Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006287.1 Hibiscus syriacus cultivar Beakdansim tig00015008_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: 146420
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Found at i:1583 original size:2 final size:2
Alignment explanation
Indices: 1576--1619 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1566 TTTTAGTTTG
1576 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
1618 AT
1 AT
1620 TGTATTCGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1887 original size:21 final size:20
Alignment explanation
Indices: 1844--1889 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1834 TAATTAATAA
*
1844 AAATTAAAAGATCAATGATT
1 AAATTAAAAGATCAATAATT
* *
1864 AAATTAAAATATCTCATAATT
1 AAATTAAAAGATC-AATAATT
1885 AAATT
1 AAATT
1890 TATTCTAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (20 bp):
AAATTAAAAGATCAATAATT
Found at i:24066 original size:18 final size:18
Alignment explanation
Indices: 24015--24059 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
24005 CTTAAACAAG
24015 TCTAGAACAATCTATTCC
1 TCTAGAACAATCTATTCC
24033 TCTAGAACAATCTATTCC
1 TCTAGAACAATCTATTCC
24051 TCTAGAACA
1 TCTAGAACA
24060 TTTTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (18 bp):
TCTAGAACAATCTATTCC
Found at i:26469 original size:2 final size:2
Alignment explanation
Indices: 26462--26503 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26452 GATTGATTAA
26462 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
26504 TACAAGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27019 original size:20 final size:20
Alignment explanation
Indices: 26996--27043 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26986 GAACTCTAAT
*
26996 TTCGCAACATAATTTCCAAA
1 TTCGCAACACAATTTCCAAA
* * *
27016 TTCGCAACGCGATTTTCAAA
1 TTCGCAACACAATTTCCAAA
27036 TTCGCAAC
1 TTCGCAAC
27044 GCTAATTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (20 bp):
TTCGCAACACAATTTCCAAA
Found at i:27044 original size:20 final size:20
Alignment explanation
Indices: 27007--27045 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26997 TCGCAACATA
27007 ATTTCCAAATTCGCAACGCG
1 ATTTCCAAATTCGCAACGCG
*
27027 ATTTTCAAATTCGCAACGC
1 ATTTCCAAATTCGCAACGC
27046 TAATTACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (20 bp):
ATTTCCAAATTCGCAACGCG
Found at i:27682 original size:56 final size:57
Alignment explanation
Indices: 27614--27751 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 57
27604 AATTCGAGTA
* * *
27614 GCGAAAATGAAATTCGCATTGCGATAG-TGTGTTTACATATGTCGGTAATTATCGTT
1 GCGAAAACGAAATTCGCATTGCGATAGTTGTGTTTACATATATCGGTAATTAGCGTT
* * *
27670 GCGAAAACGAAATTCGCTTTGCGATTGTTGTGTTTACCTATATCGGTAATTAGCGTT
1 GCGAAAACGAAATTCGCATTGCGATAGTTGTGTTTACATATATCGGTAATTAGCGTT
*
27727 GCGAAAACAAAATTTCGCATTGCGA
1 GCGAAAACGAAA-TTCGCATTGCGA
27752 ATTTGGAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 24 0.33
57 37 0.51
58 11 0.15
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (57 bp):
GCGAAAACGAAATTCGCATTGCGATAGTTGTGTTTACATATATCGGTAATTAGCGTT
Found at i:28064 original size:16 final size:16
Alignment explanation
Indices: 28043--28076 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
28033 CATTTTCCTG
28043 ACGAATAGCCACTATA
1 ACGAATAGCCACTATA
28059 ACGAATAGCCACTATA
1 ACGAATAGCCACTATA
28075 AC
1 AC
28077 ATAAGCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (16 bp):
ACGAATAGCCACTATA
Found at i:29992 original size:21 final size:20
Alignment explanation
Indices: 29965--30063 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
29955 AAATCAGTTC
29965 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
29986 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
30007 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
30027 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
30048 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
30064 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.25
21 44 0.75
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:30092 original size:20 final size:20
Alignment explanation
Indices: 30031--30223 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
30021 GATTTTCCAG
* ** *
30031 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
30051 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
30071 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
30091 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30111 AATCGTAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30131 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
30151 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
30171 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
*
30192 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
30212 AATCGCAACGCG
1 AATCGCAACGCG
30224 ATTTTTAAAG
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 128 0.87
21 18 0.12
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:30653 original size:32 final size:32
Alignment explanation
Indices: 30583--30650 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
30573 ATTTCACTTA
30583 GATTTCATTTCGCGTTGCGATTCTCTCGTTGC
1 GATTTCATTTCGCGTTGCGATTCTCTCGTTGC
*
30615 GATTTCATTTCGCGTTGCTATTCTCTCG-TGC
1 GATTTCATTTCGCGTTGCGATTCTCTCGTTGC
30646 GATTT
1 GATTT
30651 TCAAGTTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTGCGATTCTCTCGTTGC
Found at i:30768 original size:19 final size:18
Alignment explanation
Indices: 30743--30853 Score: 76
Period size: 14 Copynumber: 6.2 Consensus size: 18
30733 CGCAGCGAGA
30743 GAAATGAAATCGCAACGC
1 GAAATGAAATCGCAACGC
* *
30761 GAAAATGACTATCTGCAACGAGA
1 G-AAATGA-AATC-GCAAC--GC
30784 GAAATGAAAATCGCAA--C
1 GAAATG-AAATCGCAACGC
30801 GAAA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
30817 GAAATGAAAATCGCAA--C
1 GAAATG-AAATCGCAACGC
*
30834 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
30850 GAAA
1 GAAA
30854 CCAAAATCGC
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
14 16 0.22
16 11 0.15
17 9 0.12
18 1 0.01
19 14 0.19
20 3 0.04
21 9 0.12
22 8 0.11
23 3 0.04
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.11
Consensus pattern (18 bp):
GAAATGAAATCGCAACGC
Found at i:30799 original size:21 final size:21
Alignment explanation
Indices: 30732--30807 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
30722 TGCAGAAGAG
*
30732 TCGCAGCGAGAGAAATG-AAA
1 TCGCAACGAGAGAAATGAAAA
* **
30752 TCGCAACGCGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
30772 TCTGCAACGAGAGAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
*
30794 TCGCAACGAAAGAA
1 TCGCAACGAGAGAA
30808 TCGCAACGCG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 5 0.11
20 12 0.27
21 19 0.42
22 9 0.20
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:30822 original size:33 final size:33
Alignment explanation
Indices: 30784--30863 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
30774 TGCAACGAGA
30784 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
*
30817 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
**
30850 GAAACCAAAATCGC
1 GAAATGAAAATCGC
30864 CATTGCGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAAAGAATCGCAACGC
Found at i:30902 original size:14 final size:14
Alignment explanation
Indices: 30883--30937 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
30873 TTTCATTTCG
30883 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
30897 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
30915 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
30929 CGTTGCGAT
1 CGTTGCGAT
30938 AGTCATTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 19 0.54
15 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:30913 original size:32 final size:32
Alignment explanation
Indices: 30866--30958 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 32
30856 AAAATCGCCA
30866 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
30899 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
* *
30931 TTGCGATAGTCATTCTCTCGTTGCGATT
1 TTGCGAT-TTCATT-TCGCGTTGCGATT
30959 TTCATTTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.59
33 11 0.20
34 12 0.21
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.44
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
Found at i:32926 original size:33 final size:33
Alignment explanation
Indices: 32882--32975 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
32872 ACGCGAAACC
** *
32882 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAA
*
32915 AGAATCGCAACGCGAAACCAAAATCGCAACGAA
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAA
32948 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAACCAAAATCGCA
32976 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.49, C:0.27, G:0.17, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAA
Found at i:32953 original size:14 final size:14
Alignment explanation
Indices: 32901--32959 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
32891 ACGCGAAATG
*
32901 AAAATCGCAACGAC
1 AAAATCGCAACGAA
*
32915 AGAATCGCAACGCGAAA
1 AAAATCGCAA--CG-AA
32932 CCAAAATCGCAACGAA
1 --AAAATCGCAACGAA
32948 AAAATCGCAACG
1 AAAATCGCAACG
32960 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
16 4 0.11
17 3 0.08
19 9 0.24
ACGTcount: A:0.49, C:0.27, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:32973 original size:52 final size:54
Alignment explanation
Indices: 32847--32975 Score: 146
Period size: 52 Copynumber: 2.4 Consensus size: 54
32837 TAGTTTACTT
*
32847 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAAC-CAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAA-GAAAA
*
32905 TCGCAA-CG--A-CAGAATCGCAACGCGAAACCAAAATCGCAA-CG-AA-AAAA
1 TCGCAACCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACCGAAAGAAAA
32952 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAAC-CGAAACCAAAATCGCA
32976 TTGCGATTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
47 10 0.16
49 4 0.06
50 2 0.03
51 1 0.02
52 37 0.59
54 1 0.02
56 2 0.03
58 6 0.10
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (54 bp):
TCGCAACCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACCGAAAGAAAA
Found at i:32981 original size:19 final size:19
Alignment explanation
Indices: 32847--32975 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
32837 TAGTTTACTT
* *
32847 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
32867 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
32886 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
32905 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
32919 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
32938 TCGCAA--CG-AA--AAAA
1 TCGCAACGCGAAACCAAAA
32952 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
32971 TCGCA
1 TCGCA
32976 TTGCGATTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 19 0.21
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 46 0.50
20 13 0.14
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:32993 original size:19 final size:19
Alignment explanation
Indices: 32971--33142 Score: 152
Period size: 19 Copynumber: 9.6 Consensus size: 19
32961 GAAACCAAAA
*
32971 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
32990 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
33004 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
33023 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
33039 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
33056 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
33075 TCGCGTTGCGA-TTT-AGTT
1 TCGCGTTGCGATTTTCA-TT
* *
33093 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
33112 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
33132 TCGTGTTGCGA
1 TCGCGTTGCGA
33143 AAGTAAACTA
Statistics
Matches: 123, Mismatches: 16, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
14 17 0.14
16 8 0.07
17 8 0.07
18 15 0.12
19 62 0.50
20 13 0.11
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:33012 original size:14 final size:14
Alignment explanation
Indices: 32993--33049 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
32983 TTTCATTTCG
32993 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
33007 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
33024 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
33040 CGTTGCGATT
1 CGTTGCGATT
33050 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:33018 original size:33 final size:33
Alignment explanation
Indices: 32976--33068 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
32966 CAAAATCGCA
32976 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
33009 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
33042 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
33069 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:33114 original size:37 final size:39
Alignment explanation
Indices: 33040--33142 Score: 124
Period size: 37 Copynumber: 2.7 Consensus size: 39
33030 GCGATTCTGT
* * * **
33040 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAAGTTTCTCGTTGCGATTCTCATTTCG
33078 CGTTGCGA-TTT-AGTTTCTCGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTAAGTTTCTCGTTGCGATTCTCATTTCG
33115 CGTTGCGATTTTAAGTTTCGT-GTTGCGA
1 CGTTGCGATTTTAAGTTTC-TCGTTGCGA
33143 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
36 1 0.02
37 31 0.54
38 11 0.19
39 13 0.23
40 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (39 bp):
CGTTGCGATTTTAAGTTTCTCGTTGCGATTCTCATTTCG
Found at i:33653 original size:21 final size:21
Alignment explanation
Indices: 33593--33659 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
33583 TCATTCCTCG
* *
33593 AGAGTTCCCTCCCACCGTTCA
1 AGAGGTCCCTCCCACCATTCA
** * *
33614 AGAGG-CCACTATCATCATTGA
1 AGAGGTCC-CTCCCACCATTCA
33635 AGAGGTCCCTCCCACCATTCA
1 AGAGGTCCCTCCCACCATTCA
33656 AGAG
1 AGAG
33660 CCCGATTCAC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (21 bp):
AGAGGTCCCTCCCACCATTCA
Found at i:35078 original size:14 final size:14
Alignment explanation
Indices: 35059--35094 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
35049 ATTGTTTAAT
35059 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
35073 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
35087 TGATTTGT
1 TGATTTGT
35095 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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:35331 original size:53 final size:53
Alignment explanation
Indices: 35201--35318 Score: 184
Period size: 53 Copynumber: 2.2 Consensus size: 53
35191 AAAAATGACT
* * *
35201 ATCGCAATGTGGAAATGAAAATCGTAATAC-GAAATAAAAATCGCAACGAGAGA
1 ATCGCAATG-CGAAATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGA
*
35254 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGA
35307 ATCGCAATGCGA
1 ATCGCAATGCGA
35319 TTTTCATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 17 0.28
53 43 0.72
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGA
Found at i:35336 original size:19 final size:19
Alignment explanation
Indices: 35308--35515 Score: 234
Period size: 19 Copynumber: 11.7 Consensus size: 19
35298 AACGAGAGAA
*
35308 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
35327 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
35346 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
35363 TCG---TGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
35378 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
35397 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
35414 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
35431 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
35450 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
35469 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
35487 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
35503 TCGCATTGCGATT
1 TCGCATTGCGATT
35516 CTCTCGTTGC
Statistics
Matches: 163, Mismatches: 7, Indels: 38
0.78 0.03 0.18
Matches are distributed among these distances:
13 5 0.03
14 20 0.12
15 4 0.02
16 9 0.06
17 9 0.06
18 12 0.07
19 68 0.42
20 36 0.22
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:35451 original size:53 final size:52
Alignment explanation
Indices: 35314--35529 Score: 293
Period size: 53 Copynumber: 4.1 Consensus size: 52
35304 AGAATCGCAA
35314 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG-
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
35366 TGCGA-TTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
35418 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
35476 TGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
35523 TGCGATT
1 TGCGATT
35530 GTAATTTCCG
Statistics
Matches: 153, Mismatches: 3, Indels: 21
0.86 0.02 0.12
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 49 0.32
52 20 0.13
53 51 0.33
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.08
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:35462 original size:72 final size:72
Alignment explanation
Indices: 35308--35515 Score: 266
Period size: 72 Copynumber: 2.9 Consensus size: 72
35298 AACGAGAGAA
* * * * * *
35308 TCGCAATGCGATTTTCATTT-CGCATTGCGATTTTCAT-TTCCGCA-TTGCGATTCTCTC-GTGC
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCG-ATTTTC-ATT-TCGCATTGC
35369 GA-TTTCATT
63 GATTTTCATT
35378 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GTTGCGATTTTCATTTCGCATTGCGA
35442 TTTTCATT
65 TTTTCATT
* *
35450 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCGATTTTCATTTCGCATTGCGAT
35515 T
66 T
35516 CTCTCGTTGC
Statistics
Matches: 123, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
70 23 0.19
71 23 0.19
72 76 0.62
73 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (72 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCGATTTTCATTTCGCATTGCGAT
TTTCATT
Found at i:35537 original size:33 final size:33
Alignment explanation
Indices: 35383--35529 Score: 188
Period size: 33 Copynumber: 4.2 Consensus size: 33
35373 TCATTTCGCA
35383 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
35417 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
35453 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
35489 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
35522 TTGCGATT
1 TTGCGATT
35530 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 32 0.32
34 29 0.29
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:37823 original size:12 final size:12
Alignment explanation
Indices: 37806--37830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37796 TCTTCGGGGA
37806 CTTTTTCTTCTT
1 CTTTTTCTTCTT
37818 CTTTTTCTTCTT
1 CTTTTTCTTCTT
37830 C
1 C
37831 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:38039 original size:24 final size:24
Alignment explanation
Indices: 38005--38051 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37995 CTGAAACATC
38005 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
38029 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
38052 GACCAAATTT
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:38771 original size:20 final size:20
Alignment explanation
Indices: 38743--38971 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
38733 AAATTTCAGT
* * *
38743 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
38763 GTTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCGC
* *
38783 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
38803 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
38823 GCTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
38843 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
38863 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
38883 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
38903 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
38923 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
38943 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
38963 GTTGCGATT
1 GTTGCGATT
38972 CTGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:52287 original size:2 final size:2
Alignment explanation
Indices: 52275--52328 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
52265 TTTAAATCTC
*
52275 TA TA TA T- TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52316 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
52329 TTTTATTCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54266 original size:21 final size:22
Alignment explanation
Indices: 54241--54281 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
54231 ATAAAGAGTC
54241 ATATGAGAA-CAAATATAAGTA
1 ATATGAGAATCAAATATAAGTA
* *
54262 ATATGATAATGAAATATAAG
1 ATATGAGAATCAAATATAAG
54282 GCTATGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (22 bp):
ATATGAGAATCAAATATAAGTA
Found at i:55407 original size:149 final size:148
Alignment explanation
Indices: 55133--55446 Score: 513
Period size: 149 Copynumber: 2.1 Consensus size: 148
55123 GAATCGAGGG
* * * * * *
55133 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
*
55198 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
55263 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
* * *
55281 TCTATGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTT-TAAGACACAT
55346 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
55411 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
55430 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
55447 TGCAATTATA
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
148 48 0.31
149 105 0.69
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:56463 original size:32 final size:32
Alignment explanation
Indices: 56422--56494 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
56412 GTAAACAAAC
56422 TGCCCATTGCACCATATAAACCAGCAGCACAT
1 TGCCCATTGCACCATATAAACCAGCAGCACAT
*
56454 TGCCCATTGCACCATATGAACCAGCAGCACAT
1 TGCCCATTGCACCATATAAACCAGCAGCACAT
56486 TGCCCATTG
1 TGCCCATTG
56495 AGAATCGTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (32 bp):
TGCCCATTGCACCATATAAACCAGCAGCACAT
Found at i:60584 original size:162 final size:161
Alignment explanation
Indices: 60404--60718 Score: 558
Period size: 162 Copynumber: 2.0 Consensus size: 161
60394 TAAACTACGC
* * * *
60404 ATATCTAAACCATCAGCTTTGATCTGTTTTAGTGCATAAATTTTTAATTTTTTAAAAATTATACC
1 ATATCTAAACCATCAGCTTTGATCCGTTTTAGTGCATAAACTTTTAATTTTTTAAAAATCATACA
*
60469 TAAAGTTTAGTTTTTGTTTCATTTTAGATCACGCCGTTTAGTTTTGAAAAAAAAATGAAAGCCTA
66 TAAAGTTTAGTTTTTCTTTCATTTTAGATCACGCCGTTTAGTTTTG-AAAAAAAATGAAAGCCTA
60534 AGTACTAAAATGAAACAAAAACTACGCGTATA
130 AGTACTAAAATGAAACAAAAACTACGCGTATA
* *
60566 ATATCTAAACCATCAGCTTTGATCCGTTTTAGTTCATAAACTTTTAATTTTTTCAAAATCATACA
1 ATATCTAAACCATCAGCTTTGATCCGTTTTAGTGCATAAACTTTTAATTTTTTAAAAATCATACA
60631 TAAAGTTTAGTTTTTCTTTCATTTTAGATCACGCCGTTTAGTTTTGAAAAAAAATGAAAGCCTAA
66 TAAAGTTTAGTTTTTCTTTCATTTTAGATCACGCCGTTTAGTTTTGAAAAAAAATGAAAGCCTAA
60696 GTACTAAAATGAAACAAAAACTA
131 GTACTAAAATGAAACAAAAACTA
60719 AACTTTAGGT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
161 42 0.29
162 104 0.71
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (161 bp):
ATATCTAAACCATCAGCTTTGATCCGTTTTAGTGCATAAACTTTTAATTTTTTAAAAATCATACA
TAAAGTTTAGTTTTTCTTTCATTTTAGATCACGCCGTTTAGTTTTGAAAAAAAATGAAAGCCTAA
GTACTAAAATGAAACAAAAACTACGCGTATA
Found at i:61484 original size:14 final size:14
Alignment explanation
Indices: 61465--61492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61455 AAGTGAAAGA
61465 ATAGTTATATAATT
1 ATAGTTATATAATT
61479 ATAGTTATATAATT
1 ATAGTTATATAATT
61493 TTGTTATGAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:61996 original size:20 final size:20
Alignment explanation
Indices: 61973--62090 Score: 123
Period size: 20 Copynumber: 5.8 Consensus size: 20
61963 ATTCGCGTTG
61973 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* *
61993 CATTTCGCGTTGCGATAGTCTA
1 CATTTCGCGTTGCGAT--TTTC
*
62015 CA-GTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* *
62034 CATTTCGCGTTGCGATAGTCTA
1 CATTTCGCGTTGCGAT--TTTC
*
62056 CA-GTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
*
62075 CGTTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
62091 AGTCTACAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.09
20 40 0.51
21 24 0.30
22 8 0.10
ACGTcount: A:0.13, C:0.25, G:0.25, T:0.38
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:62024 original size:41 final size:41
Alignment explanation
Indices: 61977--62112 Score: 245
Period size: 41 Copynumber: 3.3 Consensus size: 41
61967 GCGTTGCATT
61977 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
62018 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
*
62059 TCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
*
62100 TTGTCGTTGCGAT
1 TCG-CGTTGCGAT
62113 AGTCTACAGT
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 83 0.90
42 9 0.10
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
Found at i:62110 original size:22 final size:21
Alignment explanation
Indices: 61999--62134 Score: 129
Period size: 22 Copynumber: 6.5 Consensus size: 21
61989 TTTCCATTTC
*
61999 GCGTTGCGATAGTCTACAGTC
1 GCGTTGCGATAGTCTACAGTT
* * *
62020 GCGTTGCGAT--TTTCCATTT
1 GCGTTGCGATAGTCTACAGTT
*
62039 CGCGTTGCGATAGTCTACAGTC
1 -GCGTTGCGATAGTCTACAGTT
* *
62061 GCGTTGCGAT--T-TTCCGTTT
1 GCGTTGCGATAGTCTACAG-TT
62080 CGCGTTGCGATAGTCTACAGTT
1 -GCGTTGCGATAGTCTACAGTT
62102 GTCGTTGCGATAGTCTACAGTT
1 G-CGTTGCGATAGTCTACAGTT
62124 GTCGTTGCGAT
1 G-CGTTGCGAT
62135 TTTCCAAATT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
18 3 0.03
19 7 0.08
20 20 0.22
21 21 0.23
22 39 0.42
23 3 0.03
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (21 bp):
GCGTTGCGATAGTCTACAGTT
Found at i:62253 original size:6 final size:6
Alignment explanation
Indices: 62234--62283 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
62224 GACACGTATT
*
62234 ACCACG ACCCCG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
62281 ACC
1 ACC
62284 CAAGACGGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
5 5 0.12
6 37 0.88
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:62790 original size:6 final size:6
Alignment explanation
Indices: 62779--62806 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62769 CGTCTCGGGT
62779 CGGTCG CGGTCG CGGTCG CGGTCG CGGT
1 CGGTCG CGGTCG CGGTCG CGGTCG CGGT
62807 AATACGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.50, T:0.18
Consensus pattern (6 bp):
CGGTCG
Found at i:62914 original size:19 final size:19
Alignment explanation
Indices: 62890--62953 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
62880 TTAACTATCA
62890 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
62909 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
62931 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
62950 CAAC
1 CAAC
62954 TACAACTGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 17 0.50
20 2 0.06
21 2 0.06
22 13 0.38
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:62940 original size:41 final size:41
Alignment explanation
Indices: 62899--63276 Score: 305
Period size: 41 Copynumber: 9.2 Consensus size: 41
62889 ACAACGAATT
*
62899 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAA-A
*
62940 TGGAAAATCGCAACTACAACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAAA
* *
62982 CGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAAA
* * * *
63023 TGGAAAATCGCAATG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAAC-CGAAA
* * * *
63064 TGGAAAATCGCAATG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAAC-CGAAA
* *
63105 TGGAAAGTCGCAACG-CGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAAA
* * * *
63146 TAGAAAATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAAC-CGAAA
* * * *
63187 TGGAAAATCGCAATG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAAC-CGAAA
* * *
63228 TGGAAAATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAAC-CGAAA
*
63269 TGAAAAAT
1 TGGAAAAT
63277 TACAACGCGA
Statistics
Matches: 311, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.00
41 291 0.94
42 15 0.05
43 4 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (41 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAAA
Found at i:63003 original size:82 final size:81
Alignment explanation
Indices: 62924--63311 Score: 487
Period size: 82 Copynumber: 4.7 Consensus size: 81
62914 ACAACTGTAG
* * * *
62924 ACTATCGCAA-CGAATTTGGAAAATCGCAACTACAACTGT-AGACTATCGCAACGCGAAACGGAA
1 ACTATCGCAACCGAA-ATGGAAAATCGCAA-TGCGACTGTCA-ACTATCGCAACGCGAAATGGAA
* *
62987 AATCGCAACGCGACTGT-A
63 AATCGCAACGCGATTTTCA
* *
63005 GACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 -ACTATCGCAAC-CGAAATGGAAAATCGCAATGCGACTGTCAACTATCGCAACGCGAAATGGAAA
*
63070 ATCGCAATGCGATTTTCA
64 ATCGCAACGCGATTTTCA
* * *
63088 ACTATCGCAACGCGAAATGGAAAGTCGCAACGCGACTGT-AGACTATCGCAACGCGAAATAGAAA
1 ACTATCGCAAC-CGAAATGGAAAATCGCAATGCGACTGTCA-ACTATCGCAACGCGAAATGGAAA
63152 ATCGCAACGCGATTTTCA
64 ATCGCAACGCGATTTTCA
* *
63170 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAAC-CGAAATGGAAAATCGCAATGCGACTGTCAACTATCGCAACGCGAAATGGAAAA
63235 TCGCAACGCGATTTTCA
65 TCGCAACGCGATTTTCA
* ** * * *
63252 ACTATCGCAACGCGAAATGAAAAATTACAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ACTATCGCAAC-CGAAATGGAAAATCGCAATGCGACTGTCAACTATCGCAACGCGAAATG
63312 CAACGCGAAT
Statistics
Matches: 276, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
81 1 0.00
82 255 0.92
83 16 0.06
84 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (81 bp):
ACTATCGCAACCGAAATGGAAAATCGCAATGCGACTGTCAACTATCGCAACGCGAAATGGAAAAT
CGCAACGCGATTTTCA
Found at i:63328 original size:41 final size:41
Alignment explanation
Indices: 62965--63311 Score: 545
Period size: 41 Copynumber: 8.5 Consensus size: 41
62955 ACAACTGTAG
* * *
62965 ACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
63005 GACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
63047 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * *
63088 ACTATCGCAACGCGAAATGGAAAGTCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
63128 GACTATCGCAACGCGAAATAGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
63170 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
63211 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* **
63252 ACTATCGCAACGCGAAATGAAAAATTACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
63293 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
63312 CAACGCGAAT
Statistics
Matches: 285, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
40 1 0.00
41 282 0.99
42 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:63367 original size:20 final size:20
Alignment explanation
Indices: 63344--63449 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
63334 AGATCGCGTT
*
63344 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
63364 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
63384 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * **
63405 GCGAAATGGAAAAAT-GCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
63425 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
63446 GCGA
1 GCGA
63450 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:63401 original size:41 final size:41
Alignment explanation
Indices: 63351--63453 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
63341 GTTGCGATTT
63351 CAACTATCGCAACGCGAAATGG-AAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAAT-GCAACGCGATCTC
* *
63392 CAACTATCGCAACGCGAAATGGAAAAATGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAATGCAACGCGATCTC
*
63433 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
63454 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 53 0.91
42 5 0.09
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAATGCAACGCGATCTC
Found at i:63489 original size:142 final size:143
Alignment explanation
Indices: 63193--63489 Score: 492
Period size: 142 Copynumber: 2.1 Consensus size: 143
63183 GAAATGGAAA
* *
63193 ATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
1 ATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
63258 GCAACGCGAAATGAAAAATTACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATT
66 GCAACGCGAAATGAAAAATTACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATT
63323 TGCGATGATGGAG
131 TGCGATGATGGAG
**
63336 ATCGCGTTGCGA-TTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
1 ATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
* * *
63400 GCAACGCGAAATGGAAAAA-TGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACGTGAAT
66 GCAACGCGAAAT-GAAAAATTACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAAT
63464 TTGCGAT-AGTGGAG
130 TTGCGATGA-TGGAG
63478 ATCGCAATGCGA
1 ATCGCAATGCGA
63490 AATAGAGATC
Statistics
Matches: 143, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
141 1 0.01
142 126 0.88
143 16 0.11
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (143 bp):
ATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
GCAACGCGAAATGAAAAATTACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATT
TGCGATGATGGAG
Found at i:65482 original size:38 final size:38
Alignment explanation
Indices: 65440--65512 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
65430 AAAAAGACGG
*
65440 ATCAAATTCAAGTCGAAT-GAAGAGTATATATTTTTTGA
1 ATCAAATTCAAATCGAATAGAAGA-TATATATTTTTTGA
* *
65478 ATCAAATTCAAATCGAGTAGAATATATATATTTTT
1 ATCAAATTCAAATCGAATAGAAGATATATATTTTT
65513 CATGTGTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 27 0.87
39 4 0.13
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (38 bp):
ATCAAATTCAAATCGAATAGAAGATATATATTTTTTGA
Found at i:65940 original size:42 final size:42
Alignment explanation
Indices: 65880--65971 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
65870 CTCGAAATCT
* *
65880 CGTGTTTATTTCATGTAATTCATTTTCCGAAAAATATTTTCC
1 CGTGTTTGTTTCACGTAATTCATTTTCCGAAAAATATTTTCC
* *
65922 CGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTCT
1 CGTGTTTGTTTCACGTAATTCATTTTCCGAAAAATATTTTCC
*
65964 AGTGTTTG
1 CGTGTTTG
65972 GTTGGAGGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCATTTTCCGAAAAATATTTTCC
Found at i:66509 original size:27 final size:26
Alignment explanation
Indices: 66479--66568 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 26
66469 ATTATAAAAA
66479 TAATATTTAATAATAAATAAATTATTT
1 TAATATTTAAT-ATAAATAAATTATTT
*
66506 TAATATTT--TA-AAAT-AATTATAT
1 TAATATTTAATATAAATAAATTATTT
*
66528 TAA-GTTTAATGATAAATAATATTATTT
1 TAATATTTAAT-ATAAATAA-ATTATTT
**
66555 ATTGTATTTAATAT
1 -TAATATTTAATAT
66569 TTATAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
21 3 0.06
22 10 0.20
23 5 0.10
24 2 0.04
25 5 0.10
26 1 0.02
27 14 0.29
28 3 0.06
29 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (26 bp):
TAATATTTAATATAAATAAATTATTT
Found at i:66700 original size:14 final size:14
Alignment explanation
Indices: 66681--66714 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
66671 AAATATAATT
*
66681 CATTTTACGAAAAA
1 CATTTTACAAAAAA
*
66695 CATTTTTCAAAAAA
1 CATTTTACAAAAAA
66709 CATTTT
1 CATTTT
66715 CTAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (14 bp):
CATTTTACAAAAAA
Found at i:66714 original size:13 final size:15
Alignment explanation
Indices: 66690--66721 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
66680 TCATTTTACG
66690 AAAAACATTTTTC-A
1 AAAAACATTTTTCTA
66704 AAAAACA-TTTTCTA
1 AAAAACATTTTTCTA
66718 AAAA
1 AAAA
66722 TTTAATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAACATTTTTCTA
Found at i:71215 original size:30 final size:30
Alignment explanation
Indices: 71181--71252 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
71171 AAATAATTTG
* **
71181 GAGGGTCTAATTACAATTTTC-AAAACTATT
1 GAGGGTCTAATGACAA-TTTCAAAAAAAATT
* *
71211 GAGGGGTTTAATGAGAATTTCAAAAAAAATT
1 GA-GGGTCTAATGACAATTTCAAAAAAAATT
71242 GAGGGTCTAAT
1 GAGGGTCTAAT
71253 AGCAACTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (30 bp):
GAGGGTCTAATGACAATTTCAAAAAAAATT
Found at i:77468 original size:49 final size:50
Alignment explanation
Indices: 77371--77468 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 50
77361 AGCACAGATT
* * *
77371 TAGGTTCGGTCTCAATAAAAATATAAAATGGAACATATAACAATGTATCG
1 TAGGTTCGGCCTCAATAAAAATATAAAATGGAACACATAACAACGTATCG
* * *
77421 TAGGTTCGGCCTCAATGGAAAA-A-AAAATGGAACACCTAATAACGTATC
1 TAGGTTCGGCCTCAAT-AAAAATATAAAATGGAACACATAACAACGTATC
77469 TTTCGGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 21 0.51
50 16 0.39
51 4 0.10
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGGTTCGGCCTCAATAAAAATATAAAATGGAACACATAACAACGTATCG
Found at i:78536 original size:13 final size:13
Alignment explanation
Indices: 78520--78549 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
78510 TTTAATTGCG
78520 AAAATTAAAATTT
1 AAAATTAAAATTT
78533 AAAATTAAAATTT
1 AAAATTAAAATTT
78546 AAAA
1 AAAA
78550 AATCCGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:80059 original size:10 final size:10
Alignment explanation
Indices: 80046--80083 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
80036 TAAGTTAATA
80046 AAATGAAATG
1 AAATGAAATG
*
80056 AAATAAAATG
1 AAATGAAATG
80066 AAATGAAATG
1 AAATGAAATG
80076 AAAT-AAAT
1 AAATGAAAT
80084 ATTAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (10 bp):
AAATGAAATG
Found at i:80062 original size:15 final size:15
Alignment explanation
Indices: 80042--80083 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
80032 AAATTAAGTT
80042 AATAAAATGAAATGA
1 AATAAAATGAAATGA
80057 AATAAAATGAAATGA
1 AATAAAATGAAATGA
*
80072 AATGAAAT-AAAT
1 AATAAAATGAAAT
80084 ATTAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (15 bp):
AATAAAATGAAATGA
Found at i:80178 original size:32 final size:33
Alignment explanation
Indices: 80123--80186 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
80113 TATGTTTCAA
* * *
80123 AAAAAATATTTTTTAAAATTATATATTATATAT
1 AAAAAACATTTTTCAAAACTATATATTATATAT
80156 AAAAAACA-TTTTCAAAACTATATATTATATA
1 AAAAAACATTTTTCAAAACTATATATTATATA
80187 GTTTTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (33 bp):
AAAAAACATTTTTCAAAACTATATATTATATAT
Found at i:80217 original size:39 final size:34
Alignment explanation
Indices: 80164--80414 Score: 136
Period size: 39 Copynumber: 7.0 Consensus size: 34
80154 ATAAAAAACA
* *
80164 TTTTCAAAACTATATATTATATAGTTTTCAAAAATG
1 TTTTAAAAAATATATA-TATATA-TTTTCAAAAATG
*
80200 ATTTT-AAAAATAT-TATATA-AGTTTTCCAAAATG
1 -TTTTAAAAAATATATATATATA-TTTTCAAAAATG
* * *
80233 TTTTGTTAAAACTATATATTATATAAATTTTCCCAAAATG
1 --TT-TTAAAA-AATATA-TATATATATTTT-CAAAAATG
80273 TTTTTAAAAAATATATAT-TATATTTTC-AAAATG
1 -TTTTAAAAAATATATATATATATTTTCAAAAATG
* * * * * *
80306 ATTTCAAAACTATATACTACATAATTTCCAAAATG
1 TTTTAAAAAATATATA-TATATATTTTCAAAAATG
* * *
80341 TTTTAAAACTTATATATTGTATATAAGTTTTCAAAAACG
1 TTTTAAAA--AATATA-TATATAT-A-TTTTCAAAAATG
*
80380 TTTTAAAAAA-ACTATATAATACATATTTCAAAAAT
1 TTTTAAAAAATA-TATAT-ATATAT-TTTCAAAAAT
80415 ATATTTTTCA
Statistics
Matches: 171, Mismatches: 24, Indels: 39
0.73 0.10 0.17
Matches are distributed among these distances:
32 13 0.08
33 20 0.12
34 14 0.08
35 24 0.14
36 26 0.15
37 27 0.16
38 8 0.05
39 30 0.18
40 9 0.05
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (34 bp):
TTTTAAAAAATATATATATATATTTTCAAAAATG
Found at i:80247 original size:71 final size:67
Alignment explanation
Indices: 80165--80358 Score: 196
Period size: 71 Copynumber: 2.8 Consensus size: 67
80155 TAAAAAACAT
*
80165 TTTCAAAACTATATATTATATAGTTTTCAAAAATGATTTT-AAAAATAT-TA-TATAAGTTTTCC
1 TTTCAAAACTATATATTATATA-TTTTCCAAAATG-TTTTAAAAAATATATATTAT-A-TTTT-C
*
80227 AAAATGTT
61 AAAATG-A
*
80235 TTGTTAAAACTATATATTATATAAATTTTCCCAAAATGTTTTTAAAAAATATATATTATATTTTC
1 TT-TCAAAACTATATATTATAT--ATTTT-CCAAAATG-TTTTAAAAAATATATATTATATTTTC
80300 AAAATGA
61 AAAATGA
* * * **
80307 TTTCAAAACTATATACTACATAATTTCCAAAATGTTTTAAAACTTATATATT
1 TTTCAAAACTATATATTATATATTTTCCAAAATGTTTTAAAAAATATATATT
80359 GTATATAAGT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
67 16 0.15
68 8 0.07
69 4 0.04
70 2 0.02
71 34 0.32
72 6 0.06
73 19 0.18
74 12 0.11
75 3 0.03
76 3 0.03
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (67 bp):
TTTCAAAACTATATATTATATATTTTCCAAAATGTTTTAAAAAATATATATTATATTTTCAAAAT
GA
Found at i:80321 original size:34 final size:34
Alignment explanation
Indices: 80133--80358 Score: 141
Period size: 33 Copynumber: 6.6 Consensus size: 34
80123 AAAAAATATT
* * **
80133 TTTTAAAA-T-TATATATTATA-TATAAAAAACA
1 TTTTAAAACTATATATATTATATTTTCAAAATGA
80164 TTTTCAAAACTATATAT-TATATAGTTTTCAAAAATGA
1 TTTT-AAAACTATATATAT-TATA-TTTTC-AAAATGA
* *
80201 TTTTAAAAATAT-TATA-TA-AGTTTTCCAAAATGTT
1 TTTTAAAACTATATATATTATA-TTTT-CAAAATG-A
* *
80235 TTGTTAAAACTATATATTATATAAATTTTCCCAAAATGT
1 TT-TTAAAACTATATA-TAT-TATATTTT--CAAAATGA
*
80274 TTTTAAAA-AATATATATTATATTTTCAAAATGA
1 TTTTAAAACTATATATATTATATTTTCAAAATGA
* * *
80307 TTTCAAAACTATATACTA-CATAATTTCCAAAATG-
1 TTTTAAAACTATATA-TATTAT-ATTTTCAAAATGA
80341 TTTTAAAACT-TATATATT
1 TTTTAAAACTATATATATT
80359 GTATATAAGT
Statistics
Matches: 158, Mismatches: 16, Indels: 40
0.74 0.07 0.19
Matches are distributed among these distances:
31 4 0.03
32 6 0.04
33 32 0.20
34 30 0.19
35 32 0.20
36 14 0.09
37 16 0.10
38 6 0.04
39 9 0.06
40 9 0.06
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (34 bp):
TTTTAAAACTATATATATTATATTTTCAAAATGA
Found at i:80420 original size:13 final size:14
Alignment explanation
Indices: 80405--80456 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
80395 ATAATACATA
80405 TTTCAAAAATATATT
1 TTTCAAAAATATA-T
80420 TTTCAAAAATATATT
1 TTTCAAAAATATA-T
*
80435 TTTC-AAAA-ACAT
1 TTTCAAAAATATAT
80447 TTTCAAAAAT
1 TTTCAAAAAT
80457 TATACTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
12 5 0.15
13 6 0.18
14 4 0.12
15 19 0.56
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTCAAAAATATAT
Found at i:80423 original size:15 final size:15
Alignment explanation
Indices: 80405--80443 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
80395 ATAATACATA
80405 TTTCAAAAATATATT
1 TTTCAAAAATATATT
80420 TTTCAAAAATATATT
1 TTTCAAAAATATATT
80435 TTTCAAAAA
1 TTTCAAAAA
80444 CATTTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTCAAAAATATATT
Found at i:83268 original size:23 final size:23
Alignment explanation
Indices: 83242--83285 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
83232 TCATGTTTGG
83242 CACATACCCGGATTTGATACTCA
1 CACATACCCGGATTTGATACTCA
83265 CACATACCCGGATTTGATACT
1 CACATACCCGGATTTGATACT
83286 TGCACTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (23 bp):
CACATACCCGGATTTGATACTCA
Found at i:87676 original size:12 final size:12
Alignment explanation
Indices: 87650--87685 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
87640 GATTCAATTG
87650 GAATTTACAATAA
1 GAATTTAC-ATAA
87663 GAATTTACATAA
1 GAATTTACATAA
87675 GAATTTACATA
1 GAATTTACATA
87686 TTATCCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (12 bp):
GAATTTACATAA
Found at i:93100 original size:12 final size:13
Alignment explanation
Indices: 93084--93126 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
93074 TTACCTGAAA
*
93084 ATATTATCTATA-
1 ATATTATATATAT
93096 ATATTATATATAT
1 ATATTATATATAT
93109 ATATATATATATAT
1 ATAT-TATATATAT
93123 ATAT
1 ATAT
93127 AGTAAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 11 0.39
13 4 0.14
14 13 0.46
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATTATATATAT
Found at i:93107 original size:2 final size:2
Alignment explanation
Indices: 93092--93127 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
93082 AAATATTATC
93092 TA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93128 GTAAATAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100021 original size:21 final size:21
Alignment explanation
Indices: 99987--100026 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
99977 CACTAATGAC
99987 TATTAGTTATTTTGTTTTCTA
1 TATTAGTTATTTTGTTTTCTA
100008 TATTATGTTA-TTTGTTTTC
1 TATTA-GTTATTTTGTTTTC
100027 ATTTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.68
Consensus pattern (21 bp):
TATTAGTTATTTTGTTTTCTA
Found at i:106046 original size:16 final size:15
Alignment explanation
Indices: 106021--106054 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
106011 TAAAAGTTAG
*
106021 ATACGAATAATGATA
1 ATACGAATAATAATA
106036 ATACAGAATAATAATA
1 ATAC-GAATAATAATA
106052 ATA
1 ATA
106055 ATTTCATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (15 bp):
ATACGAATAATAATA
Found at i:109007 original size:21 final size:21
Alignment explanation
Indices: 108982--109022 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
108972 TTGTTTTCCC
*
108982 CCACAG-TCCTTTCTTGTTCAT
1 CCACAGCT-CTTTATTGTTCAT
109003 CCACAGCTCTTTATTGTTCA
1 CCACAGCTCTTTATTGTTCA
109023 AAGAATGCAA
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:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (21 bp):
CCACAGCTCTTTATTGTTCAT
Found at i:111520 original size:31 final size:31
Alignment explanation
Indices: 111485--111545 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
111475 TTTAATAGCT
*
111485 AGTCAA-AGGACTCAACAAAGTAATGTCCTAC
1 AGTCAAGA-GACTCAACAAAGCAATGTCCTAC
*
111516 AGTCAAGAGACTCAACAAAGCAGTGTCCTA
1 AGTCAAGAGACTCAACAAAGCAATGTCCTA
111546 TTGTCGATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (31 bp):
AGTCAAGAGACTCAACAAAGCAATGTCCTAC
Found at i:117506 original size:28 final size:28
Alignment explanation
Indices: 117475--117529 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
117465 CTTTTAAAAG
* *
117475 TTTACATCTATTTCTACGTAAAAATACA
1 TTTACACCTATTCCTACGTAAAAATACA
117503 TTTACACCTATTCCTACGTAAAAATAC
1 TTTACACCTATTCCTACGTAAAAATAC
117530 GTTAACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (28 bp):
TTTACACCTATTCCTACGTAAAAATACA
Found at i:121673 original size:22 final size:21
Alignment explanation
Indices: 121632--121673 Score: 50
Period size: 22 Copynumber: 1.9 Consensus size: 21
121622 GAGGTTAAAG
121632 AAATATATTTTTTATTAATATA
1 AAATATATTTTTTA-TAATATA
121654 AAATAATATTTATTTA-AATA
1 AAAT-ATATTT-TTTATAATA
121674 CAACTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.44
23 6 0.33
24 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATATTTTTTATAATATA
Found at i:125804 original size:8 final size:8
Alignment explanation
Indices: 125791--125820 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
125781 AAAGATTTAA
*
125791 TTTAAACT
1 TTTAAAAT
125799 TTTAAAAT
1 TTTAAAAT
125807 TTTAAAAT
1 TTTAAAAT
125815 TTTAAA
1 TTTAAA
125821 TTGACCACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTAAAAT
Found at i:136145 original size:11 final size:11
Alignment explanation
Indices: 136129--136155 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
136119 AATGACTAAA
136129 TTAAATAAATT
1 TTAAATAAATT
136140 TTAAATAAATT
1 TTAAATAAATT
136151 TTAAA
1 TTAAA
136156 ATTTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTAAATAAATT
Found at i:140179 original size:16 final size:17
Alignment explanation
Indices: 140149--140183 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
140139 TAACCAAGTG
140149 AAAAAGACCCAATATTA
1 AAAAAGACCCAATATTA
*
140166 AAAAAGACGC-ATATTA
1 AAAAAGACCCAATATTA
140182 AA
1 AA
140184 CACAATGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAAAGACCCAATATTA
Found at i:141164 original size:15 final size:15
Alignment explanation
Indices: 141144--141172 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
141134 ATGCTTCAAC
141144 TATATTGAATAAAAT
1 TATATTGAATAAAAT
141159 TATATTGAATAAAA
1 TATATTGAATAAAA
141173 ATATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TATATTGAATAAAAT
Found at i:141716 original size:253 final size:248
Alignment explanation
Indices: 141161--141741 Score: 799
Period size: 253 Copynumber: 2.3 Consensus size: 248
141151 AATAAAATTA
***
141161 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTGGGTTTCTAATTCATATATTTAAGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTC--G--GGGTTTCTAATTCATATATTCGGGT
141226 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTCGGTTTTTTTAAGTGTGATATTCGGGTCG
62 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTCGGTTTTTTTAAGTGTGATATTCGGGTCG
* * *
141291 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCTGACCCGAATATATAATTTTACCTTATATATTTA
127 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCAAATATATAATTTTACCTTATATAATTA
* *
141356 GGAATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCACTATTTT
192 AGAATAATTACAATAATACCCATCTATATATAATTTTTTCAATTAAGTCACTATTTT
*
141413 TATTAAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGG
1 TATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTC-GG--GG-TTTCTAATTCATATATTCGGG
*
141478 TCGGGTC-GGTGAAATTTTATTTTGGTCGGGTCGGGTT-GGTTTTTTTTAAGTGTGATATTCGGG
61 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTC-GGTTCGG-TTTTTTTAAGTGTGATATTCGGG
* *
141541 TCGGGTCGGGTTCGGGTTTAGGGTGAAACATACCCGACCCAAAAAATATATAATTTTACCTTATA
124 TCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCC---AAATATATAATTTTACCTTATA
* * * * * *
141606 TAATTAAGAATAATTACAATAATACTCATCTCTATATATTTTTTTCCCAATTAAGTTATTGTTTT
186 TAATTAAGAATAATTACAATAATACCCATCTATATATAATTTTTT--CAATTAAGTCACTATTTT
**
141671 TATTGAATAAAAATGATTTTTTTATTATTTCGAATC-GGGTTTCTAATTCATATATTCGGGTCGG
1 TATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGGGTTTCTAATTCATATATTCGGGTCGG
*
141735 GTAGGGT
65 GTCGGGT
141742 CTCGGATGGA
Statistics
Matches: 294, Mismatches: 23, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
250 1 0.00
252 43 0.15
253 137 0.47
254 5 0.02
256 61 0.21
258 47 0.16
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (248 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGGTTTCTAATTCATATATTCGGGTCGGG
TCGGGTGAAACTTTATTTTGGTCGGGTCGGTTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTC
GAGTTCGGGTTTAGGGTGAAAAATACCCGACCCAAATATATAATTTTACCTTATATAATTAAGAA
TAATTACAATAATACCCATCTATATATAATTTTTTCAATTAAGTCACTATTTT
Found at i:142717 original size:259 final size:258
Alignment explanation
Indices: 142425--142952 Score: 750
Period size: 261 Copynumber: 2.0 Consensus size: 258
142415 ATAAAGTTTC
*
142425 ACCCGACCTGACCCGAAATAATAATAAAATTATTTTTATTCAATAAAAACAATGACTTAATT-AT
1 ACCCGACCCGACCCGAAATAATAATAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGA-
*
142489 AAAAAAATATATATA-A-A-GTGGTATTATTGTAATTATTCCTAAATATATATAAGGTAAAATTA
65 AAAAAAATATATATATAGAGGGGGTATTATTGTAATTATTCCT-AA-ATATATAAGGTAAAATTA
* *
142551 TATAT-TTGTTGGGTCGGGTATTTTTCACCTTAAACCCGAAC-CTGACCC-A-AATATCACACCT
128 TATATATTGTTGGGTCGGGTATTTTTCACCCTAAACCCGAACTC-GACCCGACAACATCACACCT
* * * *
142612 AAAAAAATCGACCCGACCCTACCAAAATAAAGTTTCACCCGACCCAACCCGAATATATGAATTAG
192 AAAAAAACCGACACGACCCGACCAAAATAAAATTTCACCCG-----ACCCGAATATATGAATTAG
*
142677 AAATCCG
252 AAACCCG
*
142684 ACCCGACCCGACCCGAAATAATAA-AATAATTATTTTTATTCAATAAAAACAGTGACTTAATTGA
1 ACCCGACCCGACCCGAAATAATAATAA-AATTATTTTTATTCAATAAAAACAATGACTTAATTGA
142748 AAAAAAATATATATATAGAGGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATA
65 AAAAAAATATATATATAGAGGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATA
* *
142813 TATATTTTTGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACTCGAACATCACACTT
130 TATATTGTTGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGA--C-AACATCACACCT
*
142878 AAAAAAACCGACATGACCCGACCAAAATAAAATTTCACCCGACCCGAATATATGAATTAGAAACC
192 AAAAAAACCGACACGACCCGACCAAAATAAAATTTCACCCGACCCGAATATATGAATTAGAAACC
142943 CG
257 CG
*
142945 ACCTGACC
1 ACCCGACC
142953 TGAAATAATA
Statistics
Matches: 243, Mismatches: 14, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
258 2 0.01
259 72 0.30
260 25 0.10
261 74 0.30
262 24 0.10
266 46 0.19
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (258 bp):
ACCCGACCCGACCCGAAATAATAATAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAA
AAAAAATATATATATAGAGGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATAT
ATATTGTTGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACAACATCACACCTAAAA
AAACCGACACGACCCGACCAAAATAAAATTTCACCCGACCCGAATATATGAATTAGAAACCCG
Found at i:143543 original size:20 final size:21
Alignment explanation
Indices: 143518--143558 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
143508 ATATATATAT
143518 ATATATATATATATTCTTTAAA
1 ATATATATATAT-TTCTTTAAA
*
143540 ATATTTATATATTTCTTTA
1 ATATATATATATTTCTTTA
143559 TATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATATATATTTCTTTAAA
Found at i:143550 original size:2 final size:2
Alignment explanation
Indices: 143507--143531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
143497 TCATAAAATT
143507 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
143532 TCTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:144196 original size:2 final size:2
Alignment explanation
Indices: 144189--144252 Score: 98
Period size: 2 Copynumber: 33.5 Consensus size: 2
144179 ATCTTTCAAT
*
144189 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
144230 TA TA TA TA T- TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
144253 TTTATTGCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 3 0.05
2 54 0.95
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:144306 original size:36 final size:36
Alignment explanation
Indices: 144238--144311 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
144228 TATATATATA
* * *
144238 TTAATATATATATATTTTATTGCATATGAAAAAATG
1 TTAATATATACATATTTTATAGCATATAAAAAAATG
* *
144274 TTAATATATACATATTATTATAG-TTATAAAAAACTG
1 TTAATATATACATATT-TTATAGCATATAAAAAAATG
144310 TT
1 TT
144312 TTAAATTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 27 0.84
37 5 0.16
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TTAATATATACATATTTTATAGCATATAAAAAAATG
Done.