Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004669.1 Hibiscus syriacus cultivar Beakdansim tig00010471_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: 114184
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:841 original size:16 final size:16
Alignment explanation
Indices: 820--867 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
810 TTAATAAATA
820 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
836 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
852 ACGAACAT-AACGAAC
1 ACGAACATAAACGAAC
867 A
1 A
868 AATTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 8 0.25
16 24 0.75
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:951 original size:15 final size:15
Alignment explanation
Indices: 931--974 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
921 TTAATAAATA
931 AACGAACACGAACAT
1 AACGAACACGAACAT
946 AACGAACACG-A-A-
1 AACGAACACGAACAT
*
958 AATGAACACGAACAT
1 AACGAACACGAACAT
973 AA
1 AA
975 ACGTTGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 2 0.08
15 12 0.48
ACGTcount: A:0.57, C:0.23, G:0.14, T:0.07
Consensus pattern (15 bp):
AACGAACACGAACAT
Found at i:1715 original size:14 final size:13
Alignment explanation
Indices: 1698--1773 Score: 65
Period size: 14 Copynumber: 6.0 Consensus size: 13
1688 GATTGGGTTA
1698 AACATAATCGAACG
1 AACATAA-CGAACG
1712 AACAT-A--AACG
1 AACATAACGAACG
1722 AACATAATCGAACG
1 AACATAA-CGAACG
1736 AACAT-A--AACG
1 AACATAACGAACG
*
1746 AACATAACCAAACG
1 AACATAA-CGAACG
1760 AACATAACCGAACG
1 AACATAA-CGAACG
1774 TTCACGAACC
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
10 18 0.34
11 2 0.04
13 2 0.04
14 31 0.58
ACGTcount: A:0.54, C:0.24, G:0.12, T:0.11
Consensus pattern (13 bp):
AACATAACGAACG
Found at i:1725 original size:24 final size:24
Alignment explanation
Indices: 1698--1772 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
1688 GATTGGGTTA
1698 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
1722 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
1746 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
1770 AAC
1 AAC
1773 GTTCACGAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.11
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:1771 original size:10 final size:10
Alignment explanation
Indices: 1708--1752 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 10
1698 AACATAATCG
1708 AACGAACATA
1 AACGAACATA
1718 AACGAACATAA
1 AACGAACAT-A
1729 TCGAACGAACATA
1 ---AACGAACATA
1742 AACGAACATA
1 AACGAACATA
1752 A
1 A
1753 CCAAACGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 20 0.65
11 1 0.03
13 1 0.03
14 9 0.29
ACGTcount: A:0.58, C:0.20, G:0.11, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Found at i:5930 original size:12 final size:12
Alignment explanation
Indices: 5897--5936 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
5887 ACATAACTGC
*
5897 ATATAAGTATGT
1 ATATAAGTATAT
* *
5909 ATGTATGTATAT
1 ATATAAGTATAT
5921 ATATAAGTATAT
1 ATATAAGTATAT
5933 ATAT
1 ATAT
5937 GCATGTATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
ATATAAGTATAT
Found at i:5972 original size:2 final size:2
Alignment explanation
Indices: 5965--5999 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5955 ATGATGCATG
5965 TA TA TA TA TA 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 TA TA T
6000 CATAATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6489 original size:23 final size:24
Alignment explanation
Indices: 6444--6493 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
6434 AACTTTTATA
6444 TATATTTTAAAATTTTAAGTTAAAT
1 TATATTTTAAAATTTTAAGTT-AAT
6469 TATA-TTT-AAATTATTAA-TTAAT
1 TATATTTTAAAATT-TTAAGTTAAT
6491 TAT
1 TAT
6494 TGCATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 7 0.29
25 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATTTTAAAATTTTAAGTTAAT
Found at i:6606 original size:18 final size:18
Alignment explanation
Indices: 6577--6621 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6567 ATAAACTACT
*
6577 TAATAAAATTAA-TTTAA
1 TAATATAATTAAGTTTAA
*
6594 TAATTATAATTAAGTTTTA
1 TAA-TATAATTAAGTTTAA
6613 TAATATAAT
1 TAATATAAT
6622 GATTATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 14 0.58
19 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAATATAATTAAGTTTAA
Found at i:25812 original size:21 final size:20
Alignment explanation
Indices: 25786--25828 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
25776 GTATAGATAC
25786 TACTCTATAT-AGTAGTATCGA
1 TACTCT-TATGAG-AGTATCGA
*
25807 TACTCTTTTGAGAGTATCGA
1 TACTCTTATGAGAGTATCGA
25827 TA
1 TA
25829 TCGTTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
TACTCTTATGAGAGTATCGA
Found at i:29670 original size:18 final size:18
Alignment explanation
Indices: 29647--29688 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
29637 TTCTTCATCT
29647 TCATCATTAGAGGACTCA
1 TCATCATTAGAGGACTCA
29665 TCATCATTAGAGGACTCA
1 TCATCATTAGAGGACTCA
29683 TCATCA
1 TCATCA
29689 CTCCATGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (18 bp):
TCATCATTAGAGGACTCA
Found at i:29671 original size:21 final size:20
Alignment explanation
Indices: 29641--29688 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
29631 GGCTACTTCT
*
29641 TCATCTTCATCATTAGAGGA
1 TCATCATCATCATTAGAGGA
29661 -C-TCATCATCATTAGAGGA
1 TCATCATCATCATTAGAGGA
29679 CTCATCATCA
1 -TCATCATCA
29689 CTCCATGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 16 0.67
19 1 0.04
20 1 0.04
21 6 0.25
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
TCATCATCATCATTAGAGGA
Found at i:40360 original size:2 final size:2
Alignment explanation
Indices: 40353--40435 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
40343 CTTTTAAAAC
40353 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
40395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40436 CCCCCATCCG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:40634 original size:24 final size:23
Alignment explanation
Indices: 40602--40686 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
40592 ATAAAAAAAA
*
40602 ATCAAATCATAATTCACATCAAGT
1 ATCATATCATAATTCA-ATCAAGT
* * *
40626 ATCATATCAAAATCCAGGTCAAGT
1 ATCATATCATAATTCA-ATCAAGT
*
40650 ATCATATCAGAATTCAAGTCAAGT
1 ATCATATCATAATTCAA-TCAAGT
* *
40674 ATCAGATTATAAT
1 ATCATATCATAAT
40687 CCATGTCAGA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (23 bp):
ATCATATCATAATTCAATCAAGT
Found at i:40694 original size:24 final size:24
Alignment explanation
Indices: 40620--40703 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
40610 ATAATTCACA
* *
40620 TCAAGTATCATATCAAAATCCAGG
1 TCAAGTATCAGATCAAAATCCAAG
* * *
40644 TCAAGTATCATATCAGAATTCAAG
1 TCAAGTATCAGATCAAAATCCAAG
* * *
40668 TCAAGTATCAGATTATAATCCATG
1 TCAAGTATCAGATCAAAATCCAAG
40692 TC-AGATATCAGA
1 TCAAG-TATCAGA
40704 ACATAATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 2 0.04
24 49 0.96
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (24 bp):
TCAAGTATCAGATCAAAATCCAAG
Found at i:40701 original size:48 final size:48
Alignment explanation
Indices: 40602--40694 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
40592 ATAAAAAAAA
* *
40602 ATCAAATCATAATTCACATCAAGTATCATATCAAAATCCAGGTCAAGT
1 ATCAAATCAGAATTCACATCAAGTATCAGATCAAAATCCAGGTCAAGT
* * * *
40650 ATCATATCAGAATTCA-AGTCAAGTATCAGATTATAATCCATGTCA
1 ATCAAATCAGAATTCACA-TCAAGTATCAGATCAAAATCCAGGTCA
40695 GATATCAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.03
48 37 0.97
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (48 bp):
ATCAAATCAGAATTCACATCAAGTATCAGATCAAAATCCAGGTCAAGT
Found at i:40712 original size:48 final size:47
Alignment explanation
Indices: 40609--40714 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 47
40599 AAAATCAAAT
* * *
40609 CATAATTCACATCAAGTATCATATCAAAATCCAGGTCAAGTATCATAT
1 CATAATTCA-ATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGAA
* * * *
40657 CAGAATTCAAGTCAAGTATCAGATTATAATCCATGTC-AGATATCAGAA
1 CATAATTCAA-TCAAGTATCAGATCAAAATCCAGGTCAAG-TATCAGAA
40705 CATAATTCAA
1 CATAATTCAA
40715 ATCGAAAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
47 3 0.06
48 45 0.94
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (47 bp):
CATAATTCAATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGAA
Found at i:42243 original size:13 final size:13
Alignment explanation
Indices: 42221--42262 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
42211 CAGGTCAACT
42221 GTCAAAGGGTCGG
1 GTCAAAGGGTCGG
*
42234 GTCAATGGGTCGG
1 GTCAAAGGGTCGG
*
42247 GT-AAACAGGTCGG
1 GTCAAA-GGGTCGG
42260 GTC
1 GTC
42263 GGGTTATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.08
13 22 0.92
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (13 bp):
GTCAAAGGGTCGG
Found at i:44285 original size:35 final size:35
Alignment explanation
Indices: 44240--44335 Score: 174
Period size: 35 Copynumber: 2.7 Consensus size: 35
44230 TCACGTCCAA
*
44240 TAAGGTCCTGAGCACACAGCCGAGGAACCGATAAG
1 TAAGGCCCTGAGCACACAGCCGAGGAACCGATAAG
*
44275 TAAGGCCCTGAGCACACAGCCGAGGAACCGGTAAG
1 TAAGGCCCTGAGCACACAGCCGAGGAACCGATAAG
44310 TAAGGCCCTGAGCACACAGCCGAGGA
1 TAAGGCCCTGAGCACACAGCCGAGGA
44336 GCCTCCAGGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.32, C:0.28, G:0.30, T:0.09
Consensus pattern (35 bp):
TAAGGCCCTGAGCACACAGCCGAGGAACCGATAAG
Found at i:44445 original size:24 final size:24
Alignment explanation
Indices: 44413--44525 Score: 122
Period size: 24 Copynumber: 4.7 Consensus size: 24
44403 TAAAAAAAAA
* * *
44413 ATCAAATCATAATTCACGTCAAGT
1 ATCAGATCAAAATTCAAGTCAAGT
* * *
44437 ATCATATCAAAATCCAGGTCAAGT
1 ATCAGATCAAAATTCAAGTCAAGT
44461 ATCAGATCAAAATTCAAGTCAAGT
1 ATCAGATCAAAATTCAAGTCAAGT
* *
44485 ATCAGATCAAAATCCATGTC-AGAT
1 ATCAGATCAAAATTCAAGTCAAG-T
44509 ATCAGAT-AAGAATTCAA
1 ATCAGATCAA-AATTCAA
44526 ATCGAAAATC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.05
24 72 0.95
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (24 bp):
ATCAGATCAAAATTCAAGTCAAGT
Found at i:44494 original size:48 final size:48
Alignment explanation
Indices: 44413--44525 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
44403 TAAAAAAAAA
* * * *
44413 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCA-AGT
1 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCAGGTCAGA-T
*
44461 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCATGTCAGAT
1 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCAGGTCAGAT
44509 ATCAGAT-AAGAATTCAA
1 ATCAGATCAA-AATTCAA
44526 ATCGAAAATC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
47 2 0.03
48 55 0.95
49 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (48 bp):
ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCAGGTCAGAT
Found at i:44537 original size:48 final size:48
Alignment explanation
Indices: 44413--44544 Score: 128
Period size: 48 Copynumber: 2.8 Consensus size: 48
44403 TAAAAAAAAA
* * ** * *
44413 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAGT
1 ATCAGATCAAAATTCAAATCAAGAATCAGATCAAAATCCAGGTCAAGT
* * *
44461 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCATGTC-AGAT
1 ATCAGATCAAAATTCAAATCAAGAATCAGATCAAAATCCAGGTCAAG-T
44509 ATCAGAT-AAGAATTCAAATCGAA-AATCAGAT-AAAAT
1 ATCAGATCAA-AATTCAAATC-AAGAATCAGATCAAAAT
44545 TTTCATGTGA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 9 0.12
48 63 0.85
49 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (48 bp):
ATCAGATCAAAATTCAAATCAAGAATCAGATCAAAATCCAGGTCAAGT
Found at i:45191 original size:12 final size:12
Alignment explanation
Indices: 45174--45200 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45164 CGTTTCTGAA
45174 ATTCGTATACAT
1 ATTCGTATACAT
45186 ATTCGTATACAT
1 ATTCGTATACAT
45198 ATT
1 ATT
45201 TGTCGAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTCGTATACAT
Found at i:47003 original size:18 final size:18
Alignment explanation
Indices: 46982--47024 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
46972 GGTCAACGGG
*
46982 TCGGGTCAATGGGTCGGA
1 TCGGGTCAACGGGTCGGA
*
47000 TCGGGTCAACGGGTCGGG
1 TCGGGTCAACGGGTCGGA
47018 TCGGGTC
1 TCGGGTC
47025 GGGTTATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
TCGGGTCAACGGGTCGGA
Found at i:47019 original size:13 final size:13
Alignment explanation
Indices: 46967--46998 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46957 ACGGTAAAAA
46967 GGTCGGGTCAACG
1 GGTCGGGTCAACG
*
46980 GGTCGGGTCAATG
1 GGTCGGGTCAACG
46993 GGTCGG
1 GGTCGG
46999 ATCGGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.50, T:0.19
Consensus pattern (13 bp):
GGTCGGGTCAACG
Found at i:49211 original size:48 final size:48
Alignment explanation
Indices: 49135--49247 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 48
49125 ATATAAAAAA
* * *
49135 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAG-T
1 ATCAGATCAAAATTCAAGTCAAGTATCATATCAAAATCCAGGT-AAGAT
**
49183 ATCAGATCAAAATTCAAGTCAAGTATCATATGGAAATCCAGGTAAGAT
1 ATCAGATCAAAATTCAAGTCAAGTATCATATCAAAATCCAGGTAAGAT
*
49231 ATCAGATCAGAATTCAA
1 ATCAGATCAAAATTCAA
49248 ATCGAAAATC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 3 0.05
48 55 0.95
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (48 bp):
ATCAGATCAAAATTCAAGTCAAGTATCATATCAAAATCCAGGTAAGAT
Found at i:49219 original size:24 final size:24
Alignment explanation
Indices: 49135--49213 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
49125 ATATAAAAAA
* * *
49135 ATCAAATCATAATTCACGTCAAGT
1 ATCATATCAAAATTCAAGTCAAGT
* *
49159 ATCATATCAAAATCCAGGTCAAGT
1 ATCATATCAAAATTCAAGTCAAGT
*
49183 ATCAGATCAAAATTCAAGTCAAGT
1 ATCATATCAAAATTCAAGTCAAGT
49207 ATCATAT
1 ATCATAT
49214 GGAAATCCAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (24 bp):
ATCATATCAAAATTCAAGTCAAGT
Found at i:49233 original size:24 final size:24
Alignment explanation
Indices: 49152--49239 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
49142 CATAATTCAC
49152 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
* * *
49176 GTCAAGTATCAGATCAAAATTCAA
1 GTCAAGTATCATATCAAAATCCAG
**
49200 GTCAAGTATCATATGGAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
*
49224 GT-AAGATATCAGATCA
1 GTCAAG-TATCATATCA
49240 GAATTCAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 3 0.06
24 49 0.94
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAAAATCCAG
Found at i:52835 original size:21 final size:21
Alignment explanation
Indices: 52811--52853 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
52801 AATCTCTCTC
**
52811 TAAAGCTATGGCAAACAAGTT
1 TAAAGCTATAACAAACAAGTT
52832 TAAAGCTATAACAAACAAGTT
1 TAAAGCTATAACAAACAAGTT
52853 T
1 T
52854 TTCACAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (21 bp):
TAAAGCTATAACAAACAAGTT
Found at i:54444 original size:63 final size:63
Alignment explanation
Indices: 54369--54527 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 63
54359 TTTGTTGAAG
* * ** * * *
54369 GTGCATCGATGCATATGAAGTGCATCAATGTATTAATTTTAATACAAACATCGAATGTCTTCA
1 GTGCATCGATGCATAAGAAGTGCATCAATGCATTAATAATAAAACAAACATCGAATGCCCTCA
* * ** **
54432 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAAGAAGTGCATCAATGCATTAATAATAAAACAAACATCGAATGCCCTCA
*
54495 GTGCATCGATGCATCAAG-AGTGCATCGATGCAT
1 GTGCATCGATGCAT-AAGAAGTGCATCAATGCAT
54528 GCCTCCATTA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 79 0.96
64 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAAGAAGTGCATCAATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:56302 original size:151 final size:149
Alignment explanation
Indices: 55924--56389 Score: 844
Period size: 149 Copynumber: 3.1 Consensus size: 149
55914 GAGTCGAGGG
* * *
55924 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
55989 ACTTGATCCCTAGTATATATATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
56054 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
56073 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACATAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
56138 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
56203 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
56222 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACAC
1 TCTACGCGGTCCTTCGGG--ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACAC
56287 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
*
56352 TATATGGAACTACGGTGCAAT
129 TATATGGCACTACGGTGCAAT
56373 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
56390 TGCAATTATA
Statistics
Matches: 307, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
149 162 0.53
150 1 0.00
151 144 0.47
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:59591 original size:19 final size:18
Alignment explanation
Indices: 59567--59637 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
59557 GAATGTCGTC
59567 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAA-G
* *
59586 AGTGCATCGAATGCCCT--T
1 AGTGCATCG-ATG-CATAAG
59604 AGTGCATCGATGCATCAAG
1 AGTGCATCGATGCAT-AAG
*
59623 AGTACATCGATGCAT
1 AGTGCATCGATGCAT
59638 GCCTCCATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
16 2 0.05
17 3 0.07
18 9 0.21
19 23 0.55
20 3 0.07
21 2 0.05
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (18 bp):
AGTGCATCGATGCATAAG
Found at i:59594 original size:37 final size:37
Alignment explanation
Indices: 59552--59632 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
59542 TTTAATACAA
* *
59552 ACATCGAATGTCGTCAGTGCATCGATGCAT-AAGGAGT
1 ACATCGAATGCCCTCAGTGCATCGATGCATCAA-GAGT
* *
59589 GCATCGAATGCCCTTAGTGCATCGATGCATCAAGAGT
1 ACATCGAATGCCCTCAGTGCATCGATGCATCAAGAGT
59626 ACATCGA
1 ACATCGA
59633 TGCATGCCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (37 bp):
ACATCGAATGCCCTCAGTGCATCGATGCATCAAGAGT
Found at i:61216 original size:149 final size:149
Alignment explanation
Indices: 61035--61498 Score: 867
Period size: 149 Copynumber: 3.1 Consensus size: 149
61025 GAGTCGAGGG
* * * *
61035 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTATTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
61100 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
61165 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
61184 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
61249 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
61314 TATGGCACTACAGTGCAAT
131 TATGGCACTACGGTGCAAT
61333 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
61398 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
61463 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
61482 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
61499 TGCAATTATA
Statistics
Matches: 308, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
148 1 0.00
149 307 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:61499 original size:23 final size:23
Alignment explanation
Indices: 61466--61510 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
61456 ATTATTATAT
*
61466 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
61489 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
61511 AGCTCTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:67438 original size:31 final size:31
Alignment explanation
Indices: 67403--67516 Score: 165
Period size: 31 Copynumber: 3.7 Consensus size: 31
67393 TCCAAATGAC
*
67403 CAAAACTTAATAAAACGATAACGTAAGCGAT
1 CAAAACTTAATAAAACAATAACGTAAGCGAT
* ** *
67434 CAAAACTTAATAAAACAATAAAGTAAGTAAC
1 CAAAACTTAATAAAACAATAACGTAAGCGAT
* *
67465 CAAAACTTAATAAAACGATAACGTAAGCGTT
1 CAAAACTTAATAAAACAATAACGTAAGCGAT
67496 CAAAACTTAATAAAACAATAA
1 CAAAACTTAATAAAACAATAA
67517 AGTGACCAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.20
Consensus pattern (31 bp):
CAAAACTTAATAAAACAATAACGTAAGCGAT
Found at i:67471 original size:62 final size:62
Alignment explanation
Indices: 67401--67519 Score: 229
Period size: 62 Copynumber: 1.9 Consensus size: 62
67391 CGTCCAAATG
67401 ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGTAAGTA
1 ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGTAAGTA
*
67463 ACCAAAACTTAATAAAACGATAACGTAAGCGTTCAAAACTTAATAAAACAATAAAGT
1 ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGT
67520 GACCAAAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.20
Consensus pattern (62 bp):
ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGTAAGTA
Found at i:68775 original size:3 final size:3
Alignment explanation
Indices: 68752--68835 Score: 75
Period size: 3 Copynumber: 26.7 Consensus size: 3
68742 TTCATTTAAA
*
68752 TAT TA- TAT TA- TAT TGT TAT TAT TAT TAT TAT TAT ATAT ATAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TAT
68798 ATAT ATAT ATAT TAT TA- TAT ATAT TAT TAT TAT TAT TA
1 -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA
68836 AAAAATTTAC
Statistics
Matches: 74, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
2 6 0.08
3 42 0.57
4 26 0.35
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:68790 original size:2 final size:2
Alignment explanation
Indices: 68783--68821 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
68773 TTATTATTAT
68783 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
68822 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:69261 original size:14 final size:15
Alignment explanation
Indices: 69238--69271 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
69228 AGAAACCAGC
*
69238 AAAAATAGAGAA-AA
1 AAAAACAGAGAACAA
69252 AAAAACAGAGAACAA
1 AAAAACAGAGAACAA
69267 AAAAA
1 AAAAA
69272 AAAGAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAACAGAGAACAA
Found at i:74266 original size:15 final size:15
Alignment explanation
Indices: 74246--74277 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
74236 ATCAATACCT
74246 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
74261 TTTTGCATACATTCA
1 TTTTGCATACATGCA
74276 TT
1 TT
74278 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:81625 original size:7 final size:7
Alignment explanation
Indices: 81591--81673 Score: 86
Period size: 7 Copynumber: 12.4 Consensus size: 7
81581 ATTATGCTTG
81591 AAGAGAAA
1 AAGA-AAA
81599 AAGAAAA
1 AAGAAAA
*
81606 AA-AAGA
1 AAGAAAA
*
81612 GAG-AAA
1 AAGAAAA
81618 AAGAAAA
1 AAGAAAA
*
81625 AAGGAAA
1 AAGAAAA
81632 AAGAAAA
1 AAGAAAA
81639 AAGAAAA
1 AAGAAAA
81646 AAG-AAA
1 AAGAAAA
*
81652 AA-AAGA
1 AAGAAAA
81658 AA-AAAA
1 AAGAAAA
81664 AAGAAAA
1 AAGAAAA
81671 AAG
1 AAG
81674 GGGGGTCAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
6 22 0.35
7 37 0.59
8 4 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:82011 original size:16 final size:16
Alignment explanation
Indices: 81985--82029 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
81975 TTTGAATACA
*
81985 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
82002 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
82017 ATTCAATTTATTT
1 ATTCAATTTATTT
82030 TCGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:82948 original size:83 final size:83
Alignment explanation
Indices: 82809--83286 Score: 859
Period size: 83 Copynumber: 5.8 Consensus size: 83
82799 ACATTAGCTG
* *
82809 TGAAAGGTGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGT
1 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
82874 AAAACCAATCATTGAATT
66 AAAACCAATCATTGAATT
82892 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
1 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
82957 AAAACCAATCATT-AGATT
66 AAAACCAATCATTGA-ATT
*
82975 TGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
1 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
83040 AAAACCAATCATTGAATT
66 AAAACCAATCATTGAATT
83058 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
1 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
83123 AAAACCAATCATTGAATT
66 AAAACCAATCATTGAATT
83141 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
1 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
* *
83206 AAAACCAGTTATTGAATT
66 AAAACCAATCATTGAATT
* * * *
83224 TGGAAGAGGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
83287 ATATGAAACC
Statistics
Matches: 383, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
82 1 0.00
83 381 0.99
84 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
TGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
AAAACCAATCATTGAATT
Found at i:83841 original size:52 final size:52
Alignment explanation
Indices: 83779--83883 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
83769 TATCGATATC
83779 TGTGAAATCATCTTGAAAGATCACTTCATAATCAAATGAGTTGTTATCAGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAAATGAGTTGTTATCAGAA
*
83831 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAAATGAGTTGTTATCAGAA
83883 T
1 T
83884 TAACATGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (52 bp):
TGTGAAATCATCTTGAAAGATCACTTCATAATCAAATGAGTTGTTATCAGAA
Found at i:84419 original size:116 final size:112
Alignment explanation
Indices: 84181--84959 Score: 945
Period size: 113 Copynumber: 6.8 Consensus size: 112
84171 GCAAAGATTT
*
84181 AAATCCATCACTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAA
1 AAATCCATCACTTGATGGATCAGATTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
84246 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTTAACCTTTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * *
84294 GAATTCATCA-TGTGATGGATTAAAATTTTCCAGAGAAGTTCATAATAAGAAGAACTCATTACCT
1 AAATCCATCACT-TGATGGA-TCAGATTTTCCAGAGAAGTTCATAATGAGAAGAACTCA-T--CT
* **
84358 GAAGAAGGAAGAAGAAGTTCGTAATGAGAAGAGCTTGTTCAACCTTTTGCTC
61 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
84410 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGATTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
**
84475 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * *
84522 AAAACCATCACTCGATGGATCAAACTTTCCAGAGGAAGTTCGTAATGAGAAGAATTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGATTTTCCAGA-GAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
84587 AAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
84635 AAATTCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGATTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
84700 AAGGAAGAATG-AGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTT
65 AAGGAAGAA-GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * * *
84748 GAATTCATCATTTGATGGATTAAAATTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCATCT
1 AAATCCATCACTTGATGGATCAGATTTTCCAG--AGAAGTTCATAATGAGAAGAA--C-TCATCT
* * *
84812 GAAGAAAGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
61 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
84864 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCATCT
1 AAATCCATCACTTGATGGATCAGATTTTCCAG--AGAAGTTCATAATGAGAAGAA--C-TCATCT
* *
84928 GAAGGAGAAAGAAGAAGTTCATAATGAGAAGA
61 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
84960 GCTTATTCAA
Statistics
Matches: 580, Mismatches: 71, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
112 83 0.14
113 247 0.43
114 16 0.03
115 37 0.06
116 196 0.34
117 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
AAATCCATCACTTGATGGATCAGATTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:85216 original size:3 final size:3
Alignment explanation
Indices: 85198--85266 Score: 81
Period size: 3 Copynumber: 23.7 Consensus size: 3
85188 TTCATTTAAA
* * *
85198 TAT TA- TAT TGT TAT TAT TAT TAT TAT TAT TAT TA- TAT AAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
85244 TA- TAT ATAT TAT TAT TAT TAT TA
1 TAT TAT -TAT TAT TAT TAT TAT TA
85267 AAAAATTTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
2 6 0.11
3 47 0.84
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:85677 original size:14 final size:14
Alignment explanation
Indices: 85654--85701 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
85644 AGAAACCAAC
*
85654 AAAAATAGAGAAAA
1 AAAAACAGAGAAAA
85668 AAAAACAGAGAACAA
1 AAAAACAGAGAA-AA
*
85683 AAAAA-AAAGAAAA
1 AAAAACAGAGAAAA
*
85696 GAAAAC
1 AAAAAC
85702 CTCACAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 6 0.21
14 16 0.55
15 7 0.24
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAACAGAGAAAA
Found at i:85700 original size:16 final size:17
Alignment explanation
Indices: 85662--85700 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
85652 ACAAAAATAG
*
85662 AGAAAAAAAAACAGAGA
1 AGAAAAAAAAACAGAAA
*
85679 ACAAAAAAAAA-AGAAA
1 AGAAAAAAAAACAGAAA
85695 AGAAAA
1 AGAAAA
85701 CCTCACAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAACAGAAA
Found at i:99414 original size:183 final size:182
Alignment explanation
Indices: 98892--99451 Score: 804
Period size: 182 Copynumber: 3.1 Consensus size: 182
98882 GATACAAATG
* * * * *
98892 AAAAATATATCGCTCCATAGCAATATTACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACA
* *
98957 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATTGACACTTT
66 AAACCGGTAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * *
99022 CT-GAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTTTCGATACTTTAT
131 -TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATACTTTAA
* * *
99074 GAAAATGTATCGATTCATAACAATATAACAGTTAAAAATATGACAAAATCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACA
* * * *
99139 AAACAGGTAAATAA-CTACCGGAAATTTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
66 AAACCGGTAAA-AAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * *
99203 TTGGAATTTAAAAGAGAAGAAATTATAGCACCTATAAACTATCGATACTTTAA
130 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATACTTTAA
* *
99256 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAA-CATGTCTCAAAAATGA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATC-GGTCTC-AAAATGA
* *
99320 CAAAACCGGTAAAAAGATACTC-GATATGTTGAAAGTATCGATAATTTAATATAAGTATCGACAC
64 CAAAACCGGTAAAAAGCTAC-CGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
* *
99384 TTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
128 TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATACTTTAA
99439 AAAAATGTATCGA
1 AAAAATGTATCGA
99452 CACTTTTGGA
Statistics
Matches: 335, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
181 2 0.01
182 208 0.62
183 124 0.37
184 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACA
AAACCGGTAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATACTTTAA
Found at i:99460 original size:71 final size:71
Alignment explanation
Indices: 99351--99522 Score: 301
Period size: 71 Copynumber: 2.4 Consensus size: 71
99341 CGATATGTTG
* * * *
99351 AAAGTATCGATAATTTAATATAA-GTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
1 AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
99415 GCCTAT
66 GCCTAT
99421 AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
1 AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
99486 GCCTAT
66 GCCTAT
99492 AAAGTGTCGATACTTTAAAAAAATGTATCGA
1 AAAGTGTCGATACTTTAAAAAAATGTATCGA
99523 TCTATAACAA
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 19 0.20
71 78 0.80
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (71 bp):
AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
GCCTAT
Found at i:100071 original size:19 final size:19
Alignment explanation
Indices: 100045--100095 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
100035 TACTTTTATT
100045 TAATATTATAGGTAAAAAA
1 TAATATTATAGGTAAAAAA
* *
100064 TGATATTATAGGTAGAAAA
1 TAATATTATAGGTAAAAAA
*
100083 TAATATTTTAGGT
1 TAATATTATAGGT
100096 TGTATAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
TAATATTATAGGTAAAAAA
Found at i:102112 original size:18 final size:18
Alignment explanation
Indices: 102089--102127 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
102079 GAAAAAATTT
*
102089 GAAGAAGAGAAGATGAAG
1 GAAGAAGAAAAGATGAAG
*
102107 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGAAG
102125 GAA
1 GAA
102128 ATGGGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGAAG
Found at i:104058 original size:175 final size:176
Alignment explanation
Indices: 103766--104112 Score: 633
Period size: 175 Copynumber: 2.0 Consensus size: 176
103756 GCATTATTCC
*
103766 ATATTTAGGTAAGTTCAATAACTACAAAATGCCATTAACTTTAAAGTAATAGGTAAATTTACAAT
1 ATATTTAGGTAAGTTCAATAACTACAAAATGCCAATAACTTTAAAGTAATAGGTAAATTTACAAT
103831 GTAGGTGGTAAAAATAGAATATAATAATGACAAAATTAATAAACACAAAGATTTGATTCCAACAT
66 GTAGGTGGTAAAAATAGAATATAATAATGACAAAATTAATAAACACAAAGATTTGATTCCAACAT
103896 TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATACCGGT
131 TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATACCGGT
* *
103942 ATATTTAGGTATGTTCAATAACTACAAAATG-CAATAACTTTAAAGTAATAGTTAAATTTACAAT
1 ATATTTAGGTAAGTTCAATAACTACAAAATGCCAATAACTTTAAAGTAATAGGTAAATTTACAAT
*
104006 GTAGGTGGTAAAAATAGAATATAATAATGACAAAATTAATAAACAGAAAGATTTGATTCCAACAT
66 GTAGGTGGTAAAAATAGAATATAATAATGACAAAATTAATAAACACAAAGATTTGATTCCAACAT
* *
104071 TTTGTCCAAGTATGGTTCCCAAACTTAATAGGTAAAATATAC
131 TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATAC
104113 AGGTTTAATG
Statistics
Matches: 165, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
175 135 0.82
176 30 0.18
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (176 bp):
ATATTTAGGTAAGTTCAATAACTACAAAATGCCAATAACTTTAAAGTAATAGGTAAATTTACAAT
GTAGGTGGTAAAAATAGAATATAATAATGACAAAATTAATAAACACAAAGATTTGATTCCAACAT
TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATACCGGT
Found at i:104834 original size:199 final size:199
Alignment explanation
Indices: 104142--105234 Score: 1453
Period size: 199 Copynumber: 5.5 Consensus size: 199
104132 GTAAACTTAT
* *
104142 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCGTAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
104207 GGTAAATTAACAATGTAACCGGTCTAAGAGA-A--A-------A-AAAA-AGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAA-ATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGT
*
104260 ATCAACACAAATAAAACAAGTGTCGATACTTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTCGATAC-TTTTGGTCCAGAATGAATTTCTAAACCAAGTGCAC
*
104325 AAAAAA
194 GAAAAA
* * *
104331 GTGTCGAAACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAGTTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
104396 GGTAAATTAACAATATAACCAGTCT-AATATACCGGTTTTTGAGAAAACAGGTGTAC-AAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
104459 TCGACATAAATAAAACTGTCGATACTTTGGTTATGTCGATACTTTTGGTCCAGAATGAATTTCTA
131 TCGACACAAATAAAA----C-A-A-----G---TGTCGATACTTTTGGTCCAGAATGAATTTCTA
*
104524 AACCAAGTGCATGAAAAA
182 AACCAAGTGCACGAAAAA
* *
104542 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
104607 GGTAAATTAACAATGTAGCCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAGAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
* *
104672 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTGAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
104737 AAAA
196 AAAA
* * * *
104741 GTGTTGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
104806 GGTAAATTAACAATGTAACCGATCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
104871 TCGACACAAATAAAACAAGTGTCGATA-TTGTTGGTCCAAAATGAATTTCTAAACCAAGTGCACG
131 TCGACACAAATAAAACAAGTGTCGATACTT-TTGGTCCAGAATGAATTTCTAAACCAAGTGCACG
104935 AAAAA
195 AAAAA
* * *
104940 GTGTCGATACATTTATAATAAGTATCGATCCCAAAAATATCGAAACCCATAATTAGAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
105005 AGTAAATTAACAATGTAATCGGTCTAAATATACCAGTTTTTGAG-AAATAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
* * * *
105069 TCGATATAAATAAAACAAGTGTCGATACTTTTGGTCTAGAATGAATTTCTAAACCAAGTGCAGGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
105134 AAAA
196 AAAA
* * * * * *
105138 GTGTCGATACATTTATAACAAGTATCGATCCTAAGAACATCGGAACTCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * ** * *
105203 AGTCATTTTTCAATGTAATCGGTATAAATATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATA
105235 TCGGTTTAAT
Statistics
Matches: 807, Mismatches: 67, Indels: 51
0.87 0.07 0.06
Matches are distributed among these distances:
187 2 0.00
188 2 0.00
189 85 0.11
197 1 0.00
198 188 0.23
199 340 0.42
202 2 0.00
203 1 0.00
204 1 0.00
207 1 0.00
208 1 0.00
209 2 0.00
211 123 0.15
212 38 0.05
213 20 0.02
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
AAAA
Found at i:105276 original size:398 final size:400
Alignment explanation
Indices: 104142--105241 Score: 1498
Period size: 397 Copynumber: 2.8 Consensus size: 400
104132 GTAAACTTAT
*
104142 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCGTAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATCTAATA
*
104207 GGTAAATTAACAATGTAACCGGTCTAAGAGA-A--A-------A-AAAAAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAA-ATATACCAGTTTTTGAGAAAAAGGTGTACAAAAAGTA
*
104261 TCAACACAAATAAAACAAGTGTCGATACTTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACA
130 TCGACACAAATAAAACAAGTGTCGATAC-TTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACA
* * * *
104326 AAAAAGTGTCGAAACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAGTTATAATC
194 AAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATG
* *
104391 TAATAGGTAAATTAACAATATAACCAGTCT-AATATACCGGTTTTTGAGAAAACAGGTGTACAAA
259 TAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGG-GTACAAA
* *
104455 AGTATCGACATAAATAAAACTGTCGATACTTTGGTTATGTCGATACTTTTGGTCCAGAATGAATT
323 AGTATCGACACAAATAAAA---TCGATA---T-G-T-TGTCGATACTTTTGGTCCAAAATGAATT
*
104520 TCTAAACCAAGTGCATGAAAAA
379 TCTAAACCAAGTGCACGAAAAA
*
104542 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATCTAATA
* * *
104607 GGTAAATTAACAATGTAGCCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAGAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAA-AGGTGTACAAAAAGTA
* *
104672 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTGAACCAAGTGCACTA
130 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACAA
* * *
104737 AAAAGTGTTGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGT
195 AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGT
* *
104802 AATAGGTAAATTAACAATGTAACCGATCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAA
260 AATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACA-GGGTAC-AAA
104867 AGTATCGACACAAATAAAA-C-A-A-G-TGTCGATA-TTGTTGGTCCAAAATGAATTTCTAAACC
323 AGTATCGACACAAATAAAATCGATATGTTGTCGATACTT-TTGGTCCAAAATGAATTTCTAAACC
104926 AAGTGCACGAAAAA
387 AAGTGCACGAAAAA
* * * *
104940 GTGTCGATACATTTATAATAAGTATCGATCCCAAAAATATCGAAACCCATAATTAGAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATCTAATA
* * *
105005 AGTAAATTAACAATGTAATCGGTCTAAATATACCAGTTTTTGAGAAATAGGTGTACAAAAAGTAT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAAAGGTGTACAAAAAGTAT
* * * **
105070 CGATATAAATAAAACAAGTGTCGATACTTTTGGTCTAGAATGAATTTCTAAACCAAGTGCAGGAA
131 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACAAA
* * * * *
105135 AAAGTGTCGATACATTTATAACAAGTATCGATCCTAAGAACATCGGAACTCAAAATTTTAATGTA
196 AAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTA
* * * ** * * *
105200 ATAAGTCATTTTTCAATGTAATCGGTATAAATATATCGGTTT
261 ATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
105242 AATTTGAAAA
Statistics
Matches: 627, Mismatches: 57, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
397 166 0.26
398 149 0.24
399 2 0.00
400 90 0.14
401 1 0.00
402 1 0.00
406 1 0.00
407 1 0.00
408 1 0.00
409 1 0.00
410 123 0.20
411 69 0.11
412 22 0.04
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (400 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATCTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAAAGGTGTACAAAAAGTAT
CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACAAA
AAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTA
ATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGGTACAAAAGT
ATCGACACAAATAAAATCGATATGTTGTCGATACTTTTGGTCCAAAATGAATTTCTAAACCAAGT
GCACGAAAAA
Found at i:105611 original size:15 final size:15
Alignment explanation
Indices: 105591--105648 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
105581 TTTCTCAAAG
105591 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
105606 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
105621 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
105638 CTCCTTCTCAA
1 CT-CTTCTCAA
105649 ACAATCGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 24 0.67
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.22, C:0.50, G:0.02, T:0.26
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:108935 original size:200 final size:199
Alignment explanation
Indices: 108304--108963 Score: 1081
Period size: 199 Copynumber: 3.3 Consensus size: 199
108294 TCATTTATAA
* *
108304 CAAGTGCACGACAAAGTGTCGATACATTTATAACAAGTGTTGATACTAAAAACATCGAAACACAT
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
*
108369 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCTGTTTATGAGAAAACA
66 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCAGTTTATGAGAAAACA
108434 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGATAT-ATTTTC
131 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGA-ATGATTTTC
108498 CAAAC
195 CAAAC
* *
108503 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCAATACTAAAAGCATCGAAACACAT
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
*
108568 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
66 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCAGTTTATGAGAAAACA
* * *
108633 TGTATACATAAAGTATCGACACAACTACAACAAGGGTCGATACGTTTTGTCCAGAATGTATTTTC
131 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATG-ATTTTC
108698 CAAAC
195 CAAAC
* *
108703 CAAGCGCACGAAAAAGTATCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
108768 AGATAT-ATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCAGTTTATGAGAAAACA
66 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCAGTTTATGAGAAAACA
* *
108832 AGTATACATAAAGTATAGACACAACTACAACAAGTGTCAATACTTTTTGTCCAGAATGGATTTTC
131 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAAT-GATTTTC
108897 CAAAC
195 CAAAC
* * * * * * * *
108902 CAATTGCACAAAAAAGTGTCAATATATTTTATAACATGTGTCGATCCCAAATACATCGAAAC
1 CAAGTGCACGAAAAAGTGTCGATACA-TTTATAACAAGTGTCGATACTAAAAACATCGAAAC
108964 CTATAATTCC
Statistics
Matches: 429, Mismatches: 28, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
198 2 0.00
199 317 0.74
200 110 0.26
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (199 bp):
CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCAGTTTATGAGAAAACA
AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATGATTTTCC
AAAC
Found at i:109560 original size:201 final size:201
Alignment explanation
Indices: 108968--109536 Score: 937
Period size: 200 Copynumber: 2.8 Consensus size: 201
108958 CGAAACCTAT
* *
108968 AATTCCCAAACTATGTGCACGCACAAAGTGTTGATACATTTATTAAAAGTATCGACCCCAAATTC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATTC
** *
109033 ATCGAGACCCGAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
66 ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACTGGTTTAAATTTACCGGTT
109098 TTATGAGAAAATCGATCAACATAATGTATCGACACTTTATTTATTTGTGTCGATAC-TTTTATCC
131 TTATGAGAAAATCGATCAACATAATGTATCGACACTTTATTTATTTGTGTCGATACTTTTTATCC
109162 ATAATG
196 ATAATG
* *
109168 AATTCTCAAACTATGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATAC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATTC
*
109233 ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAA-TCGGTTTAAATTTACCGAT
66 ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACT-GGTTTAAATTTACCGGT
* * *
109297 TTTATGAGAAAATAGGTCTAA-ATAATGTATCGACACTTTATTTATTTGTGTCTATACTTTTTAT
130 TTTATGAGAAAATCGATC-AACATAATGTATCGACACTTTATTTATTTGTGTCGATACTTTTTAT
*
109361 TCATAATG
194 CCATAATG
* * * *
109369 AATTCCCAAACTATGTGCATGCATAAAGTGTCAATACATTTATAAAAAGTGTCGACCCCAAATTC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATTC
109434 ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACTGGTTTAAATTTACCGGTT
66 ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACTGGTTTAAATTTACCGGTT
* *
109499 TTATGAGAAAACCGATCAACATAATGTATCGATACTTT
131 TTATGAGAAAATCGATCAACATAATGTATCGACACTTT
109537 TTAAATTCAT
Statistics
Matches: 341, Mismatches: 23, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
200 173 0.51
201 167 0.49
202 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (201 bp):
AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATTC
ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACTGGTTTAAATTTACCGGTT
TTATGAGAAAATCGATCAACATAATGTATCGACACTTTATTTATTTGTGTCGATACTTTTTATCC
ATAATG
Found at i:112366 original size:19 final size:18
Alignment explanation
Indices: 112342--112384 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
112332 AGAAACTAAA
*
112342 ATATAATGAAATAATTAAT
1 ATATAATAAAATAA-TAAT
112361 ATATAAATAAAATAATAAT
1 ATAT-AATAAAATAATAAT
112380 ATATA
1 ATATA
112385 TATATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
ATATAATAAAATAATAAT
Found at i:112377 original size:23 final size:26
Alignment explanation
Indices: 112351--112397 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
112341 AATATAATGA
112351 AATAAT-TA-ATATATA-AATAAAAT
1 AATAATATATATATATATAATAAAAT
112374 AATAATATATATATATATAATAAA
1 AATAATATATATATATATAATAAA
112398 TGTATGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 2 0.10
25 7 0.33
26 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AATAATATATATATATATAATAAAAT
Found at i:112577 original size:17 final size:18
Alignment explanation
Indices: 112545--112582 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
112535 AACGTTAGGA
112545 AAATATAGTAAAATAG-T
1 AAATATAGTAAAATAGAT
112562 AAATA-AGTAAACATAGAT
1 AAATATAGTAAA-ATAGAT
112580 AAA
1 AAA
112583 AATAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (18 bp):
AAATATAGTAAAATAGAT
Found at i:112646 original size:31 final size:31
Alignment explanation
Indices: 112581--112658 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 31
112571 AACATAGATA
* *
112581 AAAATAATATAATATATA-TATATATAATAGG
1 AAAATAATATAATATA-ACTAAATATAAAAGG
*
112612 AAAATAATATAATATAACTCAAATA-AAAATG
1 AAAATAATATAATATAACT-AAATATAAAAGG
*
112643 AAAA-AA-AAAATATAAC
1 AAAATAATATAATATAAC
112659 AAACAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 9 0.22
30 3 0.07
31 25 0.61
32 4 0.10
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (31 bp):
AAAATAATATAATATAACTAAATATAAAAGG
Found at i:113196 original size:37 final size:37
Alignment explanation
Indices: 113103--113204 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
113093 ATGCTTGTGG
* * ** * *
113103 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
113140 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
113177 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
113205 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Done.