ACATATGAATATATAATACGTGAT
Found at i:103157 original size:38 final size:38
Alignment explanation
Indices: 103099--103194 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
103089 TATAAGACAT
* *
103099 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTACGAGACACAGATGACATCCTTCGGG
* * *
103137 ATGACAGGTCCTTCGAGACACAGATGACATCCTTTGGG
1 ATGATAGGTCCTACGAGACACAGATGACATCCTTCGGG
103175 ATGATAGGTCCTACGAGACA
1 ATGATAGGTCCTACGAGACA
103195 TTTATACGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTACGAGACACAGATGACATCCTTCGGG
Found at i:105725 original size:53 final size:54
Alignment explanation
Indices: 105570--105844 Score: 265
Period size: 53 Copynumber: 5.1 Consensus size: 54
105560 ATTTTTAGAA
** * * **
105570 GTTTCTTGACAATTTTCAAATGACTTTTAAAGAAACTAAGTCTGATTTTCAGAA
1 GTTTCTTGATGATTTTCAAATGACTTTTAAAGAAACTAAGCCTAATTTTCAGGG
* * *
105624 GTTTCTTGATGATTTTTAAACGACCTTTCAAAGAAACTAAGCCTAATTTTCAGGG
1 GTTTCTTGATGATTTTCAAATGA-CTTTTAAAGAAACTAAGCCTAATTTTCAGGG
* * *
105679 GTTTCTTGATG-TTTTCAAATGAATTTTAAAGAAGCTAAGCCTAATTTTTAGGG
1 GTTTCTTGATGATTTTCAAATGACTTTTAAAGAAACTAAGCCTAATTTTCAGGG
* * * * *
105732 GTTTCTTGAT-TTTTTC-AATGAGTTTT-TAGAAATTAAGCCTGATTTTCAGGG
1 GTTTCTTGATGATTTTCAAATGACTTTTAAAGAAACTAAGCCTAATTTTCAGGG
* *
105783 GTTTCTTGATGATTATCTCCAAA-GAGTTTTTAAAAGGAAGA-TAAGCCTAATTTTTAGGG
1 GTTTCTTGATGATT-T-T-CAAATGA-CTTTT-AAA-GAA-ACTAAGCCTAATTTTCAGGG
105842 GTT
1 GTT
105845 CCTTAACAGC
Statistics
Matches: 183, Mismatches: 26, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
51 30 0.16
52 11 0.06
53 43 0.23
54 29 0.16
55 40 0.22
56 6 0.03
58 1 0.01
59 22 0.12
60 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (54 bp):
GTTTCTTGATGATTTTCAAATGACTTTTAAAGAAACTAAGCCTAATTTTCAGGG
Found at i:105737 original size:108 final size:105
Alignment explanation
Indices: 105570--105844 Score: 284
Period size: 108 Copynumber: 2.5 Consensus size: 105
105560 ATTTTTAGAA
** * * * * * **
105570 GTTTCTTGACAATTTTCAAATGACTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATG
1 GTTTCTTGATGATTTTCAAATGAATTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-
105635 ATTTTTAAACGACCTTTCAAAGAAACTAAGCCTAATTTTCAGGG
65 -TTTTTAAACGA-CTTT-AAAGAAACTAAGCCTAATTTTCAGGG
105679 GTTTCTTGATG-TTTTCAAATGAATTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATT
1 GTTTCTTGATGATTTTCAAATGAATTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATT
* * * ** * *
105743 TTTTCAATGAGTTTTTAGAAATTAAGCCTGATTTTCAGGG
66 TTTTAAACGACTTTAAAGAAACTAAGCCTAATTTTCAGGG
* *
105783 GTTTCTTGATGATTATCTCCAAA-GAGTTTTTAAAAGGAAGATAAGCCTAATTTTTAGGGGTT
1 GTTTCTTGATGATT-T-T-CAAATGA-ATTTT-AAA-GAAGCTAAGCCTAATTTTTAGGGGTT
105845 CCTTAACAGC
Statistics
Matches: 141, Mismatches: 18, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
104 33 0.23
105 5 0.04
106 10 0.07
107 3 0.02
108 53 0.38
109 12 0.09
110 25 0.18
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (105 bp):
GTTTCTTGATGATTTTCAAATGAATTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATT
TTTTAAACGACTTTAAAGAAACTAAGCCTAATTTTCAGGG
Found at i:107189 original size:139 final size:138
Alignment explanation
Indices: 106939--107448 Score: 781
Period size: 139 Copynumber: 3.7 Consensus size: 138
106929 AGATGAACCA
* *
106939 ATCAACATTTCAAATGAAGAGTTCATAATGAGAAGAACTCATCCGATGAA-GGAGAAGAAGCTCA
1 ATCAACATTTC-AATGGAGAGTTCATAATGAGAAGAACTCATCCGAT-AAGGGAGAAGAAGTTCA
* * * * *
107003 TAATGAGAAGAGCTTGTTCGACCCTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCT
64 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCT
107068 CACTCGAGGG
129 CACTCGAGGG
* * * *
107078 ATCAATATTTCCAATTGAGAGTTCATAATGAGAATAACTCATCCGATGAA-GGAGAAAAAGTTCA
1 ATCAACATTT-CAATGGAGAGTTCATAATGAGAAGAACTCATCCGAT-AAGGGAGAAGAAGTTCA
* *
107142 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCGTTACATATGGAGTTGAATCAACAACACCT
64 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCT
107207 CACTCGAGGG
129 CACTCGAGGG
*
107217 ATCAACATTTCAAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGACGAAGTTCAT
1 ATCAACATTTCAA-TGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
107282 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCTC
65 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCTC
* *
107347 ACTTGAGGT
130 ACTCGAGGG
* * *
107356 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCGATAAGGGAGACGAAGTTCAT
1 ATCAACATTT-CAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
107421 AATGAGAAGAACTTGTTCAACCTTAGCT
65 AATGAGAAGAACTTGTTCAACCTTAGCT
107449 TGTTTCCATC
Statistics
Matches: 343, Mismatches: 24, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
138 5 0.01
139 335 0.98
140 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (138 bp):
ATCAACATTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCTCA
CTCGAGGG
Found at i:110111 original size:4 final size:4
Alignment explanation
Indices: 110092--110143 Score: 68
Period size: 4 Copynumber: 12.2 Consensus size: 4
110082 TTTATATTTA
*
110092 TATT TATTT TATTT TATT TATT TATT TATT TATT TATT AATT TATT TCATT
1 TATT TA-TT TA-TT TATT TATT TATT TATT TATT TATT TATT TATT T-ATT
110143 T
1 T
110144 GGTCCAGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
4 31 0.70
5 13 0.30
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:110194 original size:4 final size:4
Alignment explanation
Indices: 110176--110218 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
110166 CAAAGGTCTA
*
110176 ATTT ATTTT ATTTT ATTT ATTT ATTTT ATTT ATTA ATTT ATTT
1 ATTT A-TTT A-TTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT
110219 TCATTTGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 22 0.63
5 13 0.37
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:110200 original size:13 final size:13
Alignment explanation
Indices: 110176--110218 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
110166 CAAAGGTCTA
110176 ATTTATTTTATTTT
1 ATTTA-TTTATTTT
110190 ATTTATTTATTTT
1 ATTTATTTATTTT
*
110203 ATTTA-TTAATTT
1 ATTTATTTATTTT
110215 ATTT
1 ATTT
110219 TCATTTGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 10 0.36
13 13 0.46
14 5 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:110242 original size:81 final size:78
Alignment explanation
Indices: 110099--110256 Score: 289
Period size: 81 Copynumber: 2.0 Consensus size: 78
110089 TTATATTTAT
110099 TTTATTTTATTTATTTATTTATTTATTTATTAATTTATTTCATTTGGTCCAGGTTTAAGGAGTCC
1 TTTATTTTATTTATTTATTTATTTATTTATTAATTTATTTCATTTGGTCCAGGTTTAAGGAGTCC
110164 AACAAAGGTCTAA
66 AACAAAGGTCTAA
110177 TTTATTTTATTTTATTTATTTATTTTATTTATTAATTTATTTTCATTTGGTCCAGGTTTAAGGAG
1 TTTATTTTA-TTTATTTATTTA-TTTATTTATTAATTTA-TTTCATTTGGTCCAGGTTTAAGGAG
110242 TCCAACAAAGGTCTA
63 TCCAACAAAGGTCTA
110257 GCAAGGACCC
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
78 9 0.12
79 12 0.16
80 16 0.21
81 40 0.52
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (78 bp):
TTTATTTTATTTATTTATTTATTTATTTATTAATTTATTTCATTTGGTCCAGGTTTAAGGAGTCC
AACAAAGGTCTAA
Found at i:111806 original size:17 final size:17
Alignment explanation
Indices: 111786--111819 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
111776 TGAAATCGAT
111786 GCCTTCGTGATAATTTA
1 GCCTTCGTGATAATTTA
*
111803 GCCTTCGTGATTATTTA
1 GCCTTCGTGATAATTTA
111820 TTCTCTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (17 bp):
GCCTTCGTGATAATTTA
Found at i:114876 original size:24 final size:24
Alignment explanation
Indices: 114849--114945 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
114839 TCAAGGAGAC
* *
114849 TCATATGCTGTAAAAGCACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
*
114873 TCATCTTCTGCAAAAGCACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
*
114897 TCATCTTCTGCAAAAGCACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
114921 TCAT-TGGCTGC-AAAGCACAAGCT
1 TCATCT-GCTGCAAAAGCACAAGCT
114944 TC
1 TC
114946 TATAACTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 15 0.22
24 53 0.78
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (24 bp):
TCATCTGCTGCAAAAGCACAAGCT
Found at i:127866 original size:20 final size:20
Alignment explanation
Indices: 127822--127866 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
127812 TATATAATAT
* * *
127822 ATATAGTTTTTGAAGATATG
1 ATATAGTTTTTGAAAACATA
*
127842 GTATAGTTTTTGAAAACATA
1 ATATAGTTTTTGAAAACATA
127862 ATATA
1 ATATA
127867 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (20 bp):
ATATAGTTTTTGAAAACATA
Found at i:127924 original size:38 final size:37
Alignment explanation
Indices: 127847--128018 Score: 185
Period size: 38 Copynumber: 4.6 Consensus size: 37
127837 ATATGGTATA
* *
127847 GTTTTTGAAAACATA-AT-ATATA-TTTTTAAAAAACG
1 GTTTTTGAAAACATATATAATATAGTTTTTAAAACA-T
127882 GTTTTTGAAAACATATATAATATAGTTTTTGAAAACAT
1 GTTTTTGAAAACATATATAATATAGTTTTT-AAAACAT
* * * *
127920 GTTTTTAAAAACATA-AAATATATAGTTATTAAAACGT
1 GTTTTTGAAAACATATATA-ATATAGTTTTTAAAACAT
127957 -TTTTTGAAAACATATATAATATAGTTTTATAAAA-ACT
1 GTTTTTGAAAACATATATAATATAGTTTT-TAAAACA-T
*
127994 GATTTTTGAAAACGTATATAATATA
1 G-TTTTTGAAAACATATATAATATA
128019 TATAATCTTT
Statistics
Matches: 116, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
35 15 0.13
36 24 0.21
37 21 0.18
38 29 0.25
39 27 0.23
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (37 bp):
GTTTTTGAAAACATATATAATATAGTTTTTAAAACAT
Found at i:127969 original size:74 final size:73
Alignment explanation
Indices: 127847--128020 Score: 224
Period size: 74 Copynumber: 2.3 Consensus size: 73
127837 ATATGGTATA
* **
127847 GTTTTTGAAAACATAATATATATTTTTAAAAAACGGTTTTTGAAAACATATATAATATAGTTTT-
1 GTTTTTGAAAACATAAAATATATAGTTAAAAAACGGTTTTTGAAAACATATATAATATAGTTTTA
*
127911 TGAAAACAT
66 TAAAAAC-T
* * *
127920 GTTTTTAAAAACATAAAATATATAGTTATTAAAACGTTTTTTGAAAACATATATAATATAGTTTT
1 GTTTTTGAAAACATAAAATATATAGTTA-AAAAACGGTTTTTGAAAACATATATAATATAGTTTT
127985 ATAAAAACT
65 ATAAAAACT
*
127994 GATTTTTGAAAACGTATATAATATATA
1 G-TTTTTGAAAAC--ATAAAATATATA
128021 TAATCTTTGA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 24 0.28
74 36 0.41
75 16 0.18
77 11 0.13
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (73 bp):
GTTTTTGAAAACATAAAATATATAGTTAAAAAACGGTTTTTGAAAACATATATAATATAGTTTTA
TAAAAACT
Found at i:128068 original size:20 final size:20
Alignment explanation
Indices: 128031--128069 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
128021 TAATCTTTGA
* *
128031 AAATATAGTATGTTGTTTTT
1 AAATATAGTATATAGTTTTT
*
128051 AAATATATTATATAGTTTT
1 AAATATAGTATATAGTTTT
128070 AATACATATA
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:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
AAATATAGTATATAGTTTTT
Found at i:129758 original size:6 final size:6
Alignment explanation
Indices: 129747--129771 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
129737 TTTTAAAATA
129747 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
129772 TAAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:129770 original size:32 final size:32
Alignment explanation
Indices: 129734--129802 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
129724 GTATTATAAA
*
129734 ATATTTTAAAATATATATTTATATTTA-TATTT
1 ATATTTTAAAATATA-AATTATATTTATTATTT
* *
129766 ATATTTTAAAATTTAAATTATTTTTATTATTT
1 ATATTTTAAAATATAAATTATATTTATTATTT
129798 A-ATTT
1 ATATTT
129803 AGTTTTAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
ATATTTTAAAATATAAATTATATTTATTATTT
Found at i:132726 original size:8 final size:8
Alignment explanation
Indices: 132713--132737 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
132703 GCTCTCAACT
132713 CTCCTCCC
1 CTCCTCCC
132721 CTCCTCCC
1 CTCCTCCC
132729 CTCCTCCC
1 CTCCTCCC
132737 C
1 C
132738 ATTTCTCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (8 bp):
CTCCTCCC
Found at i:134425 original size:121 final size:121
Alignment explanation
Indices: 134226--134446 Score: 325
Period size: 121 Copynumber: 1.8 Consensus size: 121
134216 CTTCTACACA
* * * *
134226 TTGAGAAGATCTGGTCGGTGGACGACATTGTTCCTACGTGATGAGGACATATAGTTGTCTTTAGG
1 TTGAGAAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGATGAGGACATATAGTTATCTTCAGG
* ** *
134291 GATAATTTGGAGACAACATGGTTCCTACGTGATGAGGATGAAACTACTCCTTCGCG
66 GATAATTTAGAGACAACATAATTCCTACATGATGAGGATGAAACTACTCCTTCGCG
* ** *
134347 TTGAGGAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGATGAGGATGTTTAGTTATCTTCAGG
1 TTGAGAAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGATGAGGACATATAGTTATCTTCAGG
*
134412 GGTAATTTAGAGACAACATAATTCCTACATGATGA
66 GATAATTTAGAGACAACATAATTCCTACATGATGA
134447 AAAAGTCTGA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
121 87 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (121 bp):
TTGAGAAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGATGAGGACATATAGTTATCTTCAGG
GATAATTTAGAGACAACATAATTCCTACATGATGAGGATGAAACTACTCCTTCGCG
Found at i:134575 original size:139 final size:139
Alignment explanation
Indices: 134323--134641 Score: 413
Period size: 139 Copynumber: 2.3 Consensus size: 139
134313 TCCTACGTGA
* * *
134323 TGAGGATGAAACTACTCCTTCGCGTTGAGGAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGA
1 TGAGGATGACACTGCTCTTTCGCGTTGAGGAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGA
* * * * * * *
134388 TGAGGATGTTTAGTTATCTTCAGGGGTAATTTAGAGACAACATAATTCCTACATGATGAAAAAGT
66 TAAGGACGTCTAGTCATCTTCAGGGATAATTTAGAGACAACACAATTCCTACATGATCAAAAAGT
134453 CTGATTGTC
131 CTGATTGTC
* * * * *
134462 TGAGGATGACACTGCTCTTTCGCATTGAGGAGATTTGGTCGGTGGATGACATTGTTCCTACGTGA
1 TGAGGATGACACTGCTCTTTCGCGTTGAGGAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGA
* * * * **
134527 TAAGGACGTCTAGTCATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGTGATCAGGAAGT
66 TAAGGACGTCTAGTCATCTTCAGGGATAATTTAGAGACAACACAATTCCTACATGATCAAAAAGT
134592 CTGATTGTC
131 CTGATTGTC
* * * *
134601 TGAGGATAACATTGCTCTTTTGTGTTGAGGAGATCTGGTCA
1 TGAGGATGACACTGCTCTTTCGCGTTGAGGAGATCTGGTCA
134642 TAGTTGATGA
Statistics
Matches: 152, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
139 152 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (139 bp):
TGAGGATGACACTGCTCTTTCGCGTTGAGGAGATCTGGTCAGTGGACGAAATTGTTCCTACGTGA
TAAGGACGTCTAGTCATCTTCAGGGATAATTTAGAGACAACACAATTCCTACATGATCAAAAAGT
CTGATTGTC
Found at i:135636 original size:15 final size:15
Alignment explanation
Indices: 135613--135651 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
135603 CCTGAACCCC
*
135613 TTTTATTTTATTCAT
1 TTTTCTTTTATTCAT
* *
135628 TTTTCTTTTTTTCTT
1 TTTTCTTTTATTCAT
135643 TTTTCTTTT
1 TTTTCTTTT
135652 CCTTTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTATTCAT
Found at i:135644 original size:7 final size:7
Alignment explanation
Indices: 135613--135680 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
135603 CCTGAACCCC
*
135613 TTTTATT
1 TTTTCTT
*
135620 TTATTCAT
1 TT-TTCTT
135628 TTTTCTTT
1 TTTTC-TT
135636 TTTTCTT
1 TTTTCTT
135643 TTTTC-T
1 TTTTCTT
*
135649 TTTCCTT
1 TTTTCTT
135656 TTTT-TCT
1 TTTTCT-T
*
135663 CTTTCTT
1 TTTTCTT
135670 TTTTCTT
1 TTTTCTT
135677 TTTT
1 TTTT
135681 TTTCATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
6 6 0.12
7 31 0.63
8 12 0.24
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:135651 original size:20 final size:21
Alignment explanation
Indices: 135627--135681 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
135617 ATTTTATTCA
135627 TTTTTCTTTTTTTCT-TTT-T
1 TTTTTCTTTTTTTCTCTTTCT
135646 TCTTTTCCTTTTTTTCTCTTTCT
1 T-TTTT-CTTTTTTTCTCTTTCT
135669 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
135682 TTCATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
21 18 0.56
22 7 0.22
23 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTTTTTTTCTCTTTCT
Found at i:135667 original size:15 final size:13
Alignment explanation
Indices: 135636--135683 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
135626 ATTTTTCTTT
135636 TTTTC-TTTTTTC
1 TTTTCTTTTTTTC
135648 TTTTCCTTTTTTTC
1 TTTT-CTTTTTTTC
135662 TCTTTC-TTTTTTC
1 T-TTTCTTTTTTTC
135675 TTTT-TTTTT
1 TTTTCTTTTT
135684 CATTTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.34
13 9 0.28
14 9 0.28
15 3 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:137934 original size:16 final size:18
Alignment explanation
Indices: 137908--137940 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
137898 CATATATACT
137908 TTATACATGTAT-CATAA
1 TTATACATGTATGCATAA
137925 TTAT-CATGTATGCATA
1 TTATACATGTATGCATA
137941 TTCATAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (18 bp):
TTATACATGTATGCATAA
Found at i:141373 original size:15 final size:17
Alignment explanation
Indices: 141353--141385 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
141343 TAACTATCAA
141353 TAAAGAA-T-AAAGAGT
1 TAAAGAATTGAAAGAGT
141368 TAAAGAATTGAAAGAGT
1 TAAAGAATTGAAAGAGT
141385 T
1 T
141386 TTCTATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (17 bp):
TAAAGAATTGAAAGAGT
Found at i:145091 original size:61 final size:59
Alignment explanation
Indices: 145022--145145 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 59
145012 CGAATTTATA
* * * * *
145022 AAATTCTAAGACGACAATAATA-AATATCAATTGAAAATATAAAATATATTTAAAATTTTC
1 AAATTCTAAAACGACAATAACATAATATCAATTAAAAAT-TAAAA-AAATCTAAAATTTTC
* *
145082 AAATGTCTAAAACGATAATAACATATTATCAATTAAAAATTAAAAAAATCTAAAATTTTC
1 AAAT-TCTAAAACGACAATAACATAATATCAATTAAAAATTAAAAAAATCTAAAATTTTC
145142 AAAT
1 AAAT
145146 AAACGACTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 21 0.38
61 20 0.36
62 14 0.25
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (59 bp):
AAATTCTAAAACGACAATAACATAATATCAATTAAAAATTAAAAAAATCTAAAATTTTC
Found at i:145986 original size:2 final size:2
Alignment explanation
Indices: 145976--146012 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
145966 TTATTTTTTC
145976 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
146013 GAGATACGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:151150 original size:25 final size:25
Alignment explanation
Indices: 151116--151185 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
151106 AATAACGCCA
*
151116 ATAAACCAAGACATTGCATCTATAT
1 ATAAACCAAGGCATTGCATCTATAT
151141 ATAAACCAAGGCATTGCATCTATAT
1 ATAAACCAAGGCATTGCATCTATAT
151166 ATAAACCAAGGCATTGCATC
1 ATAAACCAAGGCATTGCATC
151186 AGATAGAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (25 bp):
ATAAACCAAGGCATTGCATCTATAT
Found at i:155803 original size:3 final size:3
Alignment explanation
Indices: 155795--155833 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
155785 TTCCCACTTG
*
155795 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
155834 TTCTGTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:161820 original size:31 final size:31
Alignment explanation
Indices: 161782--161858 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
161772 TTTTTTTAAA
161782 AATTTAGGTACTAAAATGGATCAAAACTAAT
1 AATTTAGGTACTAAAATGGATCAAAACTAAT
*
161813 AATTTAGGTACTAAAATGTATCAAAACTAAT
1 AATTTAGGTACTAAAATGGATCAAAACTAAT
*
161844 AGTTTAGGTACTAAA
1 AATTTAGGTACTAAA
161859 CGCGTTAAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (31 bp):
AATTTAGGTACTAAAATGGATCAAAACTAAT
Found at i:164577 original size:3 final size:3
Alignment explanation
Indices: 164569--164618 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
164559 GTCTTGTAAC
* * *
164569 TAA TAA TAA TAA T-A TGA TAA TAA TAG TAA TAA T-A TAA T-A TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
164614 TAA TA
1 TAA TA
164619 TATGCAAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:164590 original size:14 final size:13
Alignment explanation
Indices: 164571--164618 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
164561 CTTGTAACTA
164571 ATAATAATAATAT
1 ATAATAATAATAT
*
164584 GATAATAATAGTA-
1 -ATAATAATAATAT
164597 ATAAT-ATAATAT
1 ATAATAATAATAT
164609 AGTAATAATA
1 A-TAATAATA
164619 TATGCAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 5 0.17
12 6 0.21
13 4 0.14
14 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:164612 original size:16 final size:17
Alignment explanation
Indices: 164569--164620 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
164559 GTCTTGTAAC
*
164569 TAATAATAATAAT-ATGA
1 TAATAATAGTAATAAT-A
164586 TAATAATAGTAATAATA
1 TAATAATAGTAATAATA
164603 TAAT-ATAGTAATAATA
1 TAATAATAGTAATAATA
164619 TA
1 TA
164621 TGCAAACTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 14 0.42
17 17 0.52
18 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
TAATAATAGTAATAATA
Found at i:165003 original size:42 final size:42
Alignment explanation
Indices: 164946--165027 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
164936 AAGGACATAT
* * * *
164946 CATCTTGCTCAAAAGATTGACAAATGACCCTAAGGATTTAAA
1 CATCATGCTCAAAAGACTAACAAATGACCCGAAGGATTTAAA
* * *
164988 CATCATGCTCGAAAGACTAACATATGACTCGAAGGATTTA
1 CATCATGCTCAAAAGACTAACAAATGACCCGAAGGATTTA
165028 CAAATTTGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (42 bp):
CATCATGCTCAAAAGACTAACAAATGACCCGAAGGATTTAAA
Found at i:174476 original size:20 final size:21
Alignment explanation
Indices: 174438--174476 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
174428 CATCAAGGTC
*
174438 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
174459 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
174477 TCCTGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:178384 original size:17 final size:17
Alignment explanation
Indices: 178358--178391 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
178348 ATGGTCAGTT
178358 CCATTGTCATTATTTCA
1 CCATTGTCATTATTTCA
*
178375 CCATTTTCATTATTTCA
1 CCATTGTCATTATTTCA
178392 ATGATCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.50
Consensus pattern (17 bp):
CCATTGTCATTATTTCA
Found at i:183142 original size:24 final size:22
Alignment explanation
Indices: 183103--183147 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
183093 AAATACGGTA
*
183103 TGAACAGTAATGAACAATACCG
1 TGAACAGTAATAAACAATACCG
*
183125 TGAACAGTACAATAAACAGTACC
1 TGAACAGT--AATAAACAATACC
183148 AAATTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (22 bp):
TGAACAGTAATAAACAATACCG
Found at i:184081 original size:31 final size:31
Alignment explanation
Indices: 184027--184091 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
184017 GAACCTCGGC
*
184027 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
* * * *
184058 AACTGTCTATATGTTCCATAGAACATAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
184089 AAC
1 AAC
184092 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCAAAGAACATAGGTA
Found at i:188617 original size:3 final size:3
Alignment explanation
Indices: 188609--188661 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
188599 GTCTTGTAAC
* *
188609 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAG TAA TAA T-A TAA T-A TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
188654 TAA TAA TA
1 TAA TAA TA
188662 TATGCAAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 6 0.14
3 37 0.86
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:188628 original size:14 final size:14
Alignment explanation
Indices: 188609--188661 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
188599 GTCTTGTAAC
188609 TAATAATAATAATA
1 TAATAATAATAATA
188623 TAATAATAATAATA
1 TAATAATAATAATA
188637 GTAATAAT-ATAATA
1 -TAATAATAATAATA
*
188651 TAGTAATAATA
1 TAATAATAATA
188662 TATGCAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
13 6 0.17
14 23 0.64
15 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAATAATAATAATA
Done.