Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 16 of 17
Found at i:1642670 original size:11 final size:11
Alignment explanation
Indices: 1642650--1642683 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1642640 TTTTGACATG
1642650 TTTA-TATATT
1 TTTATTATATT
1642660 TTTATTATATT
1 TTTATTATATT
*
1642671 TGTATTATATT
1 TTTATTATATT
1642682 TT
1 TT
1642684 ATGGTACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTATTATATT
Found at i:1643302 original size:40 final size:39
Alignment explanation
Indices: 1643209--1643302 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 39
1643199 TTGACCTTTT
* *
1643209 ATAATAATATATATTTATTGCATCCTTAATCATACAAAAT
1 ATAATAA-ATATATTTATTCCATCCTTAATCATACAAAAA
*
1643249 ATAAT--ATATATTTATTCCATCCTTAA-CAATATAAAAA
1 ATAATAAATATATTTATTCCATCCTTAATC-ATACAAAAA
1643286 ATAAATAAATATATTTA
1 AT-AATAAATATATTTA
1643303 ATAATTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
36 1 0.02
37 29 0.62
38 3 0.06
40 14 0.30
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (39 bp):
ATAATAAATATATTTATTCCATCCTTAATCATACAAAAA
Found at i:1643691 original size:21 final size:19
Alignment explanation
Indices: 1643651--1643695 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
1643641 ATATTTATAT
*
1643651 TAAATTTTAATTAGATTTA
1 TAAATTTTAATTAAATTTA
1643670 TAAATTTTAAATTTAAATTTA
1 TAAATTTT-AA-TTAAATTTA
1643691 TAAAT
1 TAAAT
1643696 AAAACTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAAATTTTAATTAAATTTA
Found at i:1643901 original size:22 final size:21
Alignment explanation
Indices: 1643872--1643936 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 21
1643862 AATTAAATTT
1643872 AAAT-TATTATTTAATAAATAA
1 AAATATATTATTTAATAAAT-A
*
1643893 AAATATATTAAAATTTAAAAAATA
1 AAATATATT---ATTTAATAAATA
*
1643917 AAATATATAATATTAATAAA
1 AAATATATTAT-TTAATAAA
1643937 AAATTTTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 6 0.17
22 11 0.31
24 9 0.25
25 10 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATATTATTTAATAAATA
Found at i:1643902 original size:25 final size:26
Alignment explanation
Indices: 1643874--1643940 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
1643864 TTAAATTTAA
*
1643874 ATTATTATTTAATAAATAAAA-ATAT
1 ATTATTATTTAAAAAATAAAATATAT
**
1643899 ATTAAAATTTAAAAAATAAAATATAT
1 ATTATTATTTAAAAAATAAAATATAT
* *
1643925 AATATTA-ATAAAAAAT
1 ATTATTATTTAAAAAAT
1643941 TTTGATTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 26 0.76
26 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTATTATTTAAAAAATAAAATATAT
Found at i:1643937 original size:24 final size:24
Alignment explanation
Indices: 1643882--1643939 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
1643872 AAATTATTAT
*
1643882 TTAATAAATAAAAATATATTAAAA
1 TTAATAAAAAAAAATATATTAAAA
* *
1643906 TTTAA-AAAATAAAATATA-TAATA
1 -TTAATAAAAAAAAATATATTAAAA
1643929 TTAATAAAAAA
1 TTAATAAAAAA
1643940 TTTTGATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 4 0.14
23 9 0.32
24 11 0.39
25 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TTAATAAAAAAAAATATATTAAAA
Found at i:1644807 original size:20 final size:21
Alignment explanation
Indices: 1644771--1644813 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1644761 GATAATTAAA
*
1644771 AAAAAAATTTTGATT-AAATT
1 AAAAAAATTATGATTAAAATT
1644791 AAAAAAATTAATG-TTAAAATT
1 AAAAAAATT-ATGATTAAAATT
1644812 AA
1 AA
1644814 CTTATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAAAATTATGATTAAAATT
Found at i:1644925 original size:67 final size:64
Alignment explanation
Indices: 1644783--1644934 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 64
1644773 AAAAATTTTG
* * *
1644783 ATTAAATTAAAAAAA-TTAATGTTAAAATTAACTTATTAATTATTAATTTTTAATAAAATAAAA
1 ATTAAATTAAAAAAATTTAATGTAAAAATCAAATTATTAATTATTAATTTTTAATAAAATAAAA
* *
1644846 ATAAAATTTTAAAAAAATTGTATTG-AAAAATCAAATTATTAATTATTAATTTTTTAAT-AAATA
1 ATTAAA--TTAAAAAAATT-TAATGTAAAAATCAAATTATTAATTATTAA-TTTTTAATAAAAT-
1644909 AAAA
61 AAAA
1644913 ATTTTAAATTAAAAAAATTTAA
1 A--TTAAATTAAAAAAATTTAA
1644935 AAATAAGAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
63 5 0.07
65 9 0.12
66 28 0.38
67 28 0.38
69 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (64 bp):
ATTAAATTAAAAAAATTTAATGTAAAAATCAAATTATTAATTATTAATTTTTAATAAAATAAAA
Found at i:1648492 original size:20 final size:20
Alignment explanation
Indices: 1648467--1648543 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
1648457 GTAAAAAGAC
1648467 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
1648487 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
1648507 TA-TATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1648527 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1648544 CTGGGTACTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1649713 original size:32 final size:32
Alignment explanation
Indices: 1649677--1649760 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
1649667 TTTCAACGAT
* *
1649677 TTGTATCGATATAATTTATCAATACATAAGTG
1 TTGTATCGATACAATGTATCAATACATAAGTG
* *
1649709 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCAATACATAAGTG
* *
1649741 TTGCATCAATACAATGTATC
1 TTGTATCGATACAATGTATC
1649761 GCTACGAAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCAATACATAAGTG
Found at i:1649728 original size:13 final size:13
Alignment explanation
Indices: 1649710--1649734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1649700 ACATAAGTGT
1649710 TGTATCGATACAA
1 TGTATCGATACAA
1649723 TGTATCGATACA
1 TGTATCGATACA
1649735 TAAGTTTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1649807 original size:21 final size:21
Alignment explanation
Indices: 1649781--1649861 Score: 153
Period size: 21 Copynumber: 3.9 Consensus size: 21
1649771 TACTACCAAG
1649781 AAAATGTATCGATACATTACT
1 AAAATGTATCGATACATTACT
1649802 AAAATGTATCGATACATTACT
1 AAAATGTATCGATACATTACT
1649823 AAAATGTATCGATACATTACT
1 AAAATGTATCGATACATTACT
*
1649844 TAAATGTATCGATACATT
1 AAAATGTATCGATACATT
1649862 GTATCGATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAATGTATCGATACATTACT
Found at i:1649937 original size:52 final size:52
Alignment explanation
Indices: 1649881--1650010 Score: 233
Period size: 52 Copynumber: 2.5 Consensus size: 52
1649871 TACTGATCTT
1649881 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
1649933 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
1649985 TGTATCGATACATGCAGGCAAAATTT
1 TGTATCGATACATGCAGG-AAAATTT
1650011 CATATTTCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 67 0.92
53 6 0.08
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1653768 original size:40 final size:40
Alignment explanation
Indices: 1653724--1653815 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
1653714 CCGAAACCAG
*
1653724 CAGCTCCAACAAGCAGTAGCTTCCACGGCAGCAACGACAA
1 CAGCTCCAACAAGCAGCAGCTTCCACGGCAGCAACGACAA
* *
1653764 CAGCTCCAACAAGCAGCAGCTTCCATGGCAGCAACGACAG
1 CAGCTCCAACAAGCAGCAGCTTCCACGGCAGCAACGACAA
1653804 CAGCTCCAACAA
1 CAGCTCCAACAA
1653816 ACACGAACAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.35, C:0.36, G:0.20, T:0.10
Consensus pattern (40 bp):
CAGCTCCAACAAGCAGCAGCTTCCACGGCAGCAACGACAA
Found at i:1657220 original size:20 final size:20
Alignment explanation
Indices: 1657184--1657232 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1657174 TATACATTAA
*
1657184 ATAAAAAAATATTATGTTAT
1 ATAAAAAAATATCATGTTAT
1657204 ATAAGAAAAATA-CATGTTA-
1 ATAA-AAAAATATCATGTTAT
1657223 ATGAAAAAAA
1 AT-AAAAAAA
1657233 AAAGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 12 0.46
21 7 0.27
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (20 bp):
ATAAAAAAATATCATGTTAT
Found at i:1657756 original size:16 final size:16
Alignment explanation
Indices: 1657730--1657768 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1657720 TTTAATTTTA
*
1657730 AAATATAAATAATTATT
1 AAAT-TAAATAAATATT
*
1657747 ATATTAAATAAATATT
1 AAATTAAATAAATATT
1657763 AAATTA
1 AAATTA
1657769 TCAATAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAAATAAATATT
Found at i:1658615 original size:22 final size:21
Alignment explanation
Indices: 1658580--1658652 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
1658570 AAAATGTGTC
* *
1658580 AATTATTTTTAATATTAATAT
1 AATTAATTTAAATATTAATAT
1658601 AATTAATTTACAATATATAATAT
1 AATTAATTTA-AATAT-TAATAT
*
1658624 -TTTAATATTAAATATTCAA-A-
1 AATTAAT-TTAAATATT-AATAT
1658644 AATTAATTT
1 AATTAATTT
1658653 TATATAACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.35
22 17 0.40
23 9 0.21
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAATTTAAATATTAATAT
Found at i:1659569 original size:28 final size:29
Alignment explanation
Indices: 1659533--1659609 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 29
1659523 ATATGATATG
*
1659533 AACATAAT-ATCAAAAAAATAATTAAAAT
1 AACAAAATAATCAAAAAAATAATTAAAAT
* * *
1659561 AACAAAATAAACATAAAAA-AATTTAAAT
1 AACAAAATAATCAAAAAAATAATTAAAAT
* *
1659589 AA-AATATAATAAAAAAAATAA
1 AACAAAATAATCAAAAAAATAA
1659610 CACTAATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 12 0.31
28 19 0.49
29 8 0.21
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (29 bp):
AACAAAATAATCAAAAAAATAATTAAAAT
Found at i:1660888 original size:28 final size:28
Alignment explanation
Indices: 1660823--1660882 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
1660813 AATTTTAAAA
1660823 AAATAAATTTATATATTTATATTATATTT
1 AAAT-AATTTATATATTTATATTATATTT
*
1660852 ATATAATTTAT-TATTTTATATTATATTT
1 AAATAATTTATATA-TTTATATTATATTT
1660880 AAA
1 AAA
1660883 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 23 0.82
29 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
AAATAATTTATATATTTATATTATATTT
Found at i:1661046 original size:96 final size:98
Alignment explanation
Indices: 1660928--1661132 Score: 256
Period size: 96 Copynumber: 2.1 Consensus size: 98
1660918 TACATTTTAA
*
1660928 CAATTTTATTTTTTTATAATTAATATTATTAAGATTTGATCATTG-TTAATAAACTTAAAAGTTT
1 CAATTTTATTTTTTTATAATTAATATTATTAAGATTTGATCA-TGATTAATAAACTTAAAAATTT
1660992 AATACTCTAT-AATCATAT-TAAATTGTATTTATT
65 AATACTCTATCAA-CATATATAAATTGTATTTATT
** * * * *
1661025 -AATTTTATTTTTTTATAATTAATATTATTGGGGTTTGATTATGATTATTAAATTTAAAAATTTA
1 CAATTTTATTTTTTTATAATTAATATTATTAAGATTTGATCATGATTAATAAACTTAAAAATTTA
* * *
1661089 ATATTCTATCAACGTATCATAAATTTTATTTATT
66 ATACTCTATCAACATAT-ATAAATTGTATTTATT
1661123 CAATATTTAT
1 CAAT-TTTAT
1661133 GTTTAACATA
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
95 2 0.02
96 66 0.72
97 2 0.02
98 14 0.15
99 3 0.03
100 5 0.05
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (98 bp):
CAATTTTATTTTTTTATAATTAATATTATTAAGATTTGATCATGATTAATAAACTTAAAAATTTA
ATACTCTATCAACATATATAAATTGTATTTATT
Found at i:1662288 original size:21 final size:21
Alignment explanation
Indices: 1662264--1662305 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1662254 GAATATTTTT
*
1662264 TATTTTATTTATTTTA-AAATA
1 TATTTT-TATATTTTATAAATA
1662285 TATTTTTATATTTTATAAATA
1 TATTTTTATATTTTATAAATA
1662306 ATTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTATATTTTATAAATA
Found at i:1662313 original size:30 final size:28
Alignment explanation
Indices: 1662256--1662313 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
1662246 GGATATGTGA
** *
1662256 ATATTTTTTATTTTATTTATTTTAAAAT
1 ATATTTTTTATTTTATAAATATTAAAAT
1662284 ATATTTTTATATTTTATAAATAATTAAAAT
1 ATATTTTT-TATTTTATAAAT-ATTAAAAT
1662314 TAATAAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATATTTTTTATTTTATAAATATTAAAAT
Found at i:1663513 original size:21 final size:20
Alignment explanation
Indices: 1663464--1663516 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
1663454 TTGTGTTTAA
*
1663464 AATT-TTTAAAGATAATTTT
1 AATTATTTAAAAATAATTTT
1663483 -ATATATTTTAAAAATAATTATT
1 AAT-TA-TTTAAAAATAATT-TT
1663505 AATTATTTAAAA
1 AATTATTTAAAA
1663517 TTCTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
21 19 0.68
22 4 0.14
23 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTATTTAAAAATAATTTT
Found at i:1663839 original size:14 final size:14
Alignment explanation
Indices: 1663803--1663847 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1663793 ATTTTTTTTC
*
1663803 AAATAATTTTTGAT
1 AAATAATTTTTGAA
* * *
1663817 AATTGATTTTTTAA
1 AAATAATTTTTGAA
1663831 AAATAATTTTTGAA
1 AAATAATTTTTGAA
1663845 AAA
1 AAA
1663848 AAAATATATT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
AAATAATTTTTGAA
Found at i:1663850 original size:18 final size:20
Alignment explanation
Indices: 1663829--1663869 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1663819 TTGATTTTTT
1663829 AAAAATA-ATTT-TTGAAAA
1 AAAAATATATTTATTGAAAA
*
1663847 AAAAATATATTTATTTAAAA
1 AAAAATATATTTATTGAAAA
1663867 AAA
1 AAA
1663870 CTAGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATATATTTATTGAAAA
Found at i:1669179 original size:26 final size:25
Alignment explanation
Indices: 1669121--1669179 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
1669111 ATATAAATAA
1669121 TTTAATATATTTTTTAATATTTACAT
1 TTTAA-ATATTTTTTAATATTTACAT
* **
1669147 TAT-AATATTTTTTATATATTTATTT
1 TTTAAATATTTTTTA-ATATTTACAT
1669172 TTTAAATA
1 TTTAAATA
1669180 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 10 0.37
25 11 0.41
26 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTAAATATTTTTTAATATTTACAT
Found at i:1669223 original size:25 final size:25
Alignment explanation
Indices: 1669180--1669237 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
1669170 TTTTTAAATA
1669180 ATAAAAAT--TATATAATATATAAT
1 ATAAAAATAATATATAATATATAAT
*
1669203 ATAAAAATAATATATATTATATAAT
1 ATAAAAATAATATATAATATATAAT
1669228 -TACAAAATAA
1 ATA-AAAATAA
1669238 GCTGAATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 8 0.26
24 2 0.06
25 21 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAAAATAATATATAATATATAAT
Found at i:1670365 original size:17 final size:19
Alignment explanation
Indices: 1670333--1670371 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1670323 TTATTAATAA
*
1670333 ATTAAATAATATTATTT-T
1 ATTAAATAAAATTATTTAT
1670351 ATTAAA-AAAATTATTTAT
1 ATTAAATAAAATTATTTAT
1670369 ATT
1 ATT
1670372 TTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAAATAAAATTATTTAT
Found at i:1670390 original size:21 final size:23
Alignment explanation
Indices: 1670336--1670390 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
1670326 TTAATAAATT
* *
1670336 AAATAATAT-TATTTTATTAAAA
1 AAATTATATATATTTTATAAAAA
*
1670358 AAATTATTTATATTTT-TAAAAA
1 AAATTATATATATTTTATAAAAA
1670380 AAATT-TATATA
1 AAATTATATATA
1670391 AAATGATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATTATATATATTTTATAAAAA
Found at i:1670795 original size:20 final size:21
Alignment explanation
Indices: 1670770--1670811 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1670760 TATAATTCGA
*
1670770 TTATTTTA-ATTTTTTATTTT
1 TTATTTCATATTTTTTATTTT
*
1670790 TTATTTCATTTTTTTTATTTT
1 TTATTTCATATTTTTTATTTT
1670811 T
1 T
1670812 ATCAAACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (21 bp):
TTATTTCATATTTTTTATTTT
Found at i:1672144 original size:13 final size:13
Alignment explanation
Indices: 1672124--1672161 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1672114 AATAATGTGT
*
1672124 ATTTAATTGTTGAA
1 ATTTAATT-TTAAA
1672138 A-TTAATTTTAAA
1 ATTTAATTTTAAA
1672150 ATTTAATTTTAA
1 ATTTAATTTTAA
1672162 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (13 bp):
ATTTAATTTTAAA
Found at i:1672161 original size:19 final size:19
Alignment explanation
Indices: 1672139--1672178 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1672129 ATTGTTGAAA
1672139 TTAATTTTAAAATTTAATT
1 TTAATTTTAAAATTTAATT
* *
1672158 TTAATTTTAAATTTTTATT
1 TTAATTTTAAAATTTAATT
1672177 TT
1 TT
1672179 CAAAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATTTTAAAATTTAATT
Found at i:1673756 original size:15 final size:14
Alignment explanation
Indices: 1673738--1673768 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1673728 AAATTTTTTA
1673738 TAAATTTAAATCTAT
1 TAAATTTAAAT-TAT
1673753 TAAATTTAAATTAT
1 TAAATTTAAATTAT
1673767 TA
1 TA
1673769 TTTAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATTTAAATTAT
Found at i:1673932 original size:21 final size:22
Alignment explanation
Indices: 1673893--1673935 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1673883 AAGGGTGTAA
1673893 TAAAAATTAAAATATAAATTTT
1 TAAAAATTAAAATATAAATTTT
1673915 TAAAAATTAAAATA-AAATTTT
1 TAAAAATTAAAATATAAATTTT
1673936 ATTATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATTAAAATATAAATTTT
Found at i:1674317 original size:14 final size:14
Alignment explanation
Indices: 1674294--1674349 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
1674284 TTTAATGAAT
*
1674294 ATAAAAATAATATA
1 ATAAATATAATATA
*
1674308 ATAAATATAAAATA
1 ATAAATATAATATA
* *
1674322 ATATATTTAATATA
1 ATAAATATAATATA
* *
1674336 ATTAACATAATATA
1 ATAAATATAATATA
1674350 TTTGATTTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAATATAATATA
Found at i:1674321 original size:19 final size:19
Alignment explanation
Indices: 1674286--1674336 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1674276 TAAATAAATT
*
1674286 TAATGAATATAAAAATAATA
1 TAATAAATAT-AAAATAATA
1674306 TAATAAATATAAAATAATA
1 TAATAAATATAAAATAATA
* *
1674325 TATTTAATATAA
1 TAATAAATATAA
1674337 TTAACATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAATAAATATAAAATAATA
Found at i:1674345 original size:23 final size:23
Alignment explanation
Indices: 1674278--1674352 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
1674268 AAAATACATA
* *
1674278 AATAAATTTAATGAATAT-AAA-
1 AATATATTTAATAAATATAAAAT
*
1674299 AATA-ATATAATAAATATAAAAT
1 AATATATTTAATAAATATAAAAT
*
1674321 AATATATTTAATATAAT-TAACAT
1 AATATATTTAATA-AATATAAAAT
1674344 AATATATTT
1 AATATATTT
1674353 GATTTTAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.24
21 7 0.15
22 4 0.09
23 21 0.46
24 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (23 bp):
AATATATTTAATAAATATAAAAT
Found at i:1674374 original size:24 final size:21
Alignment explanation
Indices: 1674347--1674431 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 21
1674337 TTAACATAAT
*
1674347 ATATTTGATTTTAATATATATTTA
1 ATATTT-ATTTTAA-AAAT-TTTA
1674371 ATATTTATTTTAAAAATTTTA
1 ATATTTATTTTAAAAATTTTA
*
1674392 ATA--TA-TTTAATAATTTTA
1 ATATTTATTTTAAAAATTTTA
1674410 TTATATTTATATTTATAAAATT
1 --ATATTTAT-TTTA-AAAATT
1674432 AATAAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
18 12 0.24
19 2 0.04
20 3 0.06
21 7 0.14
22 5 0.10
23 7 0.14
24 10 0.20
25 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
ATATTTATTTTAAAAATTTTA
Found at i:1674397 original size:23 final size:25
Alignment explanation
Indices: 1674343--1674400 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
1674333 ATAATTAACA
*
1674343 TAATATATTTGATTTTAATATATATT
1 TAATATATTT-ATTTTAATAAATATT
1674369 T-A-ATATTTATTTTAA-AAAT-TT
1 TAATATATTTATTTTAATAAATATT
1674390 TAATATATTTA
1 TAATATATTTA
1674401 ATAATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.10
22 4 0.14
23 14 0.48
24 6 0.21
25 1 0.03
26 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TAATATATTTATTTTAATAAATATT
Found at i:1675958 original size:30 final size:27
Alignment explanation
Indices: 1675922--1675981 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
1675912 ATTAAACATA
*
1675922 TTTTAAATTAAATAAAATTATAAAAATAAT
1 TTTTAAATT--ATAAAAATAT-AAAATAAT
*
1675952 TTTTAAATTATAAAAATATTAAATAAT
1 TTTTAAATTATAAAAATATAAAATAAT
1675979 TTT
1 TTT
1675982 CACTAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 9 0.32
30 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TTTTAAATTATAAAAATATAAAATAAT
Found at i:1676039 original size:23 final size:24
Alignment explanation
Indices: 1676019--1676066 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
1676009 CCCTTATATG
1676019 TAATATAAT-ATTATTATTATAAA
1 TAATATAATAATTATTATTATAAA
* *
1676042 TAATATATTAATTATTCTTA-AAA
1 TAATATAATAATTATTATTATAAA
1676065 TA
1 TA
1676067 TATCTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATATAATAATTATTATTATAAA
Found at i:1677539 original size:4 final size:4
Alignment explanation
Indices: 1677530--1677557 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1677520 TAATTTGGGA
1677530 CAGC CAGC CAGC CAGC CAGC CAGC CAGC
1 CAGC CAGC CAGC CAGC CAGC CAGC CAGC
1677558 AGCATTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.25, T:0.00
Consensus pattern (4 bp):
CAGC
Found at i:1677686 original size:18 final size:18
Alignment explanation
Indices: 1677623--1677698 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
1677613 CTCTTGTTAA
1677623 AATTTTAATATAAAAAATAT
1 AATTTT-ATATAAAAAAT-T
* ***
1677643 AATTCTTATATTAATTTTT
1 AATT-TTATATAAAAAATT
1677662 AAATTTTATA-AAAATAATT
1 -AATTTTATATAAAA-AATT
1677681 AATTTTATATAAAAAATT
1 AATTTTATATAAAAAATT
1677699 TTTCAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
18 15 0.34
19 12 0.27
20 15 0.34
21 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTATATAAAAAATT
Found at i:1678150 original size:14 final size:13
Alignment explanation
Indices: 1678107--1678195 Score: 58
Period size: 14 Copynumber: 6.5 Consensus size: 13
1678097 TGATACGATT
*
1678107 ATATAATAAAATATG
1 ATATAA-AAAAT-TA
1678122 ATAT-AAAAA-TA
1 ATATAAAAAATTA
1678133 ATATAAAAATATTA
1 ATATAAAAA-ATTA
**
1678147 ATATTTTAAAATTA
1 ATA-TAAAAAATTA
1678161 A-ATAAAAATTATTA
1 ATATAAAAA--ATTA
*
1678175 ATATATAAAAATTT
1 ATATA-AAAAATTA
1678189 ATATAAA
1 ATATAAA
1678196 TATAAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
11 5 0.08
12 8 0.13
13 8 0.13
14 24 0.40
15 11 0.18
16 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:1678156 original size:28 final size:27
Alignment explanation
Indices: 1678125--1678222 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 27
1678115 AAATATGATA
1678125 TAAAAATAATATAAAAATATTAATATTT
1 TAAAAATAATATAAAAATATTAATA-TT
* *
1678153 TAAAATTAA-ATAAAAATTATTAATATA
1 TAAAAATAATATAAAAA-TATTAATATT
* * *
1678180 TAAAAAT-TTATATAAATATAAAATAATT
1 TAAAAATAATATAAAAATAT-TAAT-ATT
*
1678208 TAAATATAATTATAA
1 TAAAAATAA-TATAA
1678223 TATTATAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
26 3 0.06
27 23 0.43
28 24 0.44
30 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAAATAATATAAAAATATTAATATT
Found at i:1678184 original size:17 final size:18
Alignment explanation
Indices: 1678162--1678202 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1678152 TTAAAATTAA
1678162 ATAAAAA-TTAT-TAATAT
1 ATAAAAATTTATATAA-AT
1678179 ATAAAAATTTATATAAAT
1 ATAAAAATTTATATAAAT
1678197 ATAAAA
1 ATAAAA
1678203 TAATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAATTTATATAAAT
Found at i:1678190 original size:18 final size:17
Alignment explanation
Indices: 1678162--1678216 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
1678152 TTAAAATTAA
1678162 ATAAAAATTAT-TAATAT
1 ATAAAAATTATATAA-AT
1678179 ATAAAAATTTATATAAAT
1 ATAAAAA-TTATATAAAT
* *
1678197 AT-AAAATAATTTAAAT
1 ATAAAAATTATATAAAT
1678213 ATAA
1 ATAA
1678217 TTATAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 10 0.30
17 12 0.36
18 8 0.24
19 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAAAATTATATAAAT
Found at i:1678239 original size:25 final size:26
Alignment explanation
Indices: 1678211--1678259 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
1678201 AATAATTTAA
*
1678211 ATATAATTATAATATTATA-AAATAT
1 ATATAATTATAATAATATATAAATAT
1678236 ATATAATTATAATAATATATAAAT
1 ATATAATTATAATAATATATAAAT
1678260 TGTTAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATAATTATAATAATATATAAATAT
Found at i:1678255 original size:16 final size:16
Alignment explanation
Indices: 1678188--1678259 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
1678178 TATAAAAATT
1678188 TATATAAATATAA-AA
1 TATATAAATATAATAA
* *
1678203 TAATTTAAATATAATTA
1 T-ATATAAATATAATAA
*
1678220 TA-AT-ATTATAA-AA
1 TATATAAATATAATAA
1678233 TATATATAATTATAATAA
1 TATATA-AA-TATAATAA
1678251 TATATAAAT
1 TATATAAAT
1678260 TGTTAAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
13 3 0.07
14 8 0.18
15 2 0.05
16 14 0.32
17 9 0.20
18 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATAAATATAATAA
Found at i:1678259 original size:47 final size:48
Alignment explanation
Indices: 1678167--1678259 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 48
1678157 ATTAAATAAA
* *
1678167 AATTATTAATATATAAAAATTTATATAAATATAAAATAATTTAAATAT
1 AATTATTAATATATAAAAATATATATAAATATAAAATAATATAAATAT
*
1678215 AATTA-TAATAT-TATAAAATATATATAATTATAATAAT-ATATAAAT
1 AATTATTAATATATA-AAAATATATATAAATATAA-AATAATATAAAT
1678260 TGTTAAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 2 0.05
47 30 0.75
48 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (48 bp):
AATTATTAATATATAAAAATATATATAAATATAAAATAATATAAATAT
Found at i:1680520 original size:3 final size:3
Alignment explanation
Indices: 1680514--1680549 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1680504 TCGGTTATTA
1680514 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1680550 CCTGAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:1684546 original size:12 final size:13
Alignment explanation
Indices: 1684521--1684550 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1684511 ATGTATACTT
1684521 GGGGTGGGGTGGG
1 GGGGTGGGGTGGG
1684534 GGGGTGGGG-GGG
1 GGGGTGGGGTGGG
1684546 GGGGT
1 GGGGT
1684551 TTGCTGTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.00, C:0.00, G:0.87, T:0.13
Consensus pattern (13 bp):
GGGGTGGGGTGGG
Found at i:1687039 original size:2 final size:2
Alignment explanation
Indices: 1687032--1687066 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1687022 ACTCTCACAA
1687032 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1687067 ACTCTAGGGA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1687291 original size:13 final size:13
Alignment explanation
Indices: 1687268--1687299 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
1687258 TAATATTTTG
1687268 TTTTCATTAATAAC
1 TTTT-ATTAATAAC
1687282 TTTTATTAATAAC
1 TTTTATTAATAAC
1687295 TTTTA
1 TTTTA
1687300 AAAGCTACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTATTAATAAC
Found at i:1687536 original size:21 final size:21
Alignment explanation
Indices: 1687494--1687536 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1687484 AAAATAATGC
* * * *
1687494 ATTTGTTTTTATCTTAATAAA
1 ATTTATTTTTATATGAAAAAA
1687515 ATTTATTTTTATATGAAAAAA
1 ATTTATTTTTATATGAAAAAA
1687536 A
1 A
1687537 GTAATATTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTTATTTTTATATGAAAAAA
Found at i:1689194 original size:13 final size:13
Alignment explanation
Indices: 1689165--1689200 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1689155 GAAGATGAAG
*
1689165 AAGAAAGAAAGAAA
1 AAGAAA-AAAAAAA
1689179 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
1689192 AAGAAAAAA
1 AAGAAAAAA
1689201 TATGAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:1691929 original size:14 final size:13
Alignment explanation
Indices: 1691904--1691944 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
1691894 AAAAGATTAA
1691904 AATTTT-AAAAAT
1 AATTTTAAAAAAT
1691916 ATATTTTAAAAAAT
1 A-ATTTTAAAAAAT
*
1691930 AA-ATTAAAAAAT
1 AATTTTAAAAAAT
1691942 AAT
1 AAT
1691945 ATGAGTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.48
13 6 0.24
14 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTTTAAAAAAT
Found at i:1701645 original size:22 final size:23
Alignment explanation
Indices: 1701626--1701668 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1701616 TTGTGAGATA
*
1701626 ACTGCAT-ATTGATGTTGAGACT
1 ACTGCATCATTCATGTTGAGACT
*
1701648 ATTGCATCATTCATGTTGAGA
1 ACTGCATCATTCATGTTGAGA
1701669 GTTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (23 bp):
ACTGCATCATTCATGTTGAGACT
Found at i:1702022 original size:26 final size:27
Alignment explanation
Indices: 1701993--1702069 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
1701983 CACACAGCTT
1701993 ATTTTATAATTATATAATATATA-TTA
1 ATTTTATAATTATATAATATATATTTA
* *
1702019 ATTTTATATTTTTAT-ATAT-TATTTA
1 ATTTTATAATTATATAATATATATTTA
*
1702044 ATTTTTATTAATAACTATAATATATA
1 A-TTTTA-TAATTA-TATAATATATA
1702070 AAAACATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 2 0.05
25 8 0.20
26 18 0.45
27 3 0.08
28 3 0.08
29 4 0.10
30 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTATAATTATATAATATATATTTA
Found at i:1702036 original size:21 final size:18
Alignment explanation
Indices: 1702010--1702051 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
1702000 AATTATATAA
1702010 TATATATTAATTTTATATTTT
1 TATATATT-A-TTTA-ATTTT
1702031 TATATATTATTTAATTTT
1 TATATATTATTTAATTTT
1702049 TAT
1 TAT
1702052 TAATAACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 1 0.05
21 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATATTATTTAATTTT
Found at i:1702216 original size:20 final size:19
Alignment explanation
Indices: 1702144--1702216 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 19
1702134 AAATTAGCAT
*
1702144 TAAAATTATTTTT-ATTATA
1 TAAAA-TATTTTTAATTTTA
*
1702163 AAAAATATTTATTAA-TTTA
1 TAAAATATTT-TTAATTTTA
**
1702182 TAAGTAATAAATTTAATTTTA
1 TAA--AATATTTTTAATTTTA
1702203 TTAAAATATTTTTA
1 -TAAAATATTTTTA
1702217 TTAAATAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
18 5 0.12
19 11 0.27
20 13 0.32
21 9 0.22
22 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (19 bp):
TAAAATATTTTTAATTTTA
Found at i:1703763 original size:27 final size:27
Alignment explanation
Indices: 1703660--1703764 Score: 66
Period size: 22 Copynumber: 4.1 Consensus size: 27
1703650 TAAGTTAATT
*
1703660 TAAAAATAT-ATTTTATTATTTATTATAT
1 TAAAAATATCATTTTATTATTTA--ATAA
* *
1703688 TATTAAATATTATTTTA-TA-TTAAT-A
1 TA-AAAATATCATTTTATTATTTAATAA
** *
1703713 TTTATATATC--TTTATT-TTT-A-AA
1 TAAAAATATCATTTTATTATTTAATAA
1703735 TAAAAATATCATTTTATTATTTAATAA
1 TAAAAATATCATTTTATTATTTAATAA
1703762 TAA
1 TAA
1703765 TTCAAATCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
22 13 0.22
23 3 0.05
24 12 0.20
25 4 0.07
26 3 0.05
27 5 0.08
28 5 0.08
29 8 0.14
30 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TAAAAATATCATTTTATTATTTAATAA
Found at i:1707233 original size:6 final size:6
Alignment explanation
Indices: 1707222--1707249 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1707212 TCACATATTT
1707222 CTTTCC CTTTCC CTTTCC CTTTCC CTTT
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTT
1707250 TTGTTTTTGT
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:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
CTTTCC
Found at i:1710166 original size:2 final size:2
Alignment explanation
Indices: 1710154--1710204 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1710144 AGAAGAAAGA
*
1710154 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1710196 TC TC TC TC T
1 TC TC TC TC T
1710205 TTTTCTTGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:1710971 original size:34 final size:36
Alignment explanation
Indices: 1710912--1710978 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
1710902 AATATATATT
*
1710912 ATATAAATATTTAAAAGAATAAAAAAAATCAAATTA
1 ATATAAATATTTAAAAGAATAAAAAAAAACAAATTA
* *
1710948 ATATAAA-ATTT-AAATATTAAAAAAAAACAAA
1 ATATAAATATTTAAAAGAATAAAAAAAAACAAA
1710979 AAGCCAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 17 0.61
35 4 0.14
36 7 0.25
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (36 bp):
ATATAAATATTTAAAAGAATAAAAAAAAACAAATTA
Found at i:1711508 original size:2 final size:2
Alignment explanation
Indices: 1711501--1711562 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1711491 AGTATTACAA
1711501 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
1711543 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1711563 TGTTGAAAGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1714774 original size:21 final size:21
Alignment explanation
Indices: 1714736--1714810 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
1714726 AATTATGTAT
1714736 GATAATTTTTAGAAAAATAAATG
1 GATAATTTTT--AAAAATAAATG
*
1714759 GATAATTTTTAAAAATAAATA
1 GATAATTTTTAAAAATAAATG
* *
1714780 GATAGA-TTTTAAGAATAAGTG
1 GATA-ATTTTTAAAAATAAATG
*
1714801 AATAATTTTT
1 GATAATTTTT
1714811 TAAAGAGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (21 bp):
GATAATTTTTAAAAATAAATG
Found at i:1716091 original size:17 final size:17
Alignment explanation
Indices: 1716054--1716104 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1716044 ATGAAAGTAT
*
1716054 TTTATTTTAATATTTAAAA
1 TTTA-TTTAAT-TTAAAAA
1716073 TTTATTTAATTTAAAAA
1 TTTATTTAATTTAAAAA
* *
1716090 TTTAATTAAATTAAA
1 TTTATTTAATTTAAA
1716105 CAGTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 19 0.66
18 6 0.21
19 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATTTAATTTAAAAA
Found at i:1717958 original size:22 final size:21
Alignment explanation
Indices: 1717933--1717984 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
1717923 AAATTCATTT
*
1717933 AAATAAAATTTTAAATATTTAA-
1 AAAT-AAATTTT-AATATTAAAC
1717955 AAAT-AATTTTAATATTAAAC
1 AAATAAATTTTAATATTAAAC
1717975 AAATATAATT
1 AAATA-AATT
1717985 AATAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.31
20 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAAATTTTAATATTAAAC
Found at i:1717970 original size:19 final size:20
Alignment explanation
Indices: 1717929--1717970 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1717919 TAATAAATTC
1717929 ATTTAAATAAAATTTTAAAT
1 ATTTAAATAAAATTTTAAAT
1717949 ATTTAAA-AATAATTTT-AAT
1 ATTTAAATAA-AATTTTAAAT
1717968 ATT
1 ATT
1717971 AAACAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAAATAAAATTTTAAAT
Found at i:1717978 original size:20 final size:20
Alignment explanation
Indices: 1717939--1717979 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1717929 ATTTAAATAA
*
1717939 AATTTTAAATATTTAAAAAT
1 AATTTTAAATATTAAAAAAT
1717959 AATTTT-AATATTAAACAAAT
1 AATTTTAAATATTAAA-AAAT
1717979 A
1 A
1717980 TAATTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTTAAATATTAAAAAAT
Found at i:1717999 original size:21 final size:22
Alignment explanation
Indices: 1717954--1718024 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 22
1717944 TAAATATTTA
*
1717954 AAAATA-ATTTTAAT-ATTAA-
1 AAAATATATATTAATAATTAAT
1717973 ACAAATATA-ATTAATAATTAAT
1 A-AAATATATATTAATAATTAAT
1717995 AAAATATATATT--TAACTTAAT
1 AAAATATATATTAATAA-TTAAT
*
1718016 TAAATATAT
1 AAAATATAT
1718025 GATATTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.02
20 13 0.30
21 26 0.59
22 4 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATATATTAATAATTAAT
Found at i:1718686 original size:80 final size:80
Alignment explanation
Indices: 1718594--1718753 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
1718584 CATTATTATC
* *
1718594 TTATTTTTATCTGTTATAAAATAATTTTTATATAATTTTACATCATGTTTAATAATTCAAACTAA
1 TTATTTTTATCTGTTATAAAATAATTTTTATAAAATCTTACATCATGTTTAATAATTCAAACTAA
*
1718659 ATCAATCGATTAAAT
66 ATCAATCGATAAAAT
1718674 TTATTTTTATCTGTTATAAAATAATTTTTATAAAATCTTACATCATGTTTAATAATTCAAACTAA
1 TTATTTTTATCTGTTATAAAATAATTTTTATAAAATCTTACATCATGTTTAATAATTCAAACTAA
*
1718739 ATTAATCGATAAAAT
66 ATCAATCGATAAAAT
1718754 CAATTCAATC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (80 bp):
TTATTTTTATCTGTTATAAAATAATTTTTATAAAATCTTACATCATGTTTAATAATTCAAACTAA
ATCAATCGATAAAAT
Found at i:1718954 original size:26 final size:28
Alignment explanation
Indices: 1718914--1718971 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
1718904 ATAAATGTTA
*
1718914 ATATTAAAATTATCA-ATCTCTTAA-TTAT
1 ATATTAAAA-TATCATAT-TATTAATTTAT
1718942 ATATTAAAA-ATCATATTATTAATTTAT
1 ATATTAAAATATCATATTATTAATTTAT
1718969 ATA
1 ATA
1718972 CATATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 9 0.33
27 9 0.33
28 9 0.33
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATTAAAATATCATATTATTAATTTAT
Found at i:1719012 original size:32 final size:30
Alignment explanation
Indices: 1718974--1719058 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 30
1718964 TTTATATACA
*
1718974 TATTTTATAAATTAAATATTATATCTAATAT
1 TATTTTATAAATTAAATATTATATCTAAT-C
*
1719005 TATTTT-TAAAATTTAAA-ATTTAATATTTAATC
1 TATTTTAT-AAA-TTAAATA-TT-ATATCTAATC
1719037 TATTTT-TAAATTAAATCATTAT
1 TATTTTATAAATTAAAT-ATTAT
1719059 TTCAAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
30 8 0.17
31 15 0.33
32 15 0.33
33 8 0.17
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTTTATAAATTAAATATTATATCTAATC
Found at i:1719017 original size:31 final size:30
Alignment explanation
Indices: 1718976--1719058 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 30
1718966 TATATACATA
*
1718976 TTTTATAAATTAAATATTATATCTAATATTAT
1 TTTTA-AAATTAAATATTATATCTAAT-CTAT
*
1719008 TTTTAAAATTTAAA-ATTTAATATTTAATCTAT
1 TTTTAAAA-TTAAATA-TT-ATATCTAATCTAT
1719040 TTTT-AAATTAAATCATTAT
1 TTTTAAAATTAAAT-ATTAT
1719059 TTCAAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
30 7 0.16
31 9 0.20
32 20 0.45
33 8 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTTAAAATTAAATATTATATCTAATCTAT
Found at i:1719351 original size:5 final size:5
Alignment explanation
Indices: 1719341--1719434 Score: 56
Period size: 5 Copynumber: 19.0 Consensus size: 5
1719331 ATAATTTTAG
* *
1719341 ATATA ATATAA ATATA ATATA A-AAA ATTAAA ATATA ATATA A-ATTA
1 ATATA ATAT-A ATATA ATATA ATATA A-TATA ATATA ATATA ATA-TA
* * *
1719387 AAATA ATATA A-AAA AT-TA ATATAA ATATG ATATA A-A-A ATATAA ATATA
1 ATATA ATATA ATATA ATATA ATAT-A ATATA ATATA ATATA ATAT-A ATATA
1719435 TTAAAATTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
3 2 0.03
4 12 0.17
5 37 0.52
6 20 0.28
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (5 bp):
ATATA
Found at i:1719400 original size:35 final size:34
Alignment explanation
Indices: 1719341--1719449 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 34
1719331 ATAATTTTAG
1719341 ATATAATATAAATATAATATAAAAAATTAAAATATA
1 ATATAAT-TAAA-ATAATATAAAAAATTAAAATATA
*
1719377 ATATAAATTAAAATAATATAAAAAATTAATATA-A
1 ATAT-AATTAAAATAATATAAAAAATTAAAATATA
* * *
1719411 ATATGA-TATAAA-AATATAAATATATTAAAAT-TT
1 ATATAATTA-AAATAATATAAA-AAATTAAAATATA
1719444 ATATAA
1 ATATAA
1719450 ATTTATAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
32 10 0.16
33 17 0.27
34 5 0.08
35 20 0.32
36 8 0.13
37 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (34 bp):
ATATAATTAAAATAATATAAAAAATTAAAATATA
Found at i:1719404 original size:18 final size:18
Alignment explanation
Indices: 1719349--1719410 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
1719339 AGATATAATA
1719349 TAAATATAATATAAAAAAT
1 TAAA-ATAATATAAAAAAT
*
1719368 TAAAAT-ATA-ATATAAAT
1 TAAAATAATATA-AAAAAT
1719385 TAAAATAATATAAAAAAT
1 TAAAATAATATAAAAAAT
*
1719403 TAATATAA
1 TAAAATAA
1719411 ATATGATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.03
17 14 0.38
18 17 0.46
19 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATAATATAAAAAAT
Found at i:1719439 original size:28 final size:27
Alignment explanation
Indices: 1719345--1719483 Score: 91
Period size: 25 Copynumber: 5.3 Consensus size: 27
1719335 TTTTAGATAT
1719345 AATATAAATATAATATAAAA-AAT-T-AA
1 AATATAAATAT-AT-TAAAATAATATAAA
*
1719371 AATATAATATAAATTAAAATAATATAAA
1 AATATAA-ATATATTAAAATAATATAAA
* * *
1719399 AA-ATTAATATA--AATATGATATAAA
1 AATATAAATATATTAAAATAATATAAA
*
1719423 AATATAAATATATTAAAATTTATATAAA
1 AATATAAATATATTAAAA-TAATATAAA
**
1719451 TTTATAAA-AT-TTAATACATAAT-T-AA
1 AATATAAATATATTAA-A-ATAATATAAA
1719476 AATATAAA
1 AATATAAA
1719484 AATAATACAT
Statistics
Matches: 90, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
24 13 0.14
25 21 0.23
26 21 0.23
27 16 0.18
28 19 0.21
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (27 bp):
AATATAAATATATTAAAATAATATAAA
Found at i:1719814 original size:2 final size:2
Alignment explanation
Indices: 1719807--1719834 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1719797 GTTCCAGGCC
1719807 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
1719835 CCTGCTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1721913 original size:29 final size:28
Alignment explanation
Indices: 1721880--1721938 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
1721870 TTTGTTTTAT
* *
1721880 TTTTATTTTTTATAATTATTATTAAGTAA
1 TTTTATTATTAATAATTATTA-TAAGTAA
*
1721909 TTTTATTATTAATAATTATTATAATTAA
1 TTTTATTATTAATAATTATTATAAGTAA
1721937 TT
1 TT
1721939 ACGAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTATTATTAATAATTATTATAAGTAA
Found at i:1721914 original size:16 final size:16
Alignment explanation
Indices: 1721894--1721937 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1721884 ATTTTTTATA
1721894 ATTATTATTAAGTAATT
1 ATTATTATTAA-TAATT
1721911 -TTATTATTAATAATT
1 ATTATTATTAATAATT
*
1721926 ATTATAATTAAT
1 ATTATTATTAAT
1721938 TACGAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTATTATTAATAATT
Found at i:1721927 original size:13 final size:14
Alignment explanation
Indices: 1721892--1721939 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
1721882 TTATTTTTTA
1721892 TAATTATTATTAAG
1 TAATTATTATTAAG
1721906 TAATTTTATTATTAA-
1 TAA--TTATTATTAAG
*
1721921 TAATTATTA-TAAT
1 TAATTATTATTAAG
1721934 TAATTA
1 TAATTA
1721940 CGAAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.10
13 12 0.39
14 3 0.10
15 3 0.10
16 10 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TAATTATTATTAAG
Found at i:1724322 original size:19 final size:22
Alignment explanation
Indices: 1724290--1724333 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
1724280 ATTATTTAAA
*
1724290 TTTTTACATAAAAT-AATTA-T
1 TTTTTAAATAAAATCAATTACT
1724310 TTTTTAAAT-AAATCAATTACT
1 TTTTTAAATAAAATCAATTACT
1724331 TTT
1 TTT
1724334 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAAATAAAATCAATTACT
Found at i:1726381 original size:158 final size:159
Alignment explanation
Indices: 1726219--1726539 Score: 572
Period size: 159 Copynumber: 2.0 Consensus size: 159
1726209 AATATATGAA
*
1726219 AAAAATGTAAATAGTAAATTA-TTTTTAAATTTTATAAAAAAATTAAATACAAAATTTTTTTAAT
1 AAAAATGTAAATAGTAAATTATTTTTTAAATTTTATAAAAAAATTAAATACAAAATCTTTTTAAT
*
1726283 GATAAATAGAAAAGGGGCAGCGGTTAATTAGACCTTATTACTTTTTTAATCCATGCACAACATTT
66 GATAAATAGAAAAGGGGCAGCGGTTAATTAGACCTTACTACTTTTTTAATCCATGCACAACATTT
1726348 CGCTATGCCCAATTCTTACTAAAAAATAT
131 CGCTATGCCCAATTCTTACTAAAAAATAT
*
1726377 AAAAATGTAAATAGTATATTATTTTTTAAATTTTATAAAAAAATTAAATACAAAATCTTTTTAAT
1 AAAAATGTAAATAGTAAATTATTTTTTAAATTTTATAAAAAAATTAAATACAAAATCTTTTTAAT
* * *
1726442 GATAAATAGAAAAGGGGCAGCGGTTAATTAGACCTTACTACTTTTTTACTCTATGCACAACGTTT
66 GATAAATAGAAAAGGGGCAGCGGTTAATTAGACCTTACTACTTTTTTAATCCATGCACAACATTT
*
1726507 CGCTATGCCCAATTCTTACTAAAAAATTT
131 CGCTATGCCCAATTCTTACTAAAAAATAT
1726536 AAAA
1 AAAA
1726540 TCGAGAGCAA
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
158 20 0.13
159 135 0.87
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (159 bp):
AAAAATGTAAATAGTAAATTATTTTTTAAATTTTATAAAAAAATTAAATACAAAATCTTTTTAAT
GATAAATAGAAAAGGGGCAGCGGTTAATTAGACCTTACTACTTTTTTAATCCATGCACAACATTT
CGCTATGCCCAATTCTTACTAAAAAATAT
Found at i:1727008 original size:15 final size:14
Alignment explanation
Indices: 1726989--1727018 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1726979 ATTAAAAATA
1726989 TAAAAACCATTTTT
1 TAAAAACCATTTTT
*
1727003 TAAAAACTATTTTT
1 TAAAAACCATTTTT
1727017 TA
1 TA
1727019 TGCAACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAAACCATTTTT
Found at i:1727822 original size:16 final size:16
Alignment explanation
Indices: 1727801--1727848 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1727791 CGTATTATTT
1727801 TTTTAATTATATTATA
1 TTTTAATTATATTATA
1727817 TTTTAATTAT-TT-TA
1 TTTTAATTATATTATA
*
1727831 TTAT-ATTATATTGATA
1 TTTTAATTATATT-ATA
1727847 TT
1 TT
1727849 CATGCCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 2 0.07
16 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTAATTATATTATA
Found at i:1728739 original size:17 final size:17
Alignment explanation
Indices: 1728702--1728744 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1728692 AAATATAAAT
*
1728702 TTTTAAA-AT-TATAAA
1 TTTTAAATATCTAAAAA
*
1728717 TATTAAATATCTAAAAA
1 TTTTAAATATCTAAAAA
1728734 TTTTAAATATC
1 TTTTAAATATC
1728745 AAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 6 0.26
16 2 0.09
17 15 0.65
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTAAATATCTAAAAA
Found at i:1729566 original size:20 final size:20
Alignment explanation
Indices: 1729517--1729569 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 20
1729507 AATAAACTAT
1729517 AAAT-ATATAA-AAATATTTA
1 AAATAATATAATAAA-ATTTA
1729536 AAA-AAT-T-ATAAAATTTA
1 AAATAATATAATAAAATTTA
1729553 AAATAATATAATAAAAT
1 AAATAATATAATAAAAT
1729570 ATATTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 6 0.21
20 7 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATAATATAATAAAATTTA
Found at i:1729936 original size:14 final size:15
Alignment explanation
Indices: 1729919--1729954 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
1729909 TAAATAATTC
1729919 ATTTAATTTAA-TAA
1 ATTTAATTTAACTAA
1729933 ATTTAATTTAACTTAA
1 ATTTAATTTAAC-TAA
1729949 ATTTAA
1 ATTTAA
1729955 GTATGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.55
16 9 0.45
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAATTTAACTAA
Found at i:1731162 original size:2 final size:2
Alignment explanation
Indices: 1731155--1731183 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1731145 GTAAAAGCCT
1731155 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1731184 AAATTCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1731252 original size:12 final size:12
Alignment explanation
Indices: 1731235--1731265 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1731225 GATCCTTATC
*
1731235 TCTTTCTCTCTT
1 TCTTTCCCTCTT
1731247 TCTTTCCCTCTT
1 TCTTTCCCTCTT
1731259 TCTTTCC
1 TCTTTCC
1731266 TTTCATTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (12 bp):
TCTTTCCCTCTT
Found at i:1732736 original size:24 final size:23
Alignment explanation
Indices: 1732687--1732737 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1732677 TTATATAAAT
* *
1732687 TTTAATATGTTATTCGTGTCGCA
1 TTTAATATGTTATTCGAGTCACA
* *
1732710 TTTAATTATTTTATTCGAGTCATA
1 TTTAA-TATGTTATTCGAGTCACA
1732734 TTTA
1 TTTA
1732738 TATAATCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (23 bp):
TTTAATATGTTATTCGAGTCACA
Found at i:1738747 original size:17 final size:18
Alignment explanation
Indices: 1738727--1738760 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1738717 TTATCCATTA
1738727 TTTA-CTTTTTTTCAATT
1 TTTATCTTTTTTTCAATT
*
1738744 TTTATTTTTTTTTCAAT
1 TTTATCTTTTTTTCAAT
1738761 GAATGCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATCTTTTTTTCAATT
Found at i:1739690 original size:48 final size:48
Alignment explanation
Indices: 1739638--1739738 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 48
1739628 ATTATTTTGA
* ** *
1739638 GTTTGGAT-TTTTTCGGGTTCGGGCCTATTC-GTGTTC-AGGCTTATTCAG
1 GTTTGG-TCTTTTTCAGGTTCAAGCCTATTCAG-GTTCGAGCCTT-TTCAG
*
1739686 GTTTGGTCTTTTTTAGGTTCAAGCCTATTCAGGTTCGAGCCTTTTCAG
1 GTTTGGTCTTTTTCAGGTTCAAGCCTATTCAGGTTCGAGCCTTTTCAG
1739734 GTTTG
1 GTTTG
1739739 AGCCTTTTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
47 1 0.02
48 38 0.84
49 6 0.13
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.45
Consensus pattern (48 bp):
GTTTGGTCTTTTTCAGGTTCAAGCCTATTCAGGTTCGAGCCTTTTCAG
Found at i:1739719 original size:16 final size:16
Alignment explanation
Indices: 1739700--1739736 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1739690 GGTCTTTTTT
1739700 AGGTTCAAGCCTATTC
1 AGGTTCAAGCCTATTC
* *
1739716 AGGTTCGAGCCTTTTC
1 AGGTTCAAGCCTATTC
1739732 AGGTT
1 AGGTT
1739737 TGAGCCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (16 bp):
AGGTTCAAGCCTATTC
Found at i:1739741 original size:16 final size:16
Alignment explanation
Indices: 1739707--1739763 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
1739697 TTTAGGTTCA
* *
1739707 AGCCTATTCAGGTTCG
1 AGCCTTTTCAGGTTTG
1739723 AGCCTTTTCAGGTTTG
1 AGCCTTTTCAGGTTTG
*
1739739 AGCCTTTTCAAGTTT-
1 AGCCTTTTCAGGTTTG
1739754 AGGCCTTTTC
1 A-GCCTTTTC
1739764 GAGTTTGGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 1 0.03
16 36 0.97
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (16 bp):
AGCCTTTTCAGGTTTG
Found at i:1739760 original size:32 final size:32
Alignment explanation
Indices: 1739724--1739784 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1739714 TCAGGTTCGA
1739724 GCCTTTTC-AGGTTTGAGCCT-TTTCAAGTTTAG
1 GCCTTTTCGA-GTTTG-GCCTCTTTCAAGTTTAG
*
1739756 GCCTTTTCGAGTTTGGGCTCTTTCAAGTT
1 GCCTTTTCGAGTTTGGCCTCTTTCAAGTT
1739785 CAGGTTCGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 22 0.85
33 1 0.04
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (32 bp):
GCCTTTTCGAGTTTGGCCTCTTTCAAGTTTAG
Found at i:1739990 original size:20 final size:20
Alignment explanation
Indices: 1739954--1739992 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1739944 TTATTTTAAA
*
1739954 TATATTTGTTTATTAAAATC
1 TATATTTATTTATTAAAATC
1739974 TATATTTA-TTATATAAAAT
1 TATATTTATTTAT-TAAAAT
1739993 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TATATTTATTTATTAAAATC
Found at i:1741156 original size:22 final size:22
Alignment explanation
Indices: 1741121--1741163 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1741111 GGTTTTTCAA
1741121 GTTCGGATTCTTTTGAGTTTGG
1 GTTCGGATTCTTTTGAGTTTGG
1741143 GTTCGG-TTCTTTTTGAGTTTG
1 GTTCGGATTC-TTTTGAGTTTG
1741164 AATTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.07, C:0.09, G:0.30, T:0.53
Consensus pattern (22 bp):
GTTCGGATTCTTTTGAGTTTGG
Found at i:1741806 original size:13 final size:13
Alignment explanation
Indices: 1741778--1741818 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1741768 TAATAATTAA
**
1741778 AAATAAATTTGAT
1 AAATAAATTTTTT
1741791 AAATAAATTTTTT
1 AAATAAATTTTTT
*
1741804 AAAGAAATTTTTT
1 AAATAAATTTTTT
1741817 AA
1 AA
1741819 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (13 bp):
AAATAAATTTTTT
Found at i:1742205 original size:18 final size:17
Alignment explanation
Indices: 1742149--1742225 Score: 86
Period size: 18 Copynumber: 4.4 Consensus size: 17
1742139 GTTAATTATA
1742149 TTATAATTTAAATTAAT
1 TTATAATTTAAATTAAT
*
1742166 TTA-AATTTAAAATTTAT
1 TTATAATTT-AAATTAAT
1742183 ATTATAATTTAAATTAATT
1 -TTATAATTTAAATTAA-T
1742202 TTATAAATATTAAA-TAAT
1 TTAT-AAT-TTAAATTAAT
1742220 TTATAA
1 TTATAA
1742226 AATATATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.10
17 12 0.23
18 18 0.35
19 12 0.23
20 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAATTTAAATTAAT
Found at i:1742236 original size:16 final size:18
Alignment explanation
Indices: 1742191--1742242 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
1742181 ATATTATAAT
1742191 TTAAATTAATTTTATAAATA
1 TTAAA-TAA-TTTATAAATA
1742211 TTAAATAATTTATAAA-A
1 TTAAATAATTTATAAATA
*
1742228 -TATATAATTTA-AAAT
1 TTAAATAATTTATAAAT
1742243 TAATTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 10 0.33
17 1 0.03
18 8 0.27
19 3 0.10
20 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAATAATTTATAAATA
Found at i:1742360 original size:17 final size:17
Alignment explanation
Indices: 1742325--1742371 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1742315 AGAAATAATT
*
1742325 ATAATATTAT-AATTTAA
1 ATAAT-TTATAAAATTAA
1742342 ATTAATTT-TAAAATTAA
1 A-TAATTTATAAAATTAA
1742359 ATAATTTATAAAA
1 ATAATTTATAAAA
1742372 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.27
17 15 0.58
18 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATTTATAAAATTAA
Found at i:1742365 original size:16 final size:18
Alignment explanation
Indices: 1742338--1742371 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1742328 ATATTATAAT
1742338 TTAAATTAATTT-TAAAA
1 TTAAATTAATTTATAAAA
1742355 TTAAA-TAATTTATAAAA
1 TTAAATTAATTTATAAAA
1742372 GTATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATTAATTTATAAAA
Found at i:1743088 original size:19 final size:18
Alignment explanation
Indices: 1743062--1743111 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1743052 ATTTTATATT
1743062 TTAT-AAATT-ATTTAATA
1 TTATAAAATTAATTTAA-A
1743079 TCTATAAAATTAATTTAAA
1 T-TATAAAATTAATTTAAA
*
1743098 TTATAAAATAAATT
1 TTATAAAATTAATT
1743112 ATTATTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 15 0.52
19 7 0.24
20 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAAAATTAATTTAAA
Found at i:1743105 original size:18 final size:19
Alignment explanation
Indices: 1743052--1743111 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
1743042 AAAAATAAAC
* *
1743052 ATTTTATATTTTATAAATT-
1 ATTTAATATTATA-AAATTA
1743071 ATTTAATATCTATAAAATTA
1 ATTTAATAT-TATAAAATTA
*
1743091 ATTTAA-ATTATAAAATAA
1 ATTTAATATTATAAAATTA
1743109 ATT
1 ATT
1743112 ATTATTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 12 0.33
19 15 0.42
20 9 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAATATTATAAAATTA
Found at i:1745404 original size:4 final size:4
Alignment explanation
Indices: 1745395--1745426 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
1745385 TATTAGGAGT
*
1745395 TTTA TTTA TTTA TTTA TTTA TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1745427 CAAAAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1751166 original size:21 final size:22
Alignment explanation
Indices: 1751128--1751169 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1751118 TATTAGCAAA
*
1751128 ATAAATTATATAATACTTTAAT
1 ATAAATTAAATAATACTTTAAT
*
1751150 ATAATTTAAATAA-ACTTTAA
1 ATAAATTAAATAATACTTTAA
1751170 ATGTTAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATTAAATAATACTTTAAT
Found at i:1754911 original size:52 final size:51
Alignment explanation
Indices: 1754849--1754964 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
1754839 CAGAGTACGA
* * * * *
1754849 GGTTGGAGTATGTTCCTTGATA-GAAAATTTAATATTTTGGAGATAAAAATGG
1 GGTTGGAGTA--TTCATCGATAGGAAAAATTAATATTTTAGAAATAAAAATGG
*
1754901 GGTTGGAGTA-TCATCGATAGTGAAAAATTGATATTTTAGAAATAAAAATGG
1 GGTTGGAGTATTCATCGATAG-GAAAAATTAATATTTTAGAAATAAAAATGG
1754952 GGTTGGAGTATTC
1 GGTTGGAGTATTC
1754965 CCTTAGAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 7 0.13
51 36 0.65
52 12 0.22
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.34
Consensus pattern (51 bp):
GGTTGGAGTATTCATCGATAGGAAAAATTAATATTTTAGAAATAAAAATGG
Found at i:1755040 original size:79 final size:77
Alignment explanation
Indices: 1754899--1755557 Score: 622
Period size: 79 Copynumber: 8.4 Consensus size: 77
1754889 AGATAAAAAT
** * * * *
1754899 GGGGTTGGAGTATCATCGATAGTGAAAAATTGATATTTTAGAAATAAAAATGGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAAT-AAAATCGGGTTGGAGTA-T
1754964 CCCTTAGAAATAAC
64 CCCTTAGAAATAAC
* * * * ** * *
1754978 GGGGTTGTAGTATCTCTGATGGTAAAAAATCGATATTTTGGAAATAAAATCGGGATTAGAGTAGC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCGGG-TTGGAGTATC
* *
1755043 CGTTTGAAAATAAC
65 CCTTAG-AAATAAC
* * *
1755057 GGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAAT-AAAATCGGGTTGGAGTATC
*
1755122 CCTTCAAAAATAAC
65 CCTT-AGAAATAAC
* * * *
1755136 GGGGTTAGAGTATCCCCGATGGT-AAAAATTGATATTTTAAAAATAGAACCAGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATC-GGGTTGGAGTA-T
* * *
1755200 TCCTCAAAAATAAC
64 CCCTTAGAAATAAC
** * * * *
1755214 GGGGTTAAAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATTGAACTGGGGTTGGAGTAT-
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAA-TAAAATCGGGTTGGAGTATC
* * *
1755278 CTTCTCGATAATAAT
65 CCT-TAGA-AATAAC
* * *
1755293 GGTGTTGGAGTATCCCCGATGG-CAAAAAGTCGATATTTTAAAAATAAAATCGGGTTGGAGCATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAA-TCGATATTTTAAAAATAAAATCGGGTTGGAGTAT-
1755357 CCCTTAGAAATAAC
64 CCCTTAGAAATAAC
* * * *
1755371 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAATTAGGTTTGAAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATA-AAATCGGGTTGGAGTATC
* *
1755436 CTCTCAGAAATAAT
65 C-CTTAGAAATAAC
* * * * * * * *
1755450 GAGGTTGAAATATCCTCGATAGTGAAAAATCAATATTTTGAAAATAAAACTAGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAA-TCGGGTTGGAGTA-T
*
1755515 CCCTTGGAAATAAC
64 CCCTTAGAAATAAC
* * * *
1755529 GGGGTTGGAGTGTTCCCAATAGTGAAAAA
1 GGGGTTGGAGTATCCCCGATGGTGAAAAA
1755558 AATCATATTT
Statistics
Matches: 478, Mismatches: 84, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
77 5 0.01
78 143 0.30
79 315 0.66
80 15 0.03
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (77 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCGGGTTGGAGTATCC
CTTAGAAATAAC
Found at i:1755249 original size:157 final size:157
Alignment explanation
Indices: 1754899--1755557 Score: 662
Period size: 157 Copynumber: 4.2 Consensus size: 157
1754889 AGATAAAAAT
** * *
1754899 GGGGTTGGAGTATCATCGATAGTGAAAAATTGATATTTTAGAAATAAAAATGGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAAAAATGGGGTTGGAGTA-T
* * * * * ** *
1754964 CC-CTTAGAAATAACGGGGTTGTAGTATCTCTGATGGTAAAAAATCGATATTTTGGAAATAAAAT
65 CCTCTCAAAAATAACGGGGTTGAAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAAAAC
* * * *
1755028 CGGGATTAGAGTA-GCCGTTTGAAAATAAC
130 CGGG-TTGGAGTATTCC-CTTAAAAATAAC
* * *
1755057 GGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAAAAATGGGGTTGGAGTATC
* *
1755122 C-CTTCAAAAATAACGGGGTT-AGAGTATCCCCGATGGT-AAAAATTGATATTTTAAAAATAGAA
66 CTC-TCAAAAATAACGGGGTTGA-AGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAAAA
* *
1755184 CCAGGGTTGGAGTATTTCCTCAAAAATAAC
129 CC-GGGTTGGAGTATTCCCTTAAAAATAAC
** ** *
1755214 GGGGTTAAAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATTGAACTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAAAAATGGGGTTGGAGTATC
* * * * * * * * *
1755279 TTCTCGATAATAATGGTGTTGGAGTATCCCCGATGGCAAAAAGTCGATATTTTAAAAATAAAATC
66 CTCTCAAAAATAACGGGGTTGAAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAAAACC
* * *
1755344 GGGTTGGAGCATCCCCTTAGAAATAAC
131 GGGTTGGAGTATTCCCTTAAAAATAAC
* * * * * *
1755371 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAATTAGGTTTGAAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAAAAATGGGGTTGGAGTATC
* * * * * * * * *
1755436 CTCTCAGAAATAATGAGGTTGAAATATCCTCGATAGTGAAAAATCAATATTTTGAAAATAAAACT
66 CTCTCAAAAATAACGGGGTTGAAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAAAAC-
* **
1755501 AGGGTTGGAGTATTCCCTTGGAAATAAC
130 CGGGTTGGAGTATTCCCTTAAAAATAAC
* * * *
1755529 GGGGTTGGAGTGTTCCCAATAGTGAAAAA
1 GGGGTTGGAGTATCCCCGATGGTGAAAAA
1755558 AATCATATTT
Statistics
Matches: 415, Mismatches: 78, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
157 253 0.61
158 162 0.39
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (157 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAAAAATGGGGTTGGAGTATC
CTCTCAAAAATAACGGGGTTGAAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAAAACC
GGGTTGGAGTATTCCCTTAAAAATAAC
Found at i:1755252 original size:236 final size:234
Alignment explanation
Indices: 1754899--1755579 Score: 712
Period size: 236 Copynumber: 2.9 Consensus size: 234
1754889 AGATAAAAAT
** * * * *
1754899 GGGGTTGGAGTATCATCGATAGTGAAAAATTGATATTTTAGAAATAAAAATGGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAAATAGGGTTGGAGTATT
* ** * * * *
1754964 CCCTTAGAAATAACGGGGTTGTAGTATCTCTGATGGTAAAAAATCGATATTTTGGAAATAAAATC
66 CCCTCAGAAATAACGGGGTTAAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAATC
*
1755029 GGGATTAGAGTAGCCGTTTGAAAATAACGGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATT
131 GGG-TTGGAGTA-CC-TTTGAAAATAACGGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATT
* *
1755094 TTGAAAATAAAAATGGGGTTGGAGTAT-CCCTTCAAAAATAAC
193 TTGAAAATAAAAATCGGGTTGGAGCATCCCCTT-AAAAATAAC
* **
1755136 GGGGTTAGAGTATCCCCGATGGT-AAAAATTGATATTTTAAAAATAGAACCAGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAAATAGGGTTGGAGTATT
* * * * * *
1755200 TCCTCAAAAATAACGGGGTTAAAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATTGAACT
66 CCCTCAGAAATAACGGGGTTAAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAA-TAAAAT
* * * * * * *
1755265 GGGGTTGGAGTATCTTCTCGATAATAATGGTGTTGGAGTATCCCCGATGG-CAAAAAGTCGATAT
130 CGGGTTGGAGTACCTT-T-GAAAATAACGGGGTTGGAGTATCTCCGATGGTGAAAAA-TCGATAT
* *
1755329 TTTAAAAAT-AAAATCGGGTTGGAGCATCCCCTTAGAAATAAC
192 TTTGAAAATAAAAATCGGGTTGGAGCATCCCCTTAAAAATAAC
* * * *
1755371 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAATTAGGTTTGAAGTA-T
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAAATAGGGTTGGAGTATT
* * * * *
1755435 CCTCTCAGAAATAATGAGGTTGAAA-TATCCTCGATAGTGAAAAATCAATATTTTGAAAATAAAA
66 CC-CTCAGAAATAACGGGGTT-AAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAA
* * * * * *
1755499 CTAGGGTTGGAGTATTCCCTTGGAAATAACGGGGTTGGAGTGT-TCCCAATAGTGAAAAAAATC-
129 -TCGGGTTGGAGTA--CCTTTGAAAATAACGGGGTTGGAGTATCT-CCGATGGTG--AAAAATCG
*
1755562 ATATTTTGGAAATAAAAA
188 ATATTTTGAAAATAAAAA
1755580 AATCAATGAA
Statistics
Matches: 363, Mismatches: 65, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
234 2 0.01
235 58 0.16
236 249 0.69
237 41 0.11
238 8 0.02
239 5 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (234 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAAATAGGGTTGGAGTATT
CCCTCAGAAATAACGGGGTTAAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAATC
GGGTTGGAGTACCTTTGAAAATAACGGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATTTTG
AAAATAAAAATCGGGTTGGAGCATCCCCTTAAAAATAAC
Found at i:1757286 original size:20 final size:20
Alignment explanation
Indices: 1757261--1757316 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1757251 AAAAACCCAG
1757261 AATGTATCGATACAATGATA
1 AATGTATCGATACAATGATA
* *
1757281 AATGTATAGATACAATTATA
1 AATGTATCGATACAATGATA
1757301 AGTATGTATCGATACA
1 A--ATGTATCGATACA
1757317 TTTACTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
22 12 0.39
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATGATA
Found at i:1758100 original size:61 final size:61
Alignment explanation
Indices: 1757939--1758468 Score: 518
Period size: 61 Copynumber: 8.6 Consensus size: 61
1757929 TTTGAGATAG
* * * * *
1757939 AAAAGGATAGAGGCGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTTTGTGGGCTTT
1 AAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1758001 AAAAGAAAAAAGGAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCCTT
1 AAAAG-GAAAA-G--GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG-CTT
*
1758066 G
61 T
* * * * * * * *
1758067 AAAA-GAAAAGGCATCTTAG-TCTTTGAGGACTAAATGGTACTATCAACTTATGTGGCCTTT
1 AAAAGGAAAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
1758127 AAAAGGGGAAGGCGTCC-GACTTTTTGAGGATTGAAAA-GTGCCACAAACTTGTGTTGGCTTT
1 AAAAGGAAAAGGCGTCCTG-CTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * **
1758188 AAAAGGAGAAA-GCGTCCTGCTCTTTAAGGAATGAAAGGTGCCACCAACTTGTGTAAGCTTT
1 AAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1758249 GAAAGG-AAA-GTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGTTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1758308 AAAAGGAGAAGGCATCCTGCTCTTTGAGGACTGAACGATGCCACCAACTTGTGTGGGC-TT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1758368 AGAAAGGAAAAAGACGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 A-AAAGG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1758431 AAAAGGAGAAGGCGTCATGCTCTTTGAGGACTAAAAGG
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
1758469 ATAAAAGGTT
Statistics
Matches: 375, Mismatches: 75, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
59 49 0.13
60 15 0.04
61 189 0.50
62 64 0.17
63 6 0.02
64 4 0.01
65 41 0.11
66 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (61 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1758309 original size:120 final size:119
Alignment explanation
Indices: 1758009--1758468 Score: 482
Period size: 120 Copynumber: 3.8 Consensus size: 119
1757999 TTAAAAGAAA
* * *
1758009 AAAGG-AAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCCTTGAAAA-G
1 AAAGGAAAGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG-CTTTAAAAGG
* * * * * *
1758072 A-AAAGGCATCTTAG-TCTTTGAGGACT-AAATGGTACTATCAACTTATGTGGCCTTTA
65 AGAAA-GCATCCT-GCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGG-CTTTG
* * * * * *
1758128 AAAGGGGAAGGCGTCCGACTTTTTGAGGATTGAAAA-GTGCCACAAACTTGTGTTGGCTTTAAAA
1 AAA--GGAAAGCGTCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * *
1758192 GGAGAAAGCGTCCTGCTCTTTAAGGAATGAAAGGTGCCACCAACTTGTGTAAGCTTTG
63 GGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTG
* * * *
1758250 AAAGGAAAGTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGTTTTAAAAGGA
1 AAAGGAAAGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
1758315 GAAGGCATCCTGCTCTTTGAGGACTGAACGATGCCACCAACTTGTGTGGGCTTAG
66 GAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTG
1758370 AAAGGAAAAAGACGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAGG--AAAG-CGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * *
1758435 GGAGAAGGCGTCATGCTCTTTGAGGACTAAAAGG
63 GGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGG
1758469 ATAAAAGGTT
Statistics
Matches: 281, Mismatches: 47, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
119 6 0.02
120 99 0.35
121 10 0.04
122 77 0.27
123 89 0.32
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (119 bp):
AAAGGAAAGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
GAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCTTTG
Found at i:1759492 original size:21 final size:23
Alignment explanation
Indices: 1759451--1759499 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
1759441 TTTTTCTTTC
*
1759451 TTTTTTTTTTGTTTTTATTGTTA
1 TTTTTTTTTTGCTTTTATTGTTA
1759474 TTTTTTTTTT-CTTTT-TTGTTA
1 TTTTTTTTTTGCTTTTATTGTTA
1759495 TTTTT
1 TTTTT
1759500 AGTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.44
22 4 0.16
23 10 0.40
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.86
Consensus pattern (23 bp):
TTTTTTTTTTGCTTTTATTGTTA
Found at i:1759495 original size:27 final size:25
Alignment explanation
Indices: 1759451--1759510 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
1759441 TTTTTCTTTC
*
1759451 TTTTTTTTTTGTTTTTATTGTTATT
1 TTTTTTTTTTGTTTTTATTGTTAGT
* *
1759476 TTTTTTTTCTTTTTTGTTATTTTTAGT
1 TTTTTTTT-TTGTTT-TTATTGTTAGT
1759503 TTTTTTTT
1 TTTTTTTT
1759511 GAAAAGAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 8 0.27
26 5 0.17
27 17 0.57
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.85
Consensus pattern (25 bp):
TTTTTTTTTTGTTTTTATTGTTAGT
Found at i:1759509 original size:21 final size:20
Alignment explanation
Indices: 1759439--1759510 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
1759429 TTAAACGGGT
*
1759439 TTTTTTTCTTTCTT-TTTTT-
1 TTTTTTT-TTTGTTATTTTTG
*
1759458 TTTGTTTTTATTGTTATTTTTT
1 TTT-TTTTT-TTGTTATTTTTG
1759480 TTTTCTTTTTTGTTATTTTTAG
1 TTTT-TTTTTTGTTATTTTT-G
1759502 TTTTTTTTT
1 TTTTTTTTT
1759511 GAAAAGAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 4 0.09
20 8 0.18
21 22 0.49
22 11 0.24
ACGTcount: A:0.06, C:0.04, G:0.06, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTGTTATTTTTG
Done.