Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000025.1 Hibiscus syriacus cultivar Beakdansim tig00000043_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: 157947
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:7467 original size:26 final size:26
Alignment explanation
Indices: 7431--7500 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
7421 TCCAGGAGTG
7431 CTTAACGAGTTGACTCGACTCGAGAT
1 CTTAACGAGTTGACTCGACTCGAGAT
7457 CTTAACGAGTTGACTCGACTCGAGAT
1 CTTAACGAGTTGACTCGACTCGAGAT
*
7483 CTTAACGAGTTGAATCGA
1 CTTAACGAGTTGACTCGA
7501 ACAAAGTCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTAACGAGTTGACTCGACTCGAGAT
Found at i:7770 original size:21 final size:21
Alignment explanation
Indices: 7744--7785 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7734 TTTTTTTAGT
7744 GAGCTTAACAAGCAACGAGTC
1 GAGCTTAACAAGCAACGAGTC
* *
7765 GAGCTTAACGAGCAATGAGTC
1 GAGCTTAACAAGCAACGAGTC
7786 AAGTTGAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (21 bp):
GAGCTTAACAAGCAACGAGTC
Found at i:7795 original size:21 final size:21
Alignment explanation
Indices: 7745--7800 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
7735 TTTTTTAGTG
* * *
7745 AGCTTAACAAGCAACGAGTCG
1 AGCTTAACGAGCAATGAGTCA
7766 AGCTTAACGAGCAATGAGTCA
1 AGCTTAACGAGCAATGAGTCA
7787 AG-TTGAACGA-CAAT
1 AGCTT-AACGAGCAAT
7801 TTTTTTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (21 bp):
AGCTTAACGAGCAATGAGTCA
Found at i:12704 original size:12 final size:12
Alignment explanation
Indices: 12679--12717 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
12669 ATTAAAATTA
*
12679 AATAA-ATAAGT
1 AATAATATAAAT
12690 AATAATATAAAT
1 AATAATATAAAT
*
12702 AATAATAAAAAT
1 AATAATATAAAT
12714 AATA
1 AATA
12718 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:12715 original size:16 final size:16
Alignment explanation
Indices: 12678--12711 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12668 AATTAAAATT
12678 AAATAAATAAGTAATA
1 AAATAAATAAGTAATA
*
12694 ATATAAATAA-TAATA
1 AAATAAATAAGTAATA
12709 AAA
1 AAA
12712 ATAATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATAAATAAGTAATA
Found at i:12813 original size:28 final size:26
Alignment explanation
Indices: 12753--12817 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
12743 ATTTTCAAAA
* *
12753 ATATTTTC-AAAACTGTATATTATAT
1 ATATTTTCAAAAACTATACATTATAT
*
12778 ATGTTTTCAAAAACTATACATTATAT
1 ATATTTTCAAAAACTATACATTATAT
12804 ATACATTTTCAAAA
1 AT--ATTTTCAAAA
12818 TGTTTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 7 0.21
26 17 0.52
28 9 0.27
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (26 bp):
ATATTTTCAAAAACTATACATTATAT
Found at i:12826 original size:39 final size:38
Alignment explanation
Indices: 12778--13085 Score: 341
Period size: 37 Copynumber: 8.0 Consensus size: 38
12768 TATATTATAT
* *
12778 ATGTTTTCAAAAACTATACATTATATATACATTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATA-GTTTTCAAA
12817 ATGTTTTCAAAAAC--TATA-TATATAT-G-TTTCAAAA
1 ATGTTTTCAAAAACTATATATTATATATAGTTTTC-AAA
*
12851 ATGTTTTC-AAAACTATATATTATATA-AGTTTTTAAA
1 ATGTTTTCAAAAACTATATATTATATATAGTTTTCAAA
* *
12887 ATGTTTTCAAAAACTATATTATATATATATATATATATATATATTCAA
1 ATGTTTTCAAAAACTATA-TAT-TATATATA-GT-T-T-T-CA---AA
*
12935 AATGTTTTCAAAAACTATATATTATATAT-GTTTTTAAA
1 A-TGTTTTCAAAAACTATATATTATATATAGTTTTCAAA
12973 ATGTTTTCAAAAACTATATATTATATAT-GTTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATAGTTTTCAAA
* *
13010 ATGTTTTCAAAAACTATACATTATATATATTTTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATA-GTTTTCAAA
13049 ATGTTTTCAAAAACTATATATTATATATA--TTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATAGTTTTCAAA
13085 A
1 A
13086 ACCGATTAAA
Statistics
Matches: 239, Mismatches: 9, Indels: 45
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.04
34 11 0.05
35 4 0.02
36 33 0.14
37 77 0.32
38 6 0.03
39 56 0.23
40 1 0.00
41 3 0.01
42 2 0.01
43 2 0.01
44 2 0.01
45 3 0.01
47 7 0.03
48 6 0.03
49 17 0.07
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (38 bp):
ATGTTTTCAAAAACTATATATTATATATAGTTTTCAAA
Found at i:12913 original size:2 final size:2
Alignment explanation
Indices: 12901--12930 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12891 TTTCAAAAAC
12901 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12931 TCAAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13122 original size:76 final size:76
Alignment explanation
Indices: 12912--13124 Score: 197
Period size: 76 Copynumber: 2.8 Consensus size: 76
12902 ATATTATATA
* * * * **
12912 TATATATATATATAT-ATATTCAAAATGTTTTCAAAAACTATATATTATATATGTT-TTT-AAAA
1 TATATAT-TATATATGAT-TTCAAAACGTATTCAAAAACTATACATTATAAAAATTCTTTCAAAA
12974 TGTTTTCAAAAAC
64 TGTTTTCAAAAAC
* * * * * *
12987 TATATATTATATATGTTTTCAAAATGTTTTCAAAAACTATACATTATATATATTTTTTCAAAATG
1 TATATATTATATATGATTTCAAAACGTATTCAAAAACTATACATTATAAAAATTCTTTCAAAATG
13052 TTTTCAAAAAC
66 TTTTCAAAAAC
**
13063 TATATATTATATAT-ATTTCAAAAACCG-ATT-AAAAACTATATGTT-TCAAAAAATTCTTTCAA
1 TATATATTATATATGATTTC-AAAA-CGTATTCAAAAACTATACATTAT--AAAAATTCTTTCAA
13124 A
62 A
13125 GACTATGATA
Statistics
Matches: 120, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
74 43 0.36
75 27 0.22
76 49 0.41
77 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (76 bp):
TATATATTATATATGATTTCAAAACGTATTCAAAAACTATACATTATAAAAATTCTTTCAAAATG
TTTTCAAAAAC
Found at i:20402 original size:19 final size:19
Alignment explanation
Indices: 20378--20425 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
20368 TTAGAATTGT
* *
20378 GTTTGAATTTGTGACTGTA
1 GTTTGAATTGGTGACCGTA
20397 GTTTGAATTGGTGACCGTA
1 GTTTGAATTGGTGACCGTA
20416 GTTTGAATTG
1 GTTTGAATTG
20426 TAAATCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (19 bp):
GTTTGAATTGGTGACCGTA
Found at i:26961 original size:14 final size:14
Alignment explanation
Indices: 26942--26981 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
26932 CCATTATTCC
26942 CATATAGATCTCCT
1 CATATAGATCTCCT
26956 CATATAGATCTCCT
1 CATATAGATCTCCT
*
26970 CATCTAGATCTC
1 CATATAGATCTC
26982 TATTCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (14 bp):
CATATAGATCTCCT
Found at i:47723 original size:19 final size:19
Alignment explanation
Indices: 47699--47736 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
47689 GAGAATAAAG
*
47699 GAATGAAGAAGAGAAGAGA
1 GAATGAAAAAGAGAAGAGA
*
47718 GAATGAAAAAGTGAAGAGA
1 GAATGAAAAAGAGAAGAGA
47737 AGAAGATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.34, T:0.08
Consensus pattern (19 bp):
GAATGAAAAAGAGAAGAGA
Found at i:49659 original size:16 final size:17
Alignment explanation
Indices: 49627--49660 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49617 TTATATGAAT
*
49627 TTTCGGATATCTGAAAA
1 TTTCGGATACCTGAAAA
49644 TTTCGGATACCT-AAAA
1 TTTCGGATACCTGAAAA
49660 T
1 T
49661 AATGATTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (17 bp):
TTTCGGATACCTGAAAA
Found at i:49727 original size:21 final size:21
Alignment explanation
Indices: 49689--49728 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49679 TGAAAAATAA
*
49689 GATATCCGAAATTTCGGATTG
1 GATATCCGAAATTCCGGATTG
49710 GATATCC-AAATATCCGGAT
1 GATATCCGAAAT-TCCGGAT
49729 CCAAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
GATATCCGAAATTCCGGATTG
Found at i:50929 original size:64 final size:64
Alignment explanation
Indices: 50823--50948 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 64
50813 TATCATAAGA
*
50823 GATTGTTAGAGGATACTCTATGAAGAACCTCTCTCCTAGGTGTGCAATAAAAATTGAACTGCCT
1 GATTATTAGAGGATACTCTATGAAGAACCTCTCTCCTAGGTGTGCAATAAAAATTGAACTGCCT
*
50887 GATTATTAGAGGATACTCTATGAAGAACCTCTCTCCTAGGTGTGCAATAAAAATTGACCTGC
1 GATTATTAGAGGATACTCTATGAAGAACCTCTCTCCTAGGTGTGCAATAAAAATTGAACTGC
50949 AAAAGGAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (64 bp):
GATTATTAGAGGATACTCTATGAAGAACCTCTCTCCTAGGTGTGCAATAAAAATTGAACTGCCT
Found at i:53554 original size:37 final size:37
Alignment explanation
Indices: 53504--53578 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
53494 CTATAGCTAC
*
53504 TGCATTTGGTTTGAAAATGCTCATTCCTACGTAATCT
1 TGCATTTGGTTTGAAAATGCTCATTCCTACATAATCT
53541 TGCATTTGGTTTGAAAATGCTCATTCCTACATAATCT
1 TGCATTTGGTTTGAAAATGCTCATTCCTACATAATCT
53578 T
1 T
53579 TTCTTTTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (37 bp):
TGCATTTGGTTTGAAAATGCTCATTCCTACATAATCT
Found at i:54882 original size:18 final size:17
Alignment explanation
Indices: 54832--54883 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
54822 TTTAATTTTG
54832 TTTTA-TTTTATTTCAAC
1 TTTTATTTTTATTT-AAC
*
54849 TTTTATTTTTACTTTAAGT
1 TTTTATTTTTA-TTTAA-C
54868 TTTTATTTTTATTTAA
1 TTTTATTTTTATTTAA
54884 AAAAAGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 5 0.16
18 12 0.39
19 14 0.45
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTATTTTTATTTAAC
Found at i:55987 original size:21 final size:21
Alignment explanation
Indices: 55922--55988 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
55912 ATTCTGACTA
* *
55922 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCTAAT
**
55943 TTACGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
55964 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
55985 TCGC
1 TCGC
55989 AATGCGAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCTAAT
Found at i:56010 original size:20 final size:20
Alignment explanation
Indices: 55985--56037 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
55975 TTTTCCTAAT
55985 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
56005 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
56025 TCGCAACGCGAAT
1 TCGCAATGCGAAT
56038 CTGACTATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:56262 original size:22 final size:22
Alignment explanation
Indices: 56237--56297 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
56227 CATCCGTCCT
56237 CATCTCCGACGAAATCAATCCC
1 CATCTCCGACGAAATCAATCCC
* * *
56259 CATCTCCGACGATATCAGTCTC
1 CATCTCCGACGAAATCAATCCC
*
56281 CATCTCCGGCGAAATCA
1 CATCTCCGACGAAATCA
56298 TTCACGGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.28, C:0.38, G:0.13, T:0.21
Consensus pattern (22 bp):
CATCTCCGACGAAATCAATCCC
Found at i:56721 original size:20 final size:20
Alignment explanation
Indices: 56633--56722 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
56623 GCGATTCTGT
56633 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
** **
56652 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
* **
56672 CATTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
56692 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
56712 TGTTGCGATTT
1 CGTTGCGATTT
56723 AAAGTTTCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 48 0.80
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:56730 original size:20 final size:20
Alignment explanation
Indices: 56687--56730 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
56677 CGATAGTCAT
** *
56687 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
56707 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
56727 TTTC
1 TTTC
56731 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:58637 original size:20 final size:20
Alignment explanation
Indices: 58612--58777 Score: 220
Period size: 20 Copynumber: 8.6 Consensus size: 20
58602 ATAATAGTTT
58612 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
58632 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
58652 ACTATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
* *
58668 A--ATTGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
58686 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
58706 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
58726 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
58746 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
58766 ACTATCGCAATG
1 ACTATCGCAATG
58778 AAAGAATCGC
Statistics
Matches: 130, Mismatches: 8, Indels: 16
0.84 0.05 0.10
Matches are distributed among these distances:
14 6 0.05
16 4 0.03
17 4 0.03
18 4 0.03
20 112 0.86
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:58705 original size:54 final size:56
Alignment explanation
Indices: 58615--58813 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 56
58605 ATAGTTTACT
*
58615 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAAC-AACAA-A-
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAA-AAGAC
* *
58669 ATTGCAACGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATACGAAAATGAC
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGC-A-ACGAAAA-GAC
** *
58728 TATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAATG-AAAGA-
1 -ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAAGAC
** *
58783 ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
58814 TTCTCTCGTT
Statistics
Matches: 127, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
53 17 0.13
54 53 0.42
55 1 0.01
56 6 0.05
57 5 0.04
58 3 0.02
59 1 0.01
60 41 0.32
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (56 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAAGAC
Found at i:58798 original size:21 final size:19
Alignment explanation
Indices: 58666--58813 Score: 81
Period size: 20 Copynumber: 7.8 Consensus size: 19
58656 TCGCAACAAC
* *
58666 AAAATTGCAACGCGAAAATG
1 AAAATCGCAATGCG-AAATG
**
58686 ACTATCGCAATGCGAAAATG
1 AAAATCGCAATGCG-AAATG
** *
58706 ACTATCGCAATACGAAAATG
1 AAAATCGCAATGCG-AAATG
**
58726 ACTATCGCAATGCGAAAATG
1 AAAATCGCAATGCG-AAATG
** *
58746 ACTATCGCAATGCGAATTTG
1 AAAATCGCAATGCGAA-ATG
**
58766 ACTATCGCAAT--GAAA-G
1 AAAATCGCAATGCGAAATG
58782 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
58799 AAAATCGCATTGCGA
1 AAAATCGCAATGCGA
58814 TTCTCTCGTT
Statistics
Matches: 112, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.07
16 5 0.04
17 1 0.01
18 3 0.03
19 14 0.12
20 81 0.72
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:58851 original size:20 final size:21
Alignment explanation
Indices: 58826--58888 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
58816 CTCTCGTTGT
58826 GATAGTCAAATTT-GCATTGC
1 GATAGTCAAATTTCGCATTGC
* *
58846 GATAGTC-ATTTTCGCGTTGC
1 GATAGTCAAATTTCGCATTGC
* *
58866 GATAGTC-ATTTTCGCGTTGC
1 GATAGTCAAATTTCGCATTGC
58886 GAT
1 GAT
58889 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.10
20 36 0.90
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (21 bp):
GATAGTCAAATTTCGCATTGC
Found at i:58898 original size:20 final size:20
Alignment explanation
Indices: 58820--58898 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
58810 GCGATTCTCT
* *
58820 CGTTGTGATAGTCAAATTT-G
1 CGTTGCGATAGT-AAGTTTCG
* * *
58840 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
58860 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
58880 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
58899 AGATTCTATT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.08
20 45 0.92
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:59413 original size:18 final size:19
Alignment explanation
Indices: 59374--59415 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
59364 CTCACCTGTC
59374 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
59395 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
59413 ATC
1 ATC
59416 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:59469 original size:42 final size:42
Alignment explanation
Indices: 59397--59479 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
59387 CCTCCCCTAT
* *
59397 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCACTCAAGAGGT-CCCTCCCAC
* * *
59439 CGTTCAAGAGGCCACTGTCATCATTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCACTCAAGAGGTCCCTCCCA
59480 ACATTCTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.39, G:0.18, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCACTCAAGAGGTCCCTCCCAC
Found at i:61051 original size:33 final size:33
Alignment explanation
Indices: 61001--61096 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
60991 AAAACAGACT
* **
61001 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
61035 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
61068 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
61097 CGAAACTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:61155 original size:34 final size:33
Alignment explanation
Indices: 61112--61195 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
61102 CTAAATTCAT
*
61112 GTTGCGATTTTCATTTTCATATTGCGATTCACTC
1 GTTGCGATTTTCA-TTTCACATTGCGATTCACTC
* * *
61146 GTTGTGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCACATTGCGATTCACTC
**
61179 GTTGCGATAGTCATTTC
1 GTTGCGATTTTCATTTC
61196 CGCGTTACGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCACATTGCGATTCACTC
Found at i:61174 original size:33 final size:34
Alignment explanation
Indices: 61112--61186 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
61102 CTAAATTCAT
*
61112 GTTGCGATTTTCATTTTCATATTGCGATTCACTC
1 GTTGCGATTTTCATTTTCACATTGCGATTCACTC
* * *
61146 GTTGTGATTTTCA-TTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTTCACATTGCGATTCACTC
61179 GTTGCGAT
1 GTTGCGAT
61187 AGTCATTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (34 bp):
GTTGCGATTTTCATTTTCACATTGCGATTCACTC
Found at i:61206 original size:20 final size:19
Alignment explanation
Indices: 61178--61271 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 19
61168 GCGATTCTCT
61178 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
61198 CGTTACGATAGTCAATTTCG
1 CGTTGCGATAGTC-ATTTCG
61218 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
61238 TGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAT-TTCG
61258 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
61272 AATAAATGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.03
20 61 0.91
21 4 0.06
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:63720 original size:24 final size:24
Alignment explanation
Indices: 63686--63739 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
63676 CTGAAAAATC
63686 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
63710 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
63734 ATCAAA
1 ATCAAA
63740 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:63753 original size:24 final size:24
Alignment explanation
Indices: 63686--63753 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
63676 CTGAAAAATC
* * *
63686 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
63710 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
63734 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
63754 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:64621 original size:20 final size:20
Alignment explanation
Indices: 64581--64621 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
64571 TTCAGTATTA
*
64581 CGATAGTCAGAATCTCATTG
1 CGATAGTCAGAATCGCATTG
* *
64601 CGATAGTCAGATTCGCGTTG
1 CGATAGTCAGAATCGCATTG
64621 C
1 C
64622 TATTTACGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (20 bp):
CGATAGTCAGAATCGCATTG
Found at i:64634 original size:20 final size:20
Alignment explanation
Indices: 64611--64723 Score: 199
Period size: 20 Copynumber: 5.7 Consensus size: 20
64601 CGATAGTCAG
* *
64611 ATTCGCGTTGCTATTTACGT
1 ATTCGCATTGCGATTTACGT
*
64631 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
64651 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
64671 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
64691 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
64711 ATTCGCATTGCGA
1 ATTCGCATTGCGA
64724 ATTAAGAAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:64744 original size:21 final size:21
Alignment explanation
Indices: 64720--64760 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64710 TATTCGCATT
64720 GCGAATTA-AGAAAATCGCAAC
1 GCGAATTAGA-AAAATCGCAAC
*
64741 GCGAATTTGAAAAATCGCAA
1 GCGAATTAGAAAAATCGCAA
64761 TGCTACAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:64837 original size:19 final size:19
Alignment explanation
Indices: 64813--64863 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
64803 CGATACCGGA
*
64813 GATCGCGTTGCGAATTATC
1 GATCGCATTGCGAATTATC
64832 GATCGCATTGCGAATTATC
1 GATCGCATTGCGAATTATC
64851 GATCGCATTGCGA
1 GATCGCATTGCGA
64864 TTTAGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Found at i:66860 original size:39 final size:39
Alignment explanation
Indices: 66812--66924 Score: 109
Period size: 39 Copynumber: 2.9 Consensus size: 39
66802 AAATATGAAG
*
66812 ACTCTATGACTGCATGGCGTCTTCAGGTAAATAAAGAAA
1 ACTCCATGACTGCATGGCGTCTTCAGGTAAATAAAGAAA
*** * ** *
66851 ACTCCATGACTGCATGATATCTTCAGGCAAATGGAGAAG
1 ACTCCATGACTGCATGGCGTCTTCAGGTAAATAAAGAAA
* * * * *
66890 ACTCCAAGAGTGCACGGCGTCTTCAGATCAATAAA
1 ACTCCATGACTGCATGGCGTCTTCAGGTAAATAAA
66925 AAACCCTAGT
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (39 bp):
ACTCCATGACTGCATGGCGTCTTCAGGTAAATAAAGAAA
Found at i:67825 original size:24 final size:24
Alignment explanation
Indices: 67798--67845 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
67788 AAGCGGCGGA
67798 GGGAAACGTATATTTAAATAATGT
1 GGGAAACGTATATTTAAATAATGT
67822 GGGAAACGTATATTTAAATAATGT
1 GGGAAACGTATATTTAAATAATGT
67846 ATTGGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (24 bp):
GGGAAACGTATATTTAAATAATGT
Found at i:69600 original size:35 final size:35
Alignment explanation
Indices: 69561--69638 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
69551 AGAATTGATT
*
69561 TAATATCGTTTTAGGCATCAATAGTCACGCCAGAA
1 TAATATCGTTTTAGGCATCAATAGCCACGCCAGAA
69596 TAATATCGTTTTAGGCATCAATAGCCACGCCAGAA
1 TAATATCGTTTTAGGCATCAATAGCCACGCCAGAA
69631 TAATATCG
1 TAATATCG
69639 GTTTGTCCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (35 bp):
TAATATCGTTTTAGGCATCAATAGCCACGCCAGAA
Found at i:74678 original size:12 final size:12
Alignment explanation
Indices: 74657--74687 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
74647 ACTCTTAATT
*
74657 ATTTAATTTAAA
1 ATTTATTTTAAA
74669 ATTTATTTTAAA
1 ATTTATTTTAAA
74681 ATTTATT
1 ATTTATT
74688 AAATATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTATTTTAAA
Found at i:76426 original size:22 final size:21
Alignment explanation
Indices: 76395--76450 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
76385 CACAAGAAAA
*
76395 CTAAGAAGAAAAAGAATATTTT
1 CTAAGGAGAAAAA-AATATTTT
76417 CTAAGGAG-AAAAAATATTTT
1 CTAAGGAGAAAAAAATATTTT
76437 -TCAA-GAGAAAAAAA
1 CT-AAGGAGAAAAAAA
76451 AATTCTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 16 0.52
21 4 0.13
22 7 0.23
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.23
Consensus pattern (21 bp):
CTAAGGAGAAAAAAATATTTT
Found at i:76446 original size:19 final size:19
Alignment explanation
Indices: 76400--76449 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
76390 GAAAACTAAG
76400 AAGA-AAAAGAATATTTTCT
1 AAGAGAAAA-AATATTTTCT
76419 AAGGAGAAAAAATATTTT-T
1 AA-GAGAAAAAATATTTTCT
76438 CAAGAGAAAAAA
1 -AAGAGAAAAAA
76450 AAATTCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 12 0.43
20 12 0.43
21 4 0.14
ACGTcount: A:0.58, C:0.04, G:0.14, T:0.24
Consensus pattern (19 bp):
AAGAGAAAAAATATTTTCT
Found at i:76450 original size:20 final size:20
Alignment explanation
Indices: 76401--76460 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
76391 AAAACTAAGA
76401 AGAAAAAGAATA-TTTTCTAAG
1 AGAAAAA-AATATTTTTC-AAG
76422 -GAGAAAAAATATTTTTCAAG
1 AGA-AAAAAATATTTTTCAAG
* *
76442 AGAAAAAAAAATTCTTCAA
1 AGAAAAAAATATTTTTCAA
76461 TTCTAAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 23 0.68
21 11 0.32
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.27
Consensus pattern (20 bp):
AGAAAAAAATATTTTTCAAG
Found at i:76947 original size:189 final size:190
Alignment explanation
Indices: 76569--76979 Score: 515
Period size: 189 Copynumber: 2.2 Consensus size: 190
76559 AACATATAAG
* * * *
76569 AATATATTTTAATTTGAAATATTCAAAAGATAAAACTCTTTTTACCATTCAAACTTAAATATATA
1 AATATA-TTTAATTTGCAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAACATATA
* * *
76634 TTATTTTAATTTAAAATATACAAGAAATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTGA
65 TTATTTTAATTTAAAATATACAAGAAATATATAATTATCTTTAATATTCAAAATTAAAAAAGTAA
* * * * *
76699 CAAATACCTTTTCAAATTAACATATTCAAAGAGTAATTATCCTATAAATATTTAAATTAAA
130 CAAATAACTTTTCAAATTAACATATTAAAAAAATAATTATCCTATAAATATTCAAATTAAA
* * * *
76760 TAATATATTTAATTTGCAATGGTCAAAAGGT-AAACTCCTTTTACTATT-ATACTTAAACATATA
1 -AATATATTTAATTTGCAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAACATATA
* * * *
76823 TTATTTTAATTTGAAATATACAA-AAGTATATAATTATCTTTTAATATTTAAAATTAAAAAATTA
65 TTATTTTAATTTAAAATATACAAGAAATATATAATTATC-TTTAATATTCAAAATTAAAAAAGTA
* * *
76887 ACAAATAACTTTTTAAATTTACTTATTAAAAAAATAATTATCCTACT-AATATTCAAATTAAA
129 ACAAATAACTTTTCAAATTAACATATTAAAAAAATAATTATCCTA-TAAATATTCAAATTAAA
* *
76949 AATTATCTTTTAATTTACAATAGTCAAAAGA
1 AA-TAT-ATTTAATTTGCAATAGTCAAAAGA
76980 CTATGAATTT
Statistics
Matches: 188, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
188 16 0.09
189 110 0.59
190 36 0.19
191 20 0.11
192 6 0.03
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (190 bp):
AATATATTTAATTTGCAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAACATATAT
TATTTTAATTTAAAATATACAAGAAATATATAATTATCTTTAATATTCAAAATTAAAAAAGTAAC
AAATAACTTTTCAAATTAACATATTAAAAAAATAATTATCCTATAAATATTCAAATTAAA
Found at i:89624 original size:12 final size:12
Alignment explanation
Indices: 89590--89615 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89580 GAAAAAAATG
89590 AAAAATGAAAAA
1 AAAAATGAAAAA
89602 AAAAATGAAAAA
1 AAAAATGAAAAA
89614 AA
1 AA
89616 TGAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAATGAAAAA
Found at i:89684 original size:9 final size:9
Alignment explanation
Indices: 89570--89678 Score: 132
Period size: 9 Copynumber: 12.1 Consensus size: 9
89560 TTGCTTGAAG
89570 ATGAAAAAA
1 ATGAAAAAA
89579 A-GAAAAAA
1 ATGAAAAAA
89587 ATGAAAAATGA
1 ATGAAAAA--A
*
89598 A-AAAAAAA
1 ATGAAAAAA
89606 ATGAAAAAA
1 ATGAAAAAA
89615 ATGAAAAAA
1 ATGAAAAAA
*
89624 ATGAAGAAA
1 ATGAAAAAA
*
89633 ATGAAGAAA
1 ATGAAAAAA
*
89642 ATGAAGAAA
1 ATGAAAAAA
*
89651 ATGAAGAAA
1 ATGAAAAAA
*
89660 ATGAAGAAA
1 ATGAAAAAA
89669 ATGAAAAAA
1 ATGAAAAAA
89678 A
1 A
89679 ATAAAACAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
8 10 0.11
9 75 0.82
10 5 0.05
11 2 0.02
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:90987 original size:37 final size:37
Alignment explanation
Indices: 90946--91017 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
90936 CTTCGAAGCG
90946 AATCAAACT-CAAGCCTTCACGAAAGA-GTAGTGAAGTA
1 AATC-AACTACAAGCCTTCAC-AAAGAGGTAGTGAAGTA
* * *
90983 AATCATCTATAAGCCTTCACAATGAGGTAGTGAAG
1 AATCAACTACAAGCCTTCACAAAGAGGTAGTGAAG
91018 CAATAGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.77
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCAACTACAAGCCTTCACAAAGAGGTAGTGAAGTA
Found at i:91220 original size:54 final size:52
Alignment explanation
Indices: 91027--91641 Score: 941
Period size: 54 Copynumber: 11.5 Consensus size: 52
91017 GCAATAGAAG
* *
91027 ATTGTTCGAGTTCTACTCCCTGAAGAAAATAGGGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAGCGGACCCGTAGGAAGATT
91079 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAA-AGAGAGCGGA-CCCGTAGGAAGATT
91133 A-TGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
91185 ATTGTTCGAGTTCTTACTCCCTGAAGAATAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAA-AAGAGAGCGGACCCGTAGGAAGATT
91239 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAGCGGACCCGTAGGAAGATT
91292 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
*
91346 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACTCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAGCGGACCCGTAGGAAGATT
*
91399 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAAT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAA-AGAGAGCGGA-CCCGTAGGAAGATT
*
91453 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATC
1 ATTGTTCGAGTTCTACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
** *
91506 ATTGTTCGAGTTCTTACTAACTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAAT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAA-AGAGAGCGGA-CCCGTAGGAAGATT
*
91560 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGTGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
*
91614 ATTGTTGGAGTTCTACTCCCTGAAGAAA
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA
91642 TAGGGAGCAG
Statistics
Matches: 526, Mismatches: 16, Indels: 42
0.90 0.03 0.07
Matches are distributed among these distances:
52 54 0.10
53 208 0.40
54 256 0.49
55 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (52 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAGCGGACCCGTAGGAAGATT
Found at i:91312 original size:107 final size:107
Alignment explanation
Indices: 91027--91649 Score: 1044
Period size: 107 Copynumber: 5.8 Consensus size: 107
91017 GCAATAGAAG
91027 ATTGTTCGAGTTCTACTCCCTGAAGAAAATAG-G-GCGGACCCGTAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
91090 TCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGAAGATT
65 TCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGAAGATT
91133 A-TGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
91197 CTTACTCCCTGAAG-AATAAGAGAGCG-GACCCGTAGGAAGATT
66 CTTACTCCCTGAAGAAAT-AGAGAGCGAG-CCCGTAGGAAGATT
*
91239 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
*
91304 CTTACTCCCTGAAGAAAAAGAGAGCG-GACCCGTAGGAAGATT
66 CTTACTCCCTGAAGAAATAGAGAGCGAG-CCCGTAGGAAGATT
* *
91346 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACTCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
*
91411 CTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGAAGAAT
66 CTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGAAGATT
*
91453 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATCATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
** *
91518 CTTACTAACTGAAGAAATAGAGAGCGAGCCCGTAGGAAGAAT
66 CTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGAAGATT
* *
91560 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGTGGACCCGTAGGAAGATTATTGTTGGAGT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
*
91625 TC-TACTCCCTGAAGAAATAGGGAGC
65 TCTTACTCCCTGAAGAAATAGAGAGC
91650 AGACACGATT
Statistics
Matches: 493, Mismatches: 16, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
104 2 0.00
105 32 0.06
106 69 0.14
107 337 0.68
108 53 0.11
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (107 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
CTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGAAGATT
Found at i:91705 original size:55 final size:55
Alignment explanation
Indices: 91641--91748 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
91631 CCCTGAAGAA
* *
91641 ATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTT-ATGC-TCTCTGAAAGC
1 ATAGAGAGCAGACACGATTGTTGAAGATTGTGCGAGT-TTCATGCATC-CTGAAAGC
* *
91696 ATAGAGAGCAGAGACGTTTGTTGAAGATTGTGCGAGTTTCATGCATCCTGAAA
1 ATAGAGAGCAGACACGATTGTTGAAGATTGTGCGAGTTTCATGCATCCTGAAA
91749 AATAGGAGCG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 2 0.04
55 43 0.91
56 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
ATAGAGAGCAGACACGATTGTTGAAGATTGTGCGAGTTTCATGCATCCTGAAAGC
Found at i:92560 original size:6 final size:6
Alignment explanation
Indices: 92549--92578 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
92539 GGATGTGCAG
92549 CAGCTC CAGCTC CAGCTC CAGCT- CAGCTC C
1 CAGCTC CAGCTC CAGCTC CAGCTC CAGCTC C
92579 CCACATTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGCTC
Found at i:92960 original size:17 final size:17
Alignment explanation
Indices: 92922--92960 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
92912 CAGGCAGCTG
92922 AAGC-CCCGTGACCAGC
1 AAGCACCCGTGACCAGC
* *
92938 ACGCACCCGTGACCTGC
1 AAGCACCCGTGACCAGC
92955 AAGCAC
1 AAGCAC
92961 ACCAAGCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.26, C:0.44, G:0.23, T:0.08
Consensus pattern (17 bp):
AAGCACCCGTGACCAGC
Found at i:99335 original size:3 final size:3
Alignment explanation
Indices: 99314--99370 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
99304 TTTGTATTAA
* * *
99314 AAT AAC AAT AAT AAC AAT AAT AAT AA- AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
99361 AAT AAT AAT A
1 AAT AAT AAT A
99371 TTTTAATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:99907 original size:131 final size:131
Alignment explanation
Indices: 99557--99915 Score: 396
Period size: 131 Copynumber: 2.7 Consensus size: 131
99547 GTTCTAGTCG
* * * ** * * *
99557 TCTAAGGGTGACACAGCTCCTAGGTGATGAGGAGATATGGTTAGTGGATGATATAGTTCCTACAC
1 TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACATGGTTCCTACGC
* * * * *
99622 GATGAAGACGGCATGTCATCTTTAGGAAGGGTGATAACACGGTTTCTACGCGATGAAGACGACTG
66 GATGAGGACGGCATGTCATCTTTA-G--GGATGATAACACGGTTCCTACGCAATGAAGACAACTG
99687 ATTA
128 ATTA
* * * *
99691 TCTAGGGGTGACACAGCTCCTATGTGATGAGGAGGTATGGTCGGGGGATGACACGGTTCCTACGT
1 TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACATGGTTCCTACGC
* * * * * * * *
99756 GATGAGGATGGCAGGACATCTTTAGGGATGATAACACGGTTCCTACGTAATGAGGATAATTGGTT
66 GATGAGGACGGCATGTCATCTTTAGGGATGATAACACGGTTCCTACGCAATGAAGACAACTGATT
99821 A
131 A
* * *
99822 TCTATGGGTGACGC-GACTCCTACGTGATGAGGAGGTTTGGTCGGTGGATGACATGGTTCCTACG
1 TCTAGGGGTGACACAG-CTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACATGGTTCCTACG
***
99886 CGATGAGGACAATATGTCATCTTTAGGGAT
65 CGATGAGGACGGCATGTCATCTTTAGGGAT
99916 TTGTTTCAAG
Statistics
Matches: 187, Mismatches: 37, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
130 1 0.01
131 111 0.59
133 1 0.01
134 74 0.40
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (131 bp):
TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACATGGTTCCTACGC
GATGAGGACGGCATGTCATCTTTAGGGATGATAACACGGTTCCTACGCAATGAAGACAACTGATT
A
Found at i:100093 original size:68 final size:66
Alignment explanation
Indices: 99917--100128 Score: 236
Period size: 68 Copynumber: 3.2 Consensus size: 66
99907 TTTAGGGATT
* * **
99917 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTTAAGGGAAACAAACTCAAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACAGACTCAAAGAGA
99982 TG
65 TG
* * * *
99984 TGTTTCAAGATAAACGGCCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAGACTCAAAGACGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGACTCAAAGA-GA
100049 TG
65 TG
* * * * *
100051 TGCTTTCAAGAGAATCTGTCTTAAGAGAGATAAAATTCGTTTCAAGGGAAAC-GATCTC-AA-AG
1 TG-TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGA-CTCAAAGAG
100113 AT-
64 ATG
100115 T-TTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
100129 AATTTCAAAG
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
62 12 0.10
64 1 0.01
65 3 0.02
66 26 0.21
67 39 0.31
68 43 0.35
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGACTCAAAGAGAT
G
Found at i:100301 original size:36 final size:37
Alignment explanation
Indices: 100252--100440 Score: 213
Period size: 37 Copynumber: 5.1 Consensus size: 37
100242 TTTCTCAAAG
* * *
100252 GAAAAATGTCTCAAGCGAGACGAAATTTATTTTGAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
* *
100289 G-AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGC
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
* *
100325 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGC
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
* *
100362 GAAAATTGTCTCGAA-CGAGAAAAAATTTGTTTT-AAA
1 GAAAATTGTCTC-AAGCGAGACAAAATTTGTTTTGAGA
* ***
100398 GAAAACTTGTCTCAAGTGAGACGACCCTTTGTTTTGAGA
1 GAAAA-TTGTCTCAAGCGAGAC-AAAATTTGTTTTGAGA
100437 GAAA
1 GAAA
100441 CAATATCAAA
Statistics
Matches: 132, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
36 39 0.30
37 76 0.58
38 11 0.08
39 6 0.05
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (37 bp):
GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
Found at i:100325 original size:21 final size:21
Alignment explanation
Indices: 100301--100363 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
100291 AATTGTCTCA
100301 AGCGAGACAAAATTTGTTTTT
1 AGCGAGACAAAATTTGTTTTT
* **
100322 AGC--G--AAAA-TTGTCTCA
1 AGCGAGACAAAATTTGTTTTT
100338 AGCGAGACAAAATTTGTTTTT
1 AGCGAGACAAAATTTGTTTTT
100359 AGCGA
1 AGCGA
100364 AAATTGTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 8 0.26
17 4 0.13
18 1 0.03
19 1 0.03
20 4 0.13
21 13 0.42
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
AGCGAGACAAAATTTGTTTTT
Found at i:100340 original size:37 final size:37
Alignment explanation
Indices: 100252--100419 Score: 216
Period size: 37 Copynumber: 4.6 Consensus size: 37
100242 TTTCTCAAAG
* * * *
100252 GAAAAATGTCTCAAGCGAGACGAAATTTATTTTGAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
*
100289 G-AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGC
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
*
100325 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGC
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* *
100362 GAAAATTGTCTCGAA-CGAGAAAAAATTTG-TTTTAAA
1 GAAAATTGTCTC-AAGCGAGACAAAATTTGTTTTTAGA
*
100398 GAAAACTTGTCTCAAGTGAGAC
1 GAAAA-TTGTCTCAAGCGAGAC
100420 GACCCTTTGT
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
36 43 0.37
37 72 0.62
38 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (37 bp):
GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
Found at i:100351 original size:20 final size:20
Alignment explanation
Indices: 100290--100351 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
100280 ATTTTGAGAG
100290 AAATTGTCTCAAGCGAGACA
1 AAATTGTCTCAAGCGAGACA
* **
100310 AAATTTGTTTTTAGC--G--A
1 AAA-TTGTCTCAAGCGAGACA
100327 AAATTGTCTCAAGCGAGACA
1 AAATTGTCTCAAGCGAGACA
100347 AAATT
1 AAATT
100352 TGTTTTTAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 8 0.26
17 4 0.13
18 1 0.03
19 1 0.03
20 9 0.29
21 8 0.26
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (20 bp):
AAATTGTCTCAAGCGAGACA
Found at i:100393 original size:74 final size:72
Alignment explanation
Indices: 100235--100419 Score: 219
Period size: 73 Copynumber: 2.5 Consensus size: 72
100225 AACAAACTCG
* *
100235 AAATTTGTTTCTCAAAGGAAAAATGTCTCAAGCGAGACGAAATTTATTTTGAGAGAAATTGTCTC
1 AAATTTGTTT-T-AAA-GAAAATTGTCTCAAGCGAGACAAAATTTATTTTGAGAGAAATTGTCTC
*
100300 AAGCGAGACA
63 AAGCGAGAAA
** * * *
100310 AAATTTGTTTTTAGCGAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGCGAAAATTGTCTCG
1 AAATTTG-TTTTAAAGAAAATTGTCTCAAGCGAGACAAAATTTATTTTGAGAG-AAATTGTCTC-
100375 AA-CGAGAAA
63 AAGCGAGAAA
*
100384 AAATTTGTTTTAAAGAAAACTTGTCTCAAGTGAGAC
1 AAATTTGTTTTAAAGAAAA-TTGTCTCAAGCGAGAC
100420 GACCCTTTGT
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
73 43 0.45
74 39 0.41
75 10 0.11
76 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (72 bp):
AAATTTGTTTTAAAGAAAATTGTCTCAAGCGAGACAAAATTTATTTTGAGAGAAATTGTCTCAAG
CGAGAAA
Found at i:101619 original size:15 final size:16
Alignment explanation
Indices: 101592--101635 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
101582 GTTTCTTATC
*
101592 TTTTTCTTTCTTTTG-
1 TTTTTTTTTCTTTTGA
101607 TTTTTTTTTC-TTTGA
1 TTTTTTTTTCTTTTGA
*
101622 TTTTTTCTTCTTTT
1 TTTTTTTTTCTTTT
101636 CTCTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 18 0.72
16 3 0.12
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTCTTTTGA
Found at i:105775 original size:17 final size:17
Alignment explanation
Indices: 105753--105785 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
105743 GTGTCGACCG
*
105753 CCACTGATCGGCGTCGC
1 CCACTGATCGACGTCGC
105770 CCACTGATCGACGTCG
1 CCACTGATCGACGTCG
105786 ACCGCCGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.18
Consensus pattern (17 bp):
CCACTGATCGACGTCGC
Found at i:106526 original size:3 final size:3
Alignment explanation
Indices: 106518--106550 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
106508 TTTGTATTAA
*
106518 AAT AAT AAT AAT AAT AA- AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
106551 GTGTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:106537 original size:17 final size:17
Alignment explanation
Indices: 106515--106550 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
106505 AAATTTGTAT
106515 TAAAATAATAATAATAA
1 TAAAATAATAATAATAA
*
106532 TAAAATAATGATAATAA
1 TAAAATAATAATAATAA
106549 TA
1 TA
106551 GTGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAAATAATAATAATAA
Found at i:108269 original size:22 final size:22
Alignment explanation
Indices: 108239--108284 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
108229 AATAGTTCAG
* * *
108239 ATGATTAAAAGATAGAATTAAA
1 ATGACTAAAAGATAAAATAAAA
*
108261 ATGACTAAAATATAAAATAAAA
1 ATGACTAAAAGATAAAATAAAA
108283 AT
1 AT
108285 ATAGCAGCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (22 bp):
ATGACTAAAAGATAAAATAAAA
Found at i:109604 original size:52 final size:52
Alignment explanation
Indices: 109544--109662 Score: 238
Period size: 52 Copynumber: 2.3 Consensus size: 52
109534 TTGGACGAGT
109544 TCTTCTCATTATGAACTCTTCCACTGGGAATTTATCAAAAGGTTGAACAAGC
1 TCTTCTCATTATGAACTCTTCCACTGGGAATTTATCAAAAGGTTGAACAAGC
109596 TCTTCTCATTATGAACTCTTCCACTGGGAATTTATCAAAAGGTTGAACAAGC
1 TCTTCTCATTATGAACTCTTCCACTGGGAATTTATCAAAAGGTTGAACAAGC
109648 TCTTCTCATTATGAA
1 TCTTCTCATTATGAA
109663 TTTCTTCTTC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (52 bp):
TCTTCTCATTATGAACTCTTCCACTGGGAATTTATCAAAAGGTTGAACAAGC
Found at i:110212 original size:78 final size:77
Alignment explanation
Indices: 110073--110241 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 77
110063 TTTGAGGGAA
* * * * *
110073 AATTGTCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAAATTTCTTG
1 AATTGTCTCAAGCGAGACAAACTTTGCTTTAACAAAAACTATCTCGAGTGAGATAAAATTTC-TG
110138 TTTCAAGTGAAAC
65 TTTCAAGTGAAAC
*
110151 AATTGTCTCAAGCGAGACAAATCTTTGCTTTGACAAAAACTATCTCGAGTGAGAT-AAATTTCTG
1 AATTGTCTCAAGCGAGACAAA-CTTTGCTTTAACAAAAACTATCTCGAGTGAGATAAAATTTCTG
*
110215 TTTCAGGTGAAAC
65 TTTCAAGTGAAAC
110228 ---TGTCTCAAGCGAGA
1 AATTGTCTCAAGCGAGA
110242 TGTCGCTGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
74 14 0.17
77 14 0.17
78 26 0.31
79 29 0.35
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (77 bp):
AATTGTCTCAAGCGAGACAAACTTTGCTTTAACAAAAACTATCTCGAGTGAGATAAAATTTCTGT
TTCAAGTGAAAC
Found at i:110242 original size:37 final size:36
Alignment explanation
Indices: 110108--110242 Score: 83
Period size: 37 Copynumber: 3.5 Consensus size: 36
110098 GTTTTAAGAA
* *
110108 AAACTATCTCGAGTGAGATAAAATTTCTTGTTTCAAGTG
1 AAACTATCTCAAGCGAGAT-AAATTTC-TGTTTC-AGTG
* * * ***
110147 AAACAATTGTCTCAAGCGAGACAAATCTT-TGCTTTGACAA
1 AAAC---TATCTCAAGCGAGATAAAT-TTCTG-TTTCAGTG
* *
110187 AAACTATCTCGAGTGAGATAAATTTCTGTTTCAGGTG
1 AAACTATCTCAAGCGAGATAAATTTCTGTTTCA-GTG
*
110224 AAACTGTCTCAAGCGAGAT
1 AAACTATCTCAAGCGAGAT
110243 GTCGCTGATT
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
36 6 0.09
37 33 0.47
39 4 0.06
40 7 0.10
41 7 0.10
42 13 0.19
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (36 bp):
AAACTATCTCAAGCGAGATAAATTTCTGTTTCAGTG
Found at i:110386 original size:42 final size:42
Alignment explanation
Indices: 110312--110414 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
110302 AGGTCTTATG
* * * * *
110312 GATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACA
*
110353 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACA
110395 GATGACCCGAAGGATTTAAG
1 GATGACCCGAAGGATTTAAG
110415 AATTAATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
41 15 0.27
42 40 0.73
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACA
Found at i:110660 original size:42 final size:42
Alignment explanation
Indices: 110598--110681 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
110588 AAAGTCTTAT
* *
110598 CATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
*
110640 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
110682 AATTAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:110853 original size:275 final size:274
Alignment explanation
Indices: 110302--111107 Score: 1375
Period size: 275 Copynumber: 3.0 Consensus size: 274
110292 TTCTACACGG
* *
110302 AGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
1 AGGTCTTATGGATGGCCCGAAAGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
110367 TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATTAATAAACCCTTGA
66 TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATTAATAAACCCTTGA
110432 AAATC-A----AG---CTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTCCTTTACAA
131 AAATCAAGCTTAGTTTCTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTCCTTTACAA
*
110489 ACTCTTTGGAGATAATCATCAAGAAACCCCTAAGAAACAGGCTTAGTTTCTAAAATCTCATTTGA
196 ACTCTTTGGAGATAATCATCAAGAAACCCCTAA-AATCAGGCTTAGTTTCTAAAATCTCATTTGA
110554 AAACATCATCCCTGA
260 AAACATCATCCCTGA
*
110569 AGGTCTTATGGATGGCCCAAAAGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
1 AGGTCTTATGGATGGCCCGAAAGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
110634 TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATTAATAAACCCTTGA
66 TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATTAATAAACCCTTGA
110699 AAATCAAGCTTAGTTTCTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTCCTTTACAA
131 AAATCAAGCTTAGTTTCTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTCCTTTACAA
110764 ACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAATCTCATTTGA
196 ACTCTTTGGAGATAATCATCAAGAAACCCCT-AAAATCAGGCTTAGTTTCTAAAATCTCATTTGA
*
110829 AAACATCATGCCTGA
260 AAACATCATCCCTGA
* *
110844 AGGTCTTATGGATGTCCCGAAAGTCTTTTCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
1 AGGTCTTATGGATGGCCCGAAAGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
* *
110909 TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTACA-AATCAATAAACTCTTG
66 TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTA-AGAATTAATAAACCCTTG
* *
110973 AAAATCAAGCTTAGTTTCTTAGTTGTCATGGAACCCCTT-AAAATTAGGCTTAGCTTCCTTTA-A
130 AAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTCCTTTACA
* *
111036 CAACTCTTTTGAGATAATCATCAAGAAA-CCCTAAAATTAGGCTTAGTTTCTAAAATCTCATTTG
195 -AACTCTTTGGAGATAATCATCAAGAAACCCCTAAAATCAGGCTTAGTTTCTAAAATCTCATTTG
111100 AAAACATC
259 AAAACATC
111108 CTACCTGCTT
Statistics
Matches: 514, Mismatches: 14, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
267 132 0.26
268 1 0.00
272 41 0.08
273 5 0.01
274 49 0.10
275 283 0.55
276 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (274 bp):
AGGTCTTATGGATGGCCCGAAAGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGA
TTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATTAATAAACCCTTGA
AAATCAAGCTTAGTTTCTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTCCTTTACAA
ACTCTTTGGAGATAATCATCAAGAAACCCCTAAAATCAGGCTTAGTTTCTAAAATCTCATTTGAA
AACATCATCCCTGA
Found at i:110925 original size:42 final size:42
Alignment explanation
Indices: 110873--110954 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
110863 AAAGTCTTTT
* *
110873 CATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
*
110915 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
110955 CAAATCAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:110955 original size:20 final size:20
Alignment explanation
Indices: 110890--110955 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
110880 CTCGAAAGGC
*
110890 TTACAGATGACCCGAAGGAT
1 TTACTGATGACCCGAAGGAT
* * * *
110910 TTAAGCATCATG-CTCGAAAGAC
1 TT-A-C-TGATGACCCGAAGGAT
110932 TTACTGATGACCCGAAGGAT
1 TTACTGATGACCCGAAGGAT
110952 TTAC
1 TTAC
110956 AAATCAATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
21 2 0.06
22 10 0.30
23 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
TTACTGATGACCCGAAGGAT
Found at i:111562 original size:501 final size:507
Alignment explanation
Indices: 110626--111612 Score: 1657
Period size: 501 Copynumber: 2.0 Consensus size: 507
110616 TACAGATGAC
*
110626 CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATTAATAA
1 CCGAAGGATTTAAGCATCA-GCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATCAATAA
*
110691 ACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAATCCCTTAAAAATTAGGCTTAGCTTC
65 ACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTAAAAATTAGGCTTAGCTTC
110756 CTTTACAAACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAATC
130 CTTTACAAACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAATC
* * * * *
110821 TCATTTGAAAACATCATGCCTGAAGGTCTTATGGATGTCCCGAAAGTCTTTTCATCTTGCTCGAA
195 TCATTTGAAAACATCATACCTGAAGATCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAA
* *
110886 AGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGA
260 AGGCTTACAGATGACCCGAAGGATTTAAGCATCATACTCGAAAGACTTACTGAAGACCCGAAGGA
* * * * *
110951 TTTACAAATCAATAAACTCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCATGGAACCCCTTAAAA
325 TTTACAAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTATTAGTTGTCAAGGAACCCATTAAAA
* *
111016 TTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATCATCAAGAAA-CCCT-AAAATTAGGCT
390 TTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATAATCAAGAAACCCCTGAAAATCAGGCT
111079 TAGTTTCTAAAATCTCATTTGAAAACATCCTACCTGCTTACAAATCAAGCTTA
455 TAGTTTCTAAAATCTCATTTGAAAACATCCTACCTGCTTACAAATCAAGCTTA
111132 CCGAAGGATTT-AGCATCA-CTCGAAAGACTTACTGATGACCCGAAGGATTTACA-AATCAATAA
1 CCGAAGGATTTAAGCATCAGCTCGAAAGACTTACTGATGACCCGAAGGATTTA-AGAATCAATAA
* *
111194 ACTCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCATGGAACCCCTT-AAAATTAGGCTTAGCTTC
65 ACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTAAAAATTAGGCTTAGCTTC
* *
111258 CTTTA-ACAACTCTTTTGAGATAATCATCAAGAAACCCCT-AAAATTAGGCTTAGTTTCTAAAAT
130 CTTTACA-AACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAT
* * *
111321 CTCATTTGAAAACATCCTACCTGAAGATCTTATGGATGGCCCGAATGACTTATCATCTTGTTCGA
194 CTCATTTGAAAACATCATACCTGAAGATCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGA
* * *
111386 AAGGCTTACAGATGACCTGAAGGATTTTAGCATCGTACTCGAAAGACTTACTGAAGACCCGAAGG
259 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATACTCGAAAGACTTACTGAAGACCCGAAGG
111451 ATTTACAAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTATTAGTTGTCAAGGAACCCATTAAA
324 ATTTACAAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTATTAGTTGTCAAGGAACCCATTAAA
111516 ATTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATAATCAAGAAACCCCTGAAAATCAGGC
389 ATTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATAATCAAGAAACCCCTGAAAATCAGGC
111581 TTAGTTTCTAAAATCTCATTTGAAAACATCCT
454 TTAGTTTCTAAAATCTCATTTGAAAACATCCT
111613 GCCCGAAGGA
Statistics
Matches: 451, Mismatches: 26, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
501 249 0.55
502 58 0.13
503 125 0.28
504 1 0.00
505 7 0.02
506 11 0.02
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (507 bp):
CCGAAGGATTTAAGCATCAGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGAATCAATAAA
CCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTAAAAATTAGGCTTAGCTTCC
TTTACAAACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAATCT
CATTTGAAAACATCATACCTGAAGATCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAA
GGCTTACAGATGACCCGAAGGATTTAAGCATCATACTCGAAAGACTTACTGAAGACCCGAAGGAT
TTACAAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTATTAGTTGTCAAGGAACCCATTAAAAT
TAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATAATCAAGAAACCCCTGAAAATCAGGCTT
AGTTTCTAAAATCTCATTTGAAAACATCCTACCTGCTTACAAATCAAGCTTA
Found at i:112493 original size:34 final size:34
Alignment explanation
Indices: 112450--112517 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
112440 CTATCATTTT
*
112450 TGAAGAATGTAGATGTAGATATGTCAAACTCAAC
1 TGAAGAATGTAGATGTAGATATGCCAAACTCAAC
112484 TGAAGAATGTAGATGTAGATATGCCAAACTCAAC
1 TGAAGAATGTAGATGTAGATATGCCAAACTCAAC
112518 ATAGATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (34 bp):
TGAAGAATGTAGATGTAGATATGCCAAACTCAAC
Found at i:117254 original size:20 final size:20
Alignment explanation
Indices: 117229--117291 Score: 126
Period size: 20 Copynumber: 3.1 Consensus size: 20
117219 GGATGCCTCT
117229 ACTGATACTCTTATCTTTGA
1 ACTGATACTCTTATCTTTGA
117249 ACTGATACTCTTATCTTTGA
1 ACTGATACTCTTATCTTTGA
117269 ACTGATACTCTTATCTTTGA
1 ACTGATACTCTTATCTTTGA
117289 ACT
1 ACT
117292 CTTTGGTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (20 bp):
ACTGATACTCTTATCTTTGA
Found at i:118844 original size:19 final size:20
Alignment explanation
Indices: 118817--118864 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
118807 AAAAATAATA
*
118817 AAATAAAAATAAT-TTAAAG
1 AAATAAAAAGAATCTTAAAG
* *
118836 AAATCAAAAGAATCTTAAATT
1 AAATAAAAAGAATCTTAAA-G
118857 AAATAAAA
1 AAATAAAA
118865 TTAAATTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 11 0.48
20 5 0.22
21 7 0.30
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (20 bp):
AAATAAAAAGAATCTTAAAG
Found at i:119787 original size:16 final size:16
Alignment explanation
Indices: 119766--119816 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
119756 AATGTAAAGC
119766 AAAATTAAAAAAATAG
1 AAAATTAAAAAAATAG
**
119782 AAAATTAAAGTAAT-G
1 AAAATTAAAAAAATAG
* *
119797 -AAATTAAATAAATAA
1 AAAATTAAAAAAATAG
119812 AAAAT
1 AAAAT
119817 AAATCGCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 11 0.39
15 1 0.04
16 16 0.57
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATTAAAAAAATAG
Found at i:127238 original size:21 final size:21
Alignment explanation
Indices: 127213--127256 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
127203 CATCAAGGTC
*
127213 TTTGTGGAAGCCATGAAATCT
1 TTTGTCGAAGCCATGAAATCT
* * *
127234 TTTGTCGATGTCATGAATTCT
1 TTTGTCGAAGCCATGAAATCT
127255 TT
1 TT
127257 CAATGATAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (21 bp):
TTTGTCGAAGCCATGAAATCT
Found at i:130576 original size:64 final size:63
Alignment explanation
Indices: 130491--130652 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 63
130481 TCCTTAAAAT
* **
130491 GTGTATAGATACACTAACTATGTATCGATACACAAATTACATTCGAT-TTTT-TTCTTTACAAGA
1 GTGTATCGATACACTTCCTATGTATCGATACACAAATTACATTCGATGTTTTATT-TTTA-AAG-
130554 A
63 A
* ** *
130555 GTTTATCGATACACTTCCTATGTATCGATACACAAATTACATTTTATGTTTTCATTTTTAAAGG
1 GTGTATCGATACACTTCCTATGTATCGATACACAAATTACATTCGATGTTTT-ATTTTTAAAGA
* *
130619 GTGTATCCATACACTTCCTATGTATCGGTACACA
1 GTGTATCGATACACTTCCTATGTATCGATACACA
130653 TTGAATAACT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 72 0.85
65 7 0.08
66 4 0.05
67 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (63 bp):
GTGTATCGATACACTTCCTATGTATCGATACACAAATTACATTCGATGTTTTATTTTTAAAGA
Found at i:132781 original size:2 final size:2
Alignment explanation
Indices: 132774--132809 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
132764 AACATGCATA
132774 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
132810 TATGAAATGC
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:132901 original size:87 final size:87
Alignment explanation
Indices: 132794--132983 Score: 335
Period size: 87 Copynumber: 2.2 Consensus size: 87
132784 ATATATATAT
* *
132794 ATATATATATATATATTATGAAATGCACAATGTACGAAAAAATGTGTAAATTTATGAAATGCAAA
1 ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATGAGTAAATTTATGAAATGCAAA
132859 ACAGCTAACATGCATAATAATG
66 ACAGCTAACATGCATAATAATG
**
132881 ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATGAGTAAATTTATGAAATGCACG
1 ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATGAGTAAATTTATGAAATGCAAA
*
132946 ACAGCTAACATGTATAATAATG
66 ACAGCTAACATGCATAATAATG
132968 ATATATATATATATAT
1 ATATATATATATATAT
132984 ATATATATAT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 98 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (87 bp):
ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATGAGTAAATTTATGAAATGCAAA
ACAGCTAACATGCATAATAATG
Found at i:132975 original size:2 final size:2
Alignment explanation
Indices: 132968--133029 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
132958 TATAATAATG
132968 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
133010 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
133030 TATGAACACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133179 original size:16 final size:15
Alignment explanation
Indices: 133138--133191 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
133128 GTTGAATTAT
133138 AAAAAG-AAATATAAA
1 AAAAAGAAAATA-AAA
* *
133153 AACAAGTAAATAAAA
1 AAAAAGAAAATAAAA
*
133168 TAAAAAGAAAATAATA
1 -AAAAAGAAAATAAAA
133184 AAAAAGAA
1 AAAAAGAA
133192 TGACGGGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 16 0.48
16 17 0.52
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAGAAAATAAAA
Found at i:133189 original size:15 final size:14
Alignment explanation
Indices: 133138--133191 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
133128 GTTGAATTAT
133138 AAAAAGAAATATAAA
1 AAAAAGAAA-ATAAA
* *
133153 AACAAGTAAATAAAA
1 AAAAAGAAAAT-AAA
133168 TAAAAAGAAAATAATA
1 -AAAAAGAAAATAA-A
133184 AAAAAGAA
1 AAAAAGAA
133192 TGACGGGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.06
15 20 0.62
16 10 0.31
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (14 bp):
AAAAAGAAAATAAA
Found at i:133300 original size:16 final size:18
Alignment explanation
Indices: 133253--133303 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 18
133243 AATGTGAATT
*
133253 AAATAATAAAACA--AAA
1 AAATAATAAAATATGAAA
133269 AAATAATAAAATATGAAA
1 AAATAATAAAATATGAAA
*
133287 AAA-AATGAAA-ATGAAA
1 AAATAATAAAATATGAAA
133303 A
1 A
133304 TGAAAGAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 19 0.61
17 6 0.19
18 6 0.19
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (18 bp):
AAATAATAAAATATGAAA
Found at i:135181 original size:85 final size:85
Alignment explanation
Indices: 135026--135601 Score: 728
Period size: 85 Copynumber: 6.8 Consensus size: 85
135016 ATGTGTCATC
* * * * * ** * * * *
135026 GAGCTGAATGGAATCGAACTTGACAGTTTCTT-GTTGACATATAGCTTTTCTCGACTTAAGCAAA
1 GAGCTGAGTGTAATCGAACTCGA-AG-GTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* *
135090 GCTGTAAATTTGACATGCCCTT
64 GCTGTAAATTTGATATGCCTTT
* * * * *
135112 GAGCTGAATGGAATCGAACTCGAAGGTATTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
135177 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
135197 GAGATGAATGTAATCGAACTCGAAGGTCTTTGATGACAGATAGCCCTTCTCGCCTTGAACTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
135262 TGTAAATTTGATGTGCTTTT
66 TGTAAATTTGATATGCCTTT
* * * *
135282 GAGCTGAGTGTAATCGAAGTAC-AAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACT-CGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
*
135346 ATGTAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * *
135367 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
135432 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * *
135452 GAGCTGAGTATAATCAAACTCGAAGGTCTTGGTTGACA-ATAAGCCCTTTTTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGAT-AGCCCTTCTCGCCTTGAGCTATG
135516 CTGTAAATTTGATATGCC-TT
65 CTGTAAATTTGATATGCCTTT
* * *
135536 GAGCTGAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCTTTCTCGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
135601 T
66 T
135602 TCCAATAGTT
Statistics
Matches: 435, Mismatches: 50, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
84 64 0.15
85 348 0.80
86 23 0.05
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (85 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCTTT
Found at i:145643 original size:93 final size:96
Alignment explanation
Indices: 145469--145679 Score: 320
Period size: 94 Copynumber: 2.2 Consensus size: 96
145459 AACATGCATA
* * *
145469 ATATATATATATATATTATAAAATGCACAATGCACGAAAAAATTGTGTAAATTTATGAAATGCAC
1 ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATTGAGTAAATTTATAAAATGCAC
* *
145534 GACAGCTAATATGCATAATA-ATA-AAATAT
66 CACAGCTAACATGCATAATATATATAAATAT
* *
145563 ATATATATATATATATTATGATATGTACAATGCACGAAAAAA-TGAGTAAATTTATAAAATGCAC
1 ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATTGAGTAAATTTATAAAATGCAC
* *
145627 CATAGCTAACATGCATAATATATATATATAT
66 CACAGCTAACATGCATAATATATATAAATAT
145658 ATATATATATATATATTATGAA
1 ATATATATATATATATTATGAA
145680 CACAGAAATC
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 37 0.35
94 42 0.40
95 26 0.25
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (96 bp):
ATATATATATATATATTATGAAATGCACAATGCACGAAAAAATTGAGTAAATTTATAAAATGCAC
CACAGCTAACATGCATAATATATATAAATAT
Found at i:145651 original size:2 final size:2
Alignment explanation
Indices: 145644--145673 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
145634 AACATGCATA
145644 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
145674 TATGAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145732 original size:17 final size:17
Alignment explanation
Indices: 145712--145759 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
145702 CGACTGAACT
145712 TAAAAATAAAAAGATAA
1 TAAAAATAAAAAGATAA
*
145729 TAAAATAAATAAAAGATAA
1 TAAAA-ATA-AAAAGATAA
145748 -AAATAATAAAAA
1 TAAA-AATAAAAA
145760 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 9 0.35
18 7 0.27
19 10 0.38
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
TAAAAATAAAAAGATAA
Found at i:145740 original size:20 final size:18
Alignment explanation
Indices: 145715--145759 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
145705 CTGAACTTAA
145715 AAATAAAAAGATAATAAAAT
1 AAATAAAAAGAT-A-AAAAT
145735 AAAT-AAAAGATAAAAAT
1 AAATAAAAAGATAAAAAT
145752 -AATAAAAA
1 AAATAAAAA
145760 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 9 0.38
18 1 0.04
19 7 0.29
20 4 0.17
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (18 bp):
AAATAAAAAGATAAAAAT
Found at i:145749 original size:26 final size:26
Alignment explanation
Indices: 145712--145778 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
145702 CGACTGAACT
145712 TAAAAATAAAAAGATAAT-AAAATAAA
1 TAAAAATAAAAA-ATAATAAAAATAAA
*
145738 TAAAAGAT-AAAAATAATAAAAATAAT
1 TAAAA-ATAAAAAATAATAAAAATAAA
*
145764 TAAAAA-ACAAAATAA
1 TAAAAATAAAAAATAA
145779 AATGTTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 13 0.36
26 21 0.58
27 2 0.06
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (26 bp):
TAAAAATAAAAAATAATAAAAATAAA
Found at i:145767 original size:10 final size:9
Alignment explanation
Indices: 145712--145769 Score: 52
Period size: 8 Copynumber: 6.7 Consensus size: 9
145702 CGACTGAACT
145712 TAAAAATAA
1 TAAAAATAA
*
145721 -AAAGATAA
1 TAAAAATAA
145729 T-AAAATAA
1 TAAAAATAA
*
145737 -ATAAAA-GA
1 TA-AAAATAA
145745 TAAAAATAA
1 TAAAAATAA
145754 TAAAAATAA
1 TAAAAATAA
145763 TTAAAAA
1 -TAAAAA
145770 ACAAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
8 18 0.46
9 15 0.38
10 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
TAAAAATAA
Found at i:146930 original size:24 final size:24
Alignment explanation
Indices: 146903--146950 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
146893 ATCTTCACTT
146903 GGGCTGTGATTTGTGTAATGGGTC
1 GGGCTGTGATTTGTGTAATGGGTC
146927 GGGCTGTGATTTGTGTAATGGGTC
1 GGGCTGTGATTTGTGTAATGGGTC
146951 AAGTTGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.08, G:0.42, T:0.38
Consensus pattern (24 bp):
GGGCTGTGATTTGTGTAATGGGTC
Found at i:147955 original size:21 final size:21
Alignment explanation
Indices: 147914--147964 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
147904 ATGGACTACA
* *
147914 ACGTCAACACTATGGATTGTC
1 ACGTCAACACTATGAAGTGTC
147935 ACGTCAACAC-AGTGAAGTGTC
1 ACGTCAACACTA-TGAAGTGTC
*
147956 GCGTCAACA
1 ACGTCAACA
147965 TTATAACGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (21 bp):
ACGTCAACACTATGAAGTGTC
Found at i:150113 original size:21 final size:21
Alignment explanation
Indices: 150070--150204 Score: 193
Period size: 21 Copynumber: 6.5 Consensus size: 21
150060 TTTTCCCAAT
** *
150070 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
150090 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
** *
150111 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
150131 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
150152 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
150173 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
150194 TCGCAATGCGA
1 TCGCAATGCGA
150205 TACTGACTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
20 28 0.27
21 74 0.73
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:150115 original size:41 final size:41
Alignment explanation
Indices: 150070--150204 Score: 225
Period size: 41 Copynumber: 3.3 Consensus size: 41
150060 TTTTCCCAAT
*
150070 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
150111 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
** *
150152 TCGCAATGCGAATTGGGAAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAATCGCAATGCGAATTGGGAAAA
150194 TCGCAATGCGA
1 TCGCAATGCGA
150205 TACTGACTAT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 52 0.58
42 37 0.42
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
Found at i:150217 original size:62 final size:61
Alignment explanation
Indices: 150070--150224 Score: 179
Period size: 62 Copynumber: 2.5 Consensus size: 61
150060 TTTTCCCAAT
* * * *
150070 TCGCAATGCGAA-TAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAACT-GGAAAATCGCAATGCGAATTGGGAAAATCGCAATGCGAATAAGAAAA
* **
150131 TCGCAATGCGAATTGGGAAAATCGCAATGCGAATTGGGAAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAACT-GGAAAATCGCAATGCGAATTGGGAAAATCGCAATGCGAA-TAAGAAAA
**
150194 TCGCAATGCGATACT-GACTATCGCAATGCGA
1 TCGCAATGCGA-ACTGGAAAATCGCAATGCGA
150225 TAATAAAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
61 12 0.15
62 51 0.63
63 16 0.20
64 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (61 bp):
TCGCAATGCGAACTGGAAAATCGCAATGCGAATTGGGAAAATCGCAATGCGAATAAGAAAA
Found at i:150218 original size:20 final size:20
Alignment explanation
Indices: 150193--150286 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
150183 AATTGGGAAA
*
150193 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
150213 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
150234 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
150254 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
150274 TTCGCAACGCGAT
1 ATCGCAACGCGAT
150287 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:150235 original size:41 final size:41
Alignment explanation
Indices: 150190--150267 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
150180 GCGAATTGGG
* * *
150190 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
150231 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
150268 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:150877 original size:19 final size:19
Alignment explanation
Indices: 150842--150878 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
150832 CTAGATAATC
*
150842 GCAACGCGAAATAAAAATA
1 GCAACGCGAAACAAAAATA
*
150861 GCAACGCGAAACCAAAAT
1 GCAACGCGAAACAAAAAT
150879 CGCATTGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.22, G:0.16, T:0.08
Consensus pattern (19 bp):
GCAACGCGAAACAAAAATA
Found at i:150900 original size:19 final size:19
Alignment explanation
Indices: 150878--151061 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
150868 GAAACCAAAA
*
150878 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
150897 TCGCGATGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
150916 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
150935 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
150955 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
150971 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
150988 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
151002 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
151021 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
151041 ATCTCGTTGCGA-TTTCATT
1 -TCGCGTTGCGATTTTCATT
151060 TC
1 TC
151062 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 17, Indels: 27
0.75 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 3 0.02
19 62 0.46
20 42 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:150957 original size:39 final size:38
Alignment explanation
Indices: 150878--150967 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
150868 GAAACCAAAA
*
150878 TCGCATTGCGATTTTCATTTCGCGATGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGATGCGATTTTCATT
* *
150916 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GATGCGATTTTCATT
150955 TCGCGTTGCGATT
1 TCGCGTTGCGATT
150968 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGATGCGATTTTCATT
Found at i:150978 original size:39 final size:39
Alignment explanation
Indices: 150903--150978 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
150893 CATTTCGCGA
* **
150903 TGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGGT
1 TGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGGT
150942 TGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
150979 ATAGTCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.20, G:0.26, T:0.45
Consensus pattern (39 bp):
TGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGGT
Found at i:150987 original size:33 final size:33
Alignment explanation
Indices: 150950--151037 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
150940 GTTGCGATTT
* *
150950 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
150983 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
151016 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
151038 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:151039 original size:20 final size:19
Alignment explanation
Indices: 151005--151061 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
150995 GCGATTCTCT
*
151005 CGTTGCGATAGTCATTTCCG
1 CGTTGCGAT-TTCATTTCCG
*
151025 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATT-TCATT-TCCG
151045 CGTTGCGATTTCATTTC
1 CGTTGCGATTTCATTTC
151062 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 5 0.16
20 25 0.78
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTCATTTCCG
Found at i:153123 original size:42 final size:42
Alignment explanation
Indices: 153063--153185 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
153053 GCCCGACTCG
* * *
153063 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
153105 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
153147 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
153186 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:153143 original size:21 final size:21
Alignment explanation
Indices: 153119--153185 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
153109 TCATTCCTCG
153119 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
153140 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
153161 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
153182 AGAG
1 AGAG
153186 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:154562 original size:14 final size:14
Alignment explanation
Indices: 154543--154578 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
154533 TTTAATTAAT
154543 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
154557 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
154571 TGATTTGT
1 TGATTTGT
154579 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:154803 original size:33 final size:32
Alignment explanation
Indices: 154761--154886 Score: 166
Period size: 33 Copynumber: 3.9 Consensus size: 32
154751 ATTAAATTCG
154761 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
154794 CGTTGCGATTTTCATTTCACATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
154827 CGTTGCGA-TTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
154859 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
154887 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.04
32 23 0.28
33 52 0.64
35 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:154865 original size:65 final size:66
Alignment explanation
Indices: 154754--154885 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 66
154744 ACGTGAAATT
* *
154754 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCACATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCACATTGC
154819 G
66 G
* *
154820 AAATTAGCGTTGCGA-TTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCACATTGC
154884 G
66 G
154885 A
1 A
154886 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 48 0.77
66 14 0.23
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCACATTGC
G
Found at i:157178 original size:12 final size:12
Alignment explanation
Indices: 157161--157185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
157151 TTCTTCGGGA
157161 CTTTTTCTTCTT
1 CTTTTTCTTCTT
157173 CTTTTTCTTCTT
1 CTTTTTCTTCTT
157185 C
1 C
157186 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:157391 original size:22 final size:23
Alignment explanation
Indices: 157359--157410 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
157349 TCTGAATATC
*
157359 ATCAAAATCC-GTATTGACCAAT
1 ATCAAAATCCGGTATTGACCAAG
*
157381 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCC-GGTATTGACCAAG
157405 ATCAAA
1 ATCAAA
157411 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.35
24 17 0.65
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (23 bp):
ATCAAAATCCGGTATTGACCAAG
Done.