Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 166 of 195
Found at i:27479952 original size:12 final size:13
Alignment explanation
Indices: 27479929--27479957 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27479919 GTTTCATTTC
27479929 TAAAAAATTTAAA
1 TAAAAAATTTAAA
27479942 TAAAAAA-TTAAA
1 TAAAAAATTTAAA
27479954 TAAA
1 TAAA
27479958 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAAATTTAAA
Found at i:27486858 original size:16 final size:16
Alignment explanation
Indices: 27486821--27486861 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
27486811 TCCAAGTCAA
27486821 TATT-CCATGCTTTAT
1 TATTCCCATGCTTTAT
27486836 TATTTCCCATGTCTTT-T
1 TA-TTCCCATG-CTTTAT
27486853 TATTCCCAT
1 TATTCCCAT
27486862 TCTCAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 9 0.39
17 8 0.35
18 4 0.17
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.54
Consensus pattern (16 bp):
TATTCCCATGCTTTAT
Found at i:27487713 original size:8 final size:8
Alignment explanation
Indices: 27487709--27487855 Score: 132
Period size: 8 Copynumber: 18.8 Consensus size: 8
27487699 AAAAAAAAGA
27487709 AAAAAATG
1 AAAAAATG
27487717 AAAAAATG
1 AAAAAATG
27487725 AAAAAAATG
1 -AAAAAATG
*
27487734 AACAAATG
1 AAAAAATG
*
27487742 AACAAATG
1 AAAAAATG
27487750 AGGAAAAATG
1 A--AAAAATG
27487760 -AAAAATG
1 AAAAAATG
27487767 AAAAAATG
1 AAAAAATG
27487775 AAAAAATG
1 AAAAAATG
27487783 AAAAAATG
1 AAAAAATG
*
27487791 -AAAAGTG
1 AAAAAATG
27487798 -AAAAATG
1 AAAAAATG
27487805 --AAAATG
1 AAAAAATG
27487811 --AAAATG
1 AAAAAATG
27487817 --AAAATG
1 AAAAAATG
27487823 AAAAAATG
1 AAAAAATG
**
27487831 AGAAATGTG
1 A-AAAAATG
27487840 AAAAAAATG
1 -AAAAAATG
27487849 AGAAAAA
1 A-AAAAA
27487856 AGGAAAACTT
Statistics
Matches: 122, Mismatches: 8, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
6 18 0.15
7 19 0.16
8 55 0.45
9 23 0.19
10 7 0.06
ACGTcount: A:0.69, C:0.01, G:0.16, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:27487713 original size:9 final size:9
Alignment explanation
Indices: 27487699--27487794 Score: 91
Period size: 8 Copynumber: 11.4 Consensus size: 9
27487689 ATGAAGTAAA
*
27487699 AAAAAAAAG
1 AAAAAAATG
27487708 AAAAAAATG
1 AAAAAAATG
27487717 -AAAAAATG
1 AAAAAAATG
27487725 AAAAAAATG
1 AAAAAAATG
*
27487734 -AACAAATG
1 AAAAAAATG
*
27487742 -AACAAATG
1 AAAAAAATG
*
27487750 AGGAAAAATG
1 A-AAAAAATG
27487760 --AAAAATG
1 AAAAAAATG
27487767 -AAAAAATG
1 AAAAAAATG
27487775 -AAAAAATG
1 AAAAAAATG
27487783 -AAAAAATG
1 AAAAAAATG
27487791 AAAA
1 AAAA
27487795 GTGAAAAATG
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
7 7 0.09
8 46 0.59
9 19 0.24
10 6 0.08
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:27487722 original size:17 final size:16
Alignment explanation
Indices: 27487709--27487855 Score: 132
Period size: 17 Copynumber: 9.4 Consensus size: 16
27487699 AAAAAAAAGA
27487709 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
*
27487725 AAAAAAATGAACAAATG
1 -AAAAAATGAAAAAATG
*
27487742 AACAAATGAGGAAAAATG
1 AAAAAATGA--AAAAATG
27487760 -AAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
27487775 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
*
27487791 -AAAAGTG-AAAAATG
1 AAAAAATGAAAAAATG
27487805 --AAAATG--AAAATG
1 AAAAAATGAAAAAATG
27487817 --AAAATGAAAAAATG
1 AAAAAATGAAAAAATG
**
27487831 AGAAATGTGAAAAAAATG
1 A-AAAAATG-AAAAAATG
27487849 AGAAAAA
1 A-AAAAA
27487856 AGGAAAACTT
Statistics
Matches: 111, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
12 12 0.11
13 5 0.05
14 13 0.12
15 13 0.12
16 23 0.21
17 26 0.23
18 19 0.17
ACGTcount: A:0.69, C:0.01, G:0.16, T:0.13
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:27487785 original size:58 final size:56
Alignment explanation
Indices: 27487709--27487854 Score: 179
Period size: 58 Copynumber: 2.5 Consensus size: 56
27487699 AAAAAAAAGA
**
27487709 AAAAAATGAAAAAATGAAAAAAATGAACAAATGAACAAATGAGGA-AAAATGAAAAATG
1 AAAAAATGAAAAAATGAAAAAAATGAA-AAATGAA-AAATGAAAAGAAAATG-AAAATG
*
27487767 AAAAAATGAAAAAATG-AAAAAATGAAAAGTGAAAAATGAAAATGAAAATGAAAATG
1 AAAAAATGAAAAAATGAAAAAAATGAAAAATGAAAAATGAAAA-GAAAATGAAAATG
**
27487823 AAAAAATGAGAAATGTGAAAAAAATGAGAAAA
1 AAAAAATGA-AAAAATGAAAAAAATGA-AAAA
27487855 AAGGAAAACT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
55 7 0.09
56 21 0.27
57 21 0.27
58 25 0.32
59 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.16, T:0.13
Consensus pattern (56 bp):
AAAAAATGAAAAAATGAAAAAAATGAAAAATGAAAAATGAAAAGAAAATGAAAATG
Found at i:27487816 original size:12 final size:12
Alignment explanation
Indices: 27487785--27487826 Score: 66
Period size: 12 Copynumber: 3.3 Consensus size: 12
27487775 AAAAAATGAA
27487785 AAAATGAAAAGTG
1 AAAATGAAAA-TG
27487798 AAAAATGAAAATG
1 -AAAATGAAAATG
27487811 AAAATGAAAATG
1 AAAATGAAAATG
27487823 AAAA
1 AAAA
27487827 AATGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 16 0.57
13 2 0.07
14 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:27487849 original size:26 final size:22
Alignment explanation
Indices: 27487710--27487844 Score: 117
Period size: 20 Copynumber: 6.2 Consensus size: 22
27487700 AAAAAAAGAA
*
27487710 AAAAATGAAAAAATGAAAAAAATG
1 AAAAATGAAAAAATG--AAAAGTG
*
27487734 AACAAATGAACAAATG---AG-G
1 AA-AAATGAAAAAATGAAAAGTG
*
27487753 AAAAATG-AAAAATGAAAAAATG
1 AAAAATGAAAAAATG-AAAAGTG
27487775 AAAAAATGAAAAAATGAAAAGTG
1 -AAAAATGAAAAAATGAAAAGTG
27487798 AAAAATG--AAAATGAAAA-TG
1 AAAAATGAAAAAATGAAAAGTG
27487817 -AAAATGAAAAAATGAGAAATGTG
1 AAAAATGAAAAAATGA-AAA-GTG
27487840 AAAAA
1 AAAAA
27487845 AATGAGAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 28
0.74 0.04 0.22
Matches are distributed among these distances:
17 6 0.07
18 11 0.12
19 5 0.05
20 18 0.20
21 4 0.04
22 8 0.09
23 15 0.16
24 13 0.14
25 12 0.13
ACGTcount: A:0.69, C:0.01, G:0.16, T:0.13
Consensus pattern (22 bp):
AAAAATGAAAAAATGAAAAGTG
Found at i:27487862 original size:42 final size:38
Alignment explanation
Indices: 27487718--27487862 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 38
27487708 AAAAAAATGA
* *
27487718 AAAAATGAAAAAAATGAACAAATGAACAAATGAGGAAAAATG
1 AAAAATGAAAAAAA-GAA-AAATGAAAAAATGA-G-AAAGTG
*
27487760 AAAAATGAAAAAATGAAAAAATGAAAAAATGA-AAAGTG
1 AAAAATGAAAAAAAG-AAAAATGAAAAAATGAGAAAGTG
27487798 AAAAATGAAAATGAAA-ATGAAAATGAAAAAATGAGAAATGTG
1 AAAAATGAAAA--AAAGA--AAAATGAAAAAATGAGAAA-GTG
*
27487840 AAAAAAATGAGAAAAAAGGAAAA
1 --AAAAATGA-AAAAAAGAAAAA
27487863 CTTAAATTGA
Statistics
Matches: 87, Mismatches: 5, Indels: 22
0.76 0.04 0.19
Matches are distributed among these distances:
38 17 0.20
40 17 0.20
41 17 0.20
42 22 0.25
43 3 0.03
44 8 0.09
45 3 0.03
ACGTcount: A:0.69, C:0.01, G:0.17, T:0.12
Consensus pattern (38 bp):
AAAAATGAAAAAAAGAAAAATGAAAAAATGAGAAAGTG
Found at i:27489084 original size:23 final size:21
Alignment explanation
Indices: 27489033--27489105 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 21
27489023 ATTTTCGAAA
*
27489033 GAGAATCTTTAAGTTTTAAAT
1 GAGAATCTTAAAGTTTTAAAT
*
27489054 GAGAATCTTAAAGTCTTTATGAT
1 GAGAATCTTAAAGT-TTTA-AAT
* * *
27489077 GTGAATCTCTAAAACTTTTGAAT
1 GAGAATCT-T-AAAGTTTTAAAT
27489100 GAGAAT
1 GAGAAT
27489106 TTTTGAACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 13 0.32
22 4 0.10
23 16 0.39
24 4 0.10
25 4 0.10
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GAGAATCTTAAAGTTTTAAAT
Found at i:27489526 original size:46 final size:46
Alignment explanation
Indices: 27489475--27489566 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
27489465 CCTAAATTAA
* * *
27489475 AATTTTGGATATGAATCTCTCATATATGAATACTTGAATTACAATT
1 AATTTTGGATATGAATCTCTCATAAATGAATACCTGAATTAAAATT
* *
27489521 AATTTTGGATGTGAATCTCTCATAAATGAATCCCTGAATTAAAATT
1 AATTTTGGATATGAATCTCTCATAAATGAATACCTGAATTAAAATT
27489567 TTGGATGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (46 bp):
AATTTTGGATATGAATCTCTCATAAATGAATACCTGAATTAAAATT
Found at i:27489814 original size:17 final size:17
Alignment explanation
Indices: 27489789--27489826 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27489779 CTAGATAATC
* *
27489789 AAATTCTTGTGAACCTA
1 AAATCCTTGTGAAACTA
27489806 AAATCCTTGTGAAACTA
1 AAATCCTTGTGAAACTA
27489823 AAAT
1 AAAT
27489827 TTTGAGAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATCCTTGTGAAACTA
Found at i:27489852 original size:31 final size:31
Alignment explanation
Indices: 27489817--27489893 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
27489807 AATCCTTGTG
*
27489817 AAACTAAAATTTTGAGAATCAAGTTCTTGCA
1 AAACTAAAATTTTGAGAATCAAATTCTTGCA
*
27489848 AAACTAAAATTTTGATAATCAAATTCTTGCA
1 AAACTAAAATTTTGAGAATCAAATTCTTGCA
* *
27489879 AAATTGAAATTTTGA
1 AAACTAAAATTTTGA
27489894 AAGTATTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (31 bp):
AAACTAAAATTTTGAGAATCAAATTCTTGCA
Found at i:27489958 original size:17 final size:18
Alignment explanation
Indices: 27489909--27489960 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
27489899 TTGTCAACTA
* *
27489909 AAAATTTTTACAAATCTG
1 AAAATTATTACGAATCTG
*
27489927 AAAATTATTATGAATCTG
1 AAAATTATTACGAATCTG
27489945 AAAA-TATTACGAATCT
1 AAAATTATTACGAATCT
27489961 TTGAATTGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 11 0.37
18 19 0.63
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (18 bp):
AAAATTATTACGAATCTG
Found at i:27492920 original size:2 final size:2
Alignment explanation
Indices: 27492913--27492938 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27492903 TAATTAAGCA
27492913 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
27492939 GTAAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27494761 original size:9 final size:9
Alignment explanation
Indices: 27494749--27494777 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27494739 AAATTTTAGA
27494749 TTTTT-ATT
1 TTTTTAATT
27494757 TTTTTAATT
1 TTTTTAATT
27494766 TTTTTAATT
1 TTTTTAATT
27494775 TTT
1 TTT
27494778 AAAAACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTAATT
Found at i:27494776 original size:16 final size:16
Alignment explanation
Indices: 27494695--27494779 Score: 57
Period size: 16 Copynumber: 5.1 Consensus size: 16
27494685 TGGTTTTATT
**
27494695 ATTTTTTTAATTTTGG
1 ATTTTTTTAATTTTTA
* *
27494711 ATTTTCTTGATTTTTGAA
1 ATTTTTTTAATTTTT--A
*
27494729 ATCTTTTTTGAAATTTTA
1 AT-TTTTTT-AATTTTTA
27494747 GATTTTTATT--TTTTTA
1 -ATTTTT-TTAATTTTTA
27494763 ATTTTTTTAATTTTTA
1 ATTTTTTTAATTTTTA
27494779 A
1 A
27494780 AAACTCATCG
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.04
15 6 0.11
16 24 0.45
18 7 0.13
19 9 0.17
20 5 0.09
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (16 bp):
ATTTTTTTAATTTTTA
Found at i:27495295 original size:125 final size:123
Alignment explanation
Indices: 27494932--27495358 Score: 310
Period size: 123 Copynumber: 3.5 Consensus size: 123
27494922 ACAAATATTG
* * * * *
27494932 ACATCTACAAATGC-TCTTTTACACAAAGGCTCCACAACTTTAAATTTTAAAATATTCCACT-CG
1 ACATCTACAAATGCTTC-TTTAGATAAAGGCTCCATAACTTTAAAATTTAAAATATT--A-TACA
** * * * * * * * * * *
27494995 AAGGACTTA--AATTTTGCTTGAATGACTTAAAGATTATACCCAAAAATTTTACAAATCCCA
62 AAAAACTTATGAATTTTACATGAAAGAATTAAAAATTACACTCAGAAGTCTTACAAATCCCA
* * * * * * ***
27495055 ACATGTATAAATAC-TCATCTAGATAGATGCTCCATAACTTTAAAATTTAAAATATTATACCCGA
1 ACATCTACAAATGCTTC-TTTAGATAAAGGCTCCATAACTTTAAAATTTAAAATATTATACAAAA
* * * ** * * *
27495119 AACTTATGAATTTTACATGGAGGACTTAAAAATTATGCTCAGAGGTTTTACAAATCTCA
65 AACTTATGAATTTTACATGAAAGAATTAAAAATTACACTCAGAAGTCTTACAAATCCCA
* **
27495178 ACATCTACAAATTCATT-TTTAGATAAAAGGCTTTATAACTTTAAAATTTAAAATATTATACTAA
1 ACATCTACAAATGC-TTCTTTAGAT-AAAGGCTCCATAACTTTAAAATTTAAAATATTATAC-AA
* * * *
27495242 AAAACTTATGAATTTTACCT-AAAGAATGTAGAAATTACACTCATAAGTCTTACAAATCCCG
63 AAAACTTATGAATTTTACATGAAAGAAT-TAAAAATTACACTCAGAAGTCTTACAAATCCCA
* * * * *
27495303 TCATCTACAAATGCTTCTTTAGATAGAGGCTCCACAATTTTAAATTTTAAAATATT
1 ACATCTACAAATGCTTCTTTAGATAAAGGCTCCATAACTTTAAAATTTAAAATATT
27495359 TTGTTCGAAA
Statistics
Matches: 237, Mismatches: 58, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
120 1 0.00
121 7 0.03
123 102 0.43
124 64 0.27
125 63 0.27
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (123 bp):
ACATCTACAAATGCTTCTTTAGATAAAGGCTCCATAACTTTAAAATTTAAAATATTATACAAAAA
ACTTATGAATTTTACATGAAAGAATTAAAAATTACACTCAGAAGTCTTACAAATCCCA
Found at i:27499821 original size:1 final size:1
Alignment explanation
Indices: 27499815--27499849 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
27499805 TTCCATCGTC
27499815 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
27499850 CTGTTTTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27500526 original size:46 final size:46
Alignment explanation
Indices: 27500378--27500543 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 46
27500368 CAAATGCTTA
* * *
27500378 ACAACTTTAAAAATCTTACCGTGAAAAGTTTCAGCTACAAA-ACCTCG
1 ACAACTTTAAAAATCTAACCTTGAAAAGTTTCGGC-ACAAAGA-CTCG
* * ** *** **
27500425 ACAACTTTGAAAATCTCATTTTGAAAAGCTTT-GATGCAAAGGTTCG
1 ACAACTTTAAAAATCTAACCTTGAAAAG-TTTCGGCACAAAGACTCG
* * * *
27500471 ATAATTTTAAAAATCTAATCTTGGAAAGTTTCGGCACAAAGACTCG
1 ACAACTTTAAAAATCTAACCTTGAAAAGTTTCGGCACAAAGACTCG
27500517 ACAACTTTAAAAATCTAACCTTGAAAA
1 ACAACTTTAAAAATCTAACCTTGAAAA
27500544 ACTCCCAAGA
Statistics
Matches: 90, Mismatches: 26, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
45 3 0.03
46 61 0.68
47 23 0.26
48 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (46 bp):
ACAACTTTAAAAATCTAACCTTGAAAAGTTTCGGCACAAAGACTCG
Found at i:27500821 original size:31 final size:32
Alignment explanation
Indices: 27500750--27500838 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 32
27500740 AGGTTCTTGG
* *
27500750 TGCCAAATAAATTGGGATTAAATCTCCATAAA
1 TGCCAACTAAATTAGGATTAAATCTCCATAAA
* * **
27500782 TGCTAACT-AATCTAGGCTTAAATC-CCATAGG
1 TGCCAACTAAAT-TAGGATTAAATCTCCATAAA
27500813 TGCCAACTAAATTAGGATTAAATCTC
1 TGCCAACTAAATTAGGATTAAATCTC
27500839 ATCTGTGTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (32 bp):
TGCCAACTAAATTAGGATTAAATCTCCATAAA
Found at i:27500890 original size:33 final size:33
Alignment explanation
Indices: 27500797--27501065 Score: 184
Period size: 33 Copynumber: 8.5 Consensus size: 33
27500787 ACTAATCTAG
* *
27500797 GCTTAAATCCCA--TAGGTGCCAACTAAA-TTA
1 GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* * *
27500827 GGATTAAATCTCATCT--GTGTCATCTAAACTGA
1 -GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* * *
27500859 GCTTAAATCTTATCTAGGTGCTAACTAAACTGG
1 GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* * **
27500892 GCTT-AATCTAATTTAGGTGCCAGTTAAACT-A
1 GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* * * * * * *
27500923 GGTTTAAATCTCATTTGGGTGCTAGCTAAATTGG
1 -GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* * *
27500957 GCTTAAATCTCATATAGGTGCCAACTAAAATTA
1 GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* *
27500990 GCTTAAATCTCATCTA--TGCCAACTAGACTGG
1 GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
* * *
27501021 GCTTAAA--TC-TCTAGGTGTCAGCTAAACTAA
1 GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
*
27501051 GCTTAAATCTTATCT
1 GCTTAAATCTCATCT
27501066 GTTTCAAAAC
Statistics
Matches: 182, Mismatches: 43, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
28 4 0.02
29 2 0.01
30 17 0.09
31 51 0.28
32 27 0.15
33 81 0.45
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (33 bp):
GCTTAAATCTCATCTAGGTGCCAACTAAACTGA
Found at i:27500994 original size:98 final size:96
Alignment explanation
Indices: 27500809--27501060 Score: 242
Period size: 98 Copynumber: 2.6 Consensus size: 96
27500799 TTAAATCCCA
* * * * *
27500809 TAGGTGCCAACTAAATTAGGATTAAATCTCATCTGTGTCATCTAAACTGAGCTTAAATCTTATCT
1 TAGGTGCCAACTAAACTAGGATTAAATCTCATCTGGGTCAGCTAAACTGAGCTTAAATCTCATAT
* * *
27500874 AGGTGCTAACTAAACTGGGCTTAATCTAATT
66 AGGTGCCAACTAAAATGAGCTTAATCTAATT
** * * * *
27500905 TAGGTGCCAGTTAAACTAGGTTTAAATCTCATTTGGGTGCTAGCTAAATTGGGCTTAAATCTCAT
1 TAGGTGCCAACTAAACTAGGATTAAATCTCATCTGGGT-C-AGCTAAACTGAGCTTAAATCTCAT
* * *
27500970 ATAGGTGCCAACTAAAATTAGCTTAAATCTCATC
64 ATAGGTGCCAACTAAAATGAGCTT-AATCTAATT
* * * * *
27501004 TA--TGCCAACTAGACTGGGCTTAAATCTC-T-AGGTGTCAGCTAAACTAAGCTTAAATCT
1 TAGGTGCCAACTAAACTAGGATTAAATCTCATCTGG-GTCAGCTAAACTGAGCTTAAATCT
27501061 TATCTGTTTC
Statistics
Matches: 126, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
94 18 0.14
95 3 0.02
96 35 0.28
97 22 0.17
98 39 0.31
99 9 0.07
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (96 bp):
TAGGTGCCAACTAAACTAGGATTAAATCTCATCTGGGTCAGCTAAACTGAGCTTAAATCTCATAT
AGGTGCCAACTAAAATGAGCTTAATCTAATT
Found at i:27501245 original size:12 final size:13
Alignment explanation
Indices: 27501220--27501266 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
27501210 TCCTTAACTC
27501220 TTTTTCTTTCCTT
1 TTTTTCTTTCCTT
27501233 TTTTTCTTT-C-T
1 TTTTTCTTTCCTT
27501244 TTTTT-TTTCCTT
1 TTTTTCTTTCCTT
27501256 TATTTT-TTTCC
1 T-TTTTCTTTCC
27501267 CAATATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 3 0.10
13 18 0.58
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTCTTTCCTT
Found at i:27501246 original size:23 final size:23
Alignment explanation
Indices: 27501218--27501265 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
27501208 CTTCCTTAAC
27501218 TCTTTTTCTTTCCTTT-TTTTCTT
1 TCTTTTTCTTTCCTTTATTTT-TT
*
27501241 TCTTTTTTTTTCCTTTATTTTTT
1 TCTTTTTCTTTCCTTTATTTTTT
27501264 TC
1 TC
27501266 CCAATATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTTTCTTTCCTTTATTTTTT
Found at i:27501248 original size:14 final size:14
Alignment explanation
Indices: 27501220--27501264 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
27501210 TCCTTAACTC
*
27501220 TTTTTCTTTC-CTT
1 TTTTTCTTTCTTTT
27501233 TTTTTCTTTCTTTT
1 TTTTTCTTTCTTTT
*
27501247 TTTTTCCTTTATTTT
1 TTTTT-CTTTCTTTT
27501262 TTT
1 TTT
27501265 CCCAATATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 10 0.36
14 7 0.25
15 11 0.39
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTCTTTT
Found at i:27501446 original size:12 final size:11
Alignment explanation
Indices: 27501424--27501450 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27501414 ACTTTCTTTG
27501424 TTTTCTTTTTT
1 TTTTCTTTTTT
27501435 TTTTCTTTTTT
1 TTTTCTTTTTT
27501446 TTTTC
1 TTTTC
27501451 AAACTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:27503261 original size:11 final size:9
Alignment explanation
Indices: 27503231--27503300 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
27503221 GTATTTGTCC
27503231 TTTCATTTT
1 TTTCATTTT
27503240 TTTCATATTT
1 TTTCAT-TTT
*
27503250 TAATCA-TTT
1 T-TTCATTTT
27503259 TTTC-TTTT
1 TTTCATTTT
27503267 TTT-ACTTTT
1 TTTCA-TTTT
*
27503276 TTTCTTTGTT
1 TTTCATT-TT
27503286 TTTCATTTT
1 TTTCATTTT
27503295 ATTTCA
1 -TTTCA
27503301 CTTCTGTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
8 8 0.16
9 21 0.43
10 17 0.35
11 3 0.06
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTCATTTT
Found at i:27503830 original size:10 final size:10
Alignment explanation
Indices: 27503815--27503880 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
27503805 AATCAAAAGT
27503815 TTTCTTTTTC
1 TTTCTTTTTC
27503825 TTTC-TTTTC
1 TTTCTTTTTC
*
27503834 -TTCTCTTTC
1 TTTCTTTTTC
*
27503843 ATTCTTTTAT-
1 TTTCTTTT-TC
*
27503853 TTTCTTTTTA
1 TTTCTTTTTC
*
27503863 TTTATTTTTC
1 TTTCTTTTTC
27503873 TTTTCTTT
1 -TTTCTTT
27503881 GCATTCTCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.07
9 10 0.22
10 25 0.56
11 7 0.16
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:27503858 original size:18 final size:18
Alignment explanation
Indices: 27503816--27503859 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27503806 ATCAAAAGTT
* * *
27503816 TTCTTTTTCTTTCTTTTC
1 TTCTCTTTCATTCTTTTA
27503834 TTCTCTTTCATTCTTTTA
1 TTCTCTTTCATTCTTTTA
*
27503852 TTTTCTTT
1 TTCTCTTT
27503860 TTATTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (18 bp):
TTCTCTTTCATTCTTTTA
Found at i:27504564 original size:14 final size:12
Alignment explanation
Indices: 27504539--27504581 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
27504529 AACAAAAAAA
27504539 CTTTTTTTCTCT
1 CTTTTTTTCTCT
**
27504551 CTTTTTTTAACT
1 CTTTTTTTCTCT
*
27504563 CTTTTCTTCT-T
1 CTTTTTTTCTCT
27504574 CTTTTTTT
1 CTTTTTTT
27504582 TCTTTTTAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTTTTCTCT
Found at i:27509472 original size:43 final size:43
Alignment explanation
Indices: 27509347--27509516 Score: 205
Period size: 43 Copynumber: 3.8 Consensus size: 43
27509337 TAAACTCTTT
* * * *
27509347 TAAATAGAGGCTCAACGATTTTTGCAAAATAAATAAATGAAGCTCCTC
1 TAAATAGAGGCTC-ATGACTTTTGAAAAATAAAT-AA-G--GCTTCTC
* *
27509395 TAAATAGAGGCTCAATAACTTTTGAAAAATAAATAAGGTTTCTC
1 TAAATAGAGGCTC-ATGACTTTTGAAAAATAAATAAGGCTTCTC
*
27509439 TAAACAGAGGCTCATGACTTTTGAAAAATAAATAAGGCTTCTC
1 TAAATAGAGGCTCATGACTTTTGAAAAATAAATAAGGCTTCTC
* *
27509482 TAAATAGAAGCTCATGACTTTTGAAAACTAAATAA
1 TAAATAGAGGCTCATGACTTTTGAAAAATAAATAA
27509517 AGTTCCTATA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
43 60 0.55
44 17 0.15
46 1 0.01
47 2 0.02
48 30 0.27
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (43 bp):
TAAATAGAGGCTCATGACTTTTGAAAAATAAATAAGGCTTCTC
Found at i:27509532 original size:43 final size:43
Alignment explanation
Indices: 27509377--27509533 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
27509367 TTTGCAAAAT
* * * *
27509377 AAATAAATGAAGCTCCTCTAAATAGAGGCTCAATAACTTTTGAA
1 AAATAAATAAAGTTCCTATAAATAGAGGCTC-ATGACTTTTGAA
* * * *
27509421 AAATAAATAAGGTTTCTCTAAACAGAGGCTCATGACTTTTGAA
1 AAATAAATAAAGTTCCTATAAATAGAGGCTCATGACTTTTGAA
* * *
27509464 AAATAAATAAGGCTT-CTCTAAATAGAAGCTCATGACTTTTGAA
1 AAATAAATAAAG-TTCCTATAAATAGAGGCTCATGACTTTTGAA
* *
27509507 AACTAAATAAAGTTCCTATACATAGAG
1 AAATAAATAAAGTTCCTATAAATAGAG
27509534 ACTTTTTTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
42 2 0.02
43 68 0.69
44 28 0.29
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (43 bp):
AAATAAATAAAGTTCCTATAAATAGAGGCTCATGACTTTTGAA
Found at i:27510618 original size:8 final size:8
Alignment explanation
Indices: 27510605--27510640 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
27510595 TTAAATACTC
27510605 TTTTTCAT
1 TTTTTCAT
27510613 TTTTTCAT
1 TTTTTCAT
27510621 TTTTTCAT
1 TTTTTCAT
27510629 TTTTTCAT
1 TTTTTCAT
27510637 TTTT
1 TTTT
27510641 AAGCATAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCAT
Found at i:27517754 original size:202 final size:201
Alignment explanation
Indices: 27517386--27517762 Score: 460
Period size: 202 Copynumber: 1.9 Consensus size: 201
27517376 ACAATCACTT
** * * *
27517386 TTATTAAATTTTCATCTAAATTATTCCATTATTTGGGACAAATTTAGAGAAATTCTTCACCTAGA
1 TTATTAAATTTTCATCTAAATTATTCCACCATTTGAGACAAATTTAAAAAAATTCTTCACCTAGA
* * * * * *
27517451 GATTTCTTAGGAAATTTACCATTTGAAATTTTTAAGAATCTCATCATTGGGTAATTAGTATTTAA
66 AATTTCTTAGAAAATTAACCATTTGAAATTTTTAAAAATCTCATCATTAGATAATTAGTATTTAA
* *
27517516 TTCTAAAATTTTTACTAAATTTTTGTCTTTTATTTTTATTTTTTTAAAATTGAAAATAAATTTTA
131 TTCTAAAATTTTTACTAAATTTTTATCTTTTATTTTT-TTTATTTAAAATTGAAAATAAATTTTA
27517581 ATTATTA
195 ATTATTA
*
27517588 TTATTGAAATTTT-ATCTAAATTATTCTACCATTTGAGACAAATTTAAAAAAATTTCTT-ACCTA
1 TTATT-AAATTTTCATCTAAATTATTCCACCATTTGAGACAAATTTAAAAAAA-TTCTTCACCTA
* * * * *
27517651 GAAAATTTTTTA-AAAATTAACCTTTTGTAATTTTTAAAAATTTCATCATTAGATAATTATTATT
64 G-AAATTTCTTAGAAAATTAACCATTTGAAATTTTTAAAAATCTCATCATTAGATAATTAGTATT
* *
27517715 T-ACTCTTAAAA-TTTTATTAAATTTTTAAT-TTTATATTTTTTTTATTTA
128 TAATTC-TAAAATTTTTACTAAATTTTT-ATCTTT-TATTTTTTTTATTTA
27517763 TTTTCTTTAA
Statistics
Matches: 148, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
201 27 0.18
202 101 0.68
203 20 0.14
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (201 bp):
TTATTAAATTTTCATCTAAATTATTCCACCATTTGAGACAAATTTAAAAAAATTCTTCACCTAGA
AATTTCTTAGAAAATTAACCATTTGAAATTTTTAAAAATCTCATCATTAGATAATTAGTATTTAA
TTCTAAAATTTTTACTAAATTTTTATCTTTTATTTTTTTTATTTAAAATTGAAAATAAATTTTAA
TTATTA
Found at i:27517828 original size:19 final size:18
Alignment explanation
Indices: 27517804--27517852 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
27517794 CATAATATTT
27517804 TAAAAATAAT-AACATAAAA
1 TAAAAA-AATAAACA-AAAA
27517823 TAAAAAAATAAACAAAAA
1 TAAAAAAATAAACAAAAA
**
27517841 TACCAAAATAAA
1 TAAAAAAATAAA
27517853 AGCAGCTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (18 bp):
TAAAAAAATAAACAAAAA
Found at i:27517832 original size:18 final size:19
Alignment explanation
Indices: 27517804--27517842 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27517794 CATAATATTT
27517804 TAAAAATAAT-AACATAAAA
1 TAAAAATAATAAACA-AAAA
27517823 TAAAAA-AATAAACAAAAA
1 TAAAAATAATAAACAAAAA
27517841 TA
1 TA
27517843 CCAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
TAAAAATAATAAACAAAAA
Found at i:27518783 original size:19 final size:19
Alignment explanation
Indices: 27518734--27518797 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
27518724 ACACCTTAAA
* *
27518734 TGAAACCCTAAACCCTAGG
1 TGAAACTCTAAACCCTAAG
*
27518753 T-AAAATCTTAAACCCTAAG
1 TGAAACTC-TAAACCCTAAG
* *
27518772 TGAAACTCTAAAGCCTTAG
1 TGAAACTCTAAACCCTAAG
27518791 TTGAAAC
1 -TGAAAC
27518798 CAAAATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
18 4 0.11
19 21 0.58
20 11 0.31
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (19 bp):
TGAAACTCTAAACCCTAAG
Found at i:27520253 original size:26 final size:25
Alignment explanation
Indices: 27520208--27520257 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
27520198 ATCTCTCATT
27520208 TTTTTCTCTTTTTTCCTTTTTTTTTC
1 TTTTTCTCTTTTTT-CTTTTTTTTTC
*
27520234 TTTTTCTCTATCTTT-TTTTTTTTT
1 TTTTTCTCT-TTTTTCTTTTTTTTT
27520258 GCATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTCTCTTTTTTCTTTTTTTTTC
Found at i:27526503 original size:33 final size:33
Alignment explanation
Indices: 27526442--27526887 Score: 234
Period size: 33 Copynumber: 14.0 Consensus size: 33
27526432 AAATAATCTG
* * * *
27526442 GCACC-AATAAAAATTTAAACCCAATTTAGCTG
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
* * *
27526474 GCTCATAATGAAAATTTAAGCTCAGTTTAGCTA
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
* * * * * * * *
27526507 ACACCTTATGCAAATTTAAGCCTAGATGATCCA
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
*
27526540 GCACC-AATGAAAATTTAAGCCCAAGTTTAGCTG
1 GCACCTAATGAAAATTTAAGCCC-AGTTTAGCTA
* *
27526573 GCACCTAATG-AAATTTAAACCCGGTTTAGCTA
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
* * *
27526605 GTACCCAAT-AAAATTTAAGCCTAGTTTAGCTA
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
** *
27526637 GCA-CTCAATGAAAATTTAAGTACAGTTTAGCTG
1 GCACCT-AATGAAAATTTAAGCCCAGTTTAGCTA
* * * *
27526670 GCACCCAATGAAAAATTGAAGCTCA-TATTATCTA
1 GCACCTAATG-AAAATTTAAGCCCAGT-TTAGCTA
* * * *
27526704 GCATC-AA-AAAAATTTAAGCCCAATTTAG-TT
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
** * ** *
27526734 GACACC-AAAAAAAATATAAG-CCA-AATAGCTG
1 G-CACCTAATGAAAATTTAAGCCCAGTTTAGCTA
* * *
27526765 GCACC-AATGAAAATTTAAGCTCAATTTAGCTT
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
* *
27526797 GCACC--AT---ATTTTAAGCCTAGTATTAGCTA
1 GCACCTAATGAAAATTTAAGCCCAGT-TTAGCTA
* * * *
27526826 GCATC-AA-G-AAGTCTTAAGCCCAGATTATCTA
1 GCACCTAATGAAAAT-TTAAGCCCAGTTTAGCTA
* *
27526857 GCA-CTAATGAAAATTTAAACCCAGTGTAGCT
1 GCACCTAATGAAAATTTAAGCCCAGTTTAGCT
27526888 GACATGCAAG
Statistics
Matches: 311, Mismatches: 80, Indels: 46
0.71 0.18 0.11
Matches are distributed among these distances:
28 10 0.03
29 10 0.03
30 22 0.07
31 43 0.14
32 100 0.32
33 101 0.32
34 25 0.08
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.28
Consensus pattern (33 bp):
GCACCTAATGAAAATTTAAGCCCAGTTTAGCTA
Found at i:27526563 original size:98 final size:98
Alignment explanation
Indices: 27526414--27526694 Score: 289
Period size: 98 Copynumber: 2.9 Consensus size: 98
27526404 TAACAGGCAT
* * * * * *
27526414 CCTATGCAAATTTAAG-TTAAATAATCTGGCACCAATAAAAATTTAAACCCAATTTAGCTGGCTC
1 CCTATGCAAATTTAAGCCTAGATAATCTAGCACCAATGAAAATTTAAGCCCAATTTAGCTGGCAC
*
27526478 ATAATGAAAATTTAAGCTCAGTTTAGCTAACAC
66 CTAATGAAAATTTAAGCTCAGTTTAGCTAACAC
* * *
27526511 CTTATGCAAATTTAAGCCTAGATGATCCAGCACCAATGAAAATTTAAGCCCAAGTTTAGCTGGCA
1 CCTATGCAAATTTAAGCCTAGATAATCTAGCACCAATGAAAATTTAAGCCCAA-TTTAGCTGGCA
* * * **
27526576 CCTAATG-AAATTTAAACCCGGTTTAGCTAGTAC
65 CCTAATGAAAATTTAAGCTCAGTTTAGCTAACAC
* * * * * ** *
27526609 CCAAT-AAAATTTAAGCCTAGTTTAGCTAGCACTCAATGAAAATTTAAGTACAGTTTAGCTGGCA
1 CCTATGCAAATTTAAGCCTAGATAATCTAGCAC-CAATGAAAATTTAAGCCCAATTTAGCTGGCA
* *
27526673 CCCAATGAAAAATTGAAGCTCA
65 CCTAATG-AAAATTTAAGCTCA
27526695 TATTATCTAG
Statistics
Matches: 149, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
97 54 0.36
98 70 0.47
99 25 0.17
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (98 bp):
CCTATGCAAATTTAAGCCTAGATAATCTAGCACCAATGAAAATTTAAGCCCAATTTAGCTGGCAC
CTAATGAAAATTTAAGCTCAGTTTAGCTAACAC
Found at i:27526619 original size:32 final size:33
Alignment explanation
Indices: 27526445--27526887 Score: 224
Period size: 32 Copynumber: 13.8 Consensus size: 33
27526435 TAATCTGGCA
* * * * *
27526445 CCAATAAAAATTTAAACCCAATTTAGCTGGCTC
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
** * *
27526478 ATAATGAAAATTTAAGCTCAGTTTAGCTAACAC
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
** * * * * * *
27526511 CTTATGCAAATTTAAGCCTAGATGATCCAGCA-
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
*
27526543 CCAATGAAAATTTAAGCCCAAGTTTAGCTGGCAC
1 CCAATGAAAATTTAAGCCC-AGTTTAGCTAGCAC
* * * *
27526577 CTAATG-AAATTTAAACCCGGTTTAGCTAGTAC
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
*
27526609 CCAAT-AAAATTTAAGCCTAGTTTAGCTAGCAC
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
* ** *
27526641 TCAATGAAAATTTAAGTACAGTTTAGCTGGCAC
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
* * *
27526674 CCAATGAAAAATTGAAGCTCA-TATTATCTAGCA-
1 CCAATG-AAAATTTAAGCCCAGT-TTAGCTAGCAC
* * * *
27526707 TCAA-AAAAATTTAAGCCCAATTTAG-TTG-AC
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
** * ** *
27526737 ACCAAAAAAAATATAAG-CCA-AATAGCTGGCA-
1 -CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
* * *
27526768 CCAATGAAAATTTAAGCTCAATTTAGCTTGCA-
1 CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
* *
27526800 CC-AT---ATTTTAAGCCTAGTATTAGCTAGCA-
1 CCAATGAAAATTTAAGCCCAGT-TTAGCTAGCAC
* * * *
27526829 TCAA-G-AAGTCTTAAGCCCAGATTATCTAGCA-
1 CCAATGAAAAT-TTAAGCCCAGTTTAGCTAGCAC
* * *
27526860 CTAATGAAAATTTAAACCCAGTGTAGCT
1 CCAATGAAAATTTAAGCCCAGTTTAGCT
27526888 GACATGCAAG
Statistics
Matches: 305, Mismatches: 84, Indels: 43
0.71 0.19 0.10
Matches are distributed among these distances:
28 10 0.03
29 11 0.04
30 19 0.06
31 40 0.13
32 101 0.33
33 100 0.33
34 24 0.08
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.28
Consensus pattern (33 bp):
CCAATGAAAATTTAAGCCCAGTTTAGCTAGCAC
Found at i:27526665 original size:65 final size:66
Alignment explanation
Indices: 27526452--27526683 Score: 188
Period size: 65 Copynumber: 3.5 Consensus size: 66
27526442 GCACCAATAA
* * * * ** * * *
27526452 AAATTTAAACCCAATTTAGCTGGCTCATAATGAAAATTTAAGCTC-AGTTTAGCTAACACCTTAT
1 AAATTTAAACACAGTTTAGCTAGCACCCAATGAAAATTTAAGCCCAAGTTTAGCTAGCACCTAAT
27526516 G
66 G
* * * * * *
27526517 CAAATTTAAGC-CTAGATGATCCAGCA-CCAATGAAAATTTAAGCCCAAGTTTAGCTGGCACCTA
1 -AAATTTAAACAC-AGTTTAGCTAGCACCCAATGAAAATTTAAGCCCAAGTTTAGCTAGCACCTA
27526580 ATG
64 ATG
* * * *
27526583 AAATTTAAACCCGGTTTAGCTAGTACCCAAT-AAAATTTAAG-CCTAGTTTAGCTAGCA-CTCAA
1 AAATTTAAACACAGTTTAGCTAGCACCCAATGAAAATTTAAGCCCAAGTTTAGCTAGCACCT-AA
27526645 TG
65 TG
** *
27526647 AAAATTTAAGTACAGTTTAGCTGGCACCCAATGAAAA
1 -AAATTTAAACACAGTTTAGCTAGCACCCAATGAAAA
27526684 ATTGAAGCTC
Statistics
Matches: 130, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
63 2 0.02
64 18 0.14
65 68 0.52
66 42 0.32
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (66 bp):
AAATTTAAACACAGTTTAGCTAGCACCCAATGAAAATTTAAGCCCAAGTTTAGCTAGCACCTAAT
G
Found at i:27526770 original size:30 final size:32
Alignment explanation
Indices: 27526709--27526795 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 32
27526699 ATCTAGCATC
* * *
27526709 AAAAAAATTTAAGCCCAATTTAGTTGACACCA
1 AAAAAAATATAAGCCCAATATAGCTGACACCA
*
27526741 AAAAAAATATAAG-CCAA-ATAGCTGGCACCA
1 AAAAAAATATAAGCCCAATATAGCTGACACCA
** * * *
27526771 ATGAAAATTTAAGCTCAATTTAGCT
1 AAAAAAATATAAGCCCAATATAGCT
27526796 TGCACCATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 20 0.45
31 7 0.16
32 17 0.39
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.24
Consensus pattern (32 bp):
AAAAAAATATAAGCCCAATATAGCTGACACCA
Found at i:27529467 original size:26 final size:26
Alignment explanation
Indices: 27529432--27529489 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
27529422 CATAAATTAC
27529432 TAAAACCCTAAATGAAA-CCTTAAAAT
1 TAAAACCCTAAATGAAATCC-TAAAAT
*
27529458 TAAAATCCTAAATGAAATCCTAAAAT
1 TAAAACCCTAAATGAAATCCTAAAAT
27529484 TAAAAC
1 TAAAAC
27529490 TATAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.24
Consensus pattern (26 bp):
TAAAACCCTAAATGAAATCCTAAAAT
Found at i:27529470 original size:13 final size:14
Alignment explanation
Indices: 27529452--27529488 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
27529442 AATGAAACCT
27529452 TAAAATTAAAATCC
1 TAAAATTAAAATCC
*
27529466 T-AAA-TGAAATCC
1 TAAAATTAAAATCC
27529478 TAAAATTAAAA
1 TAAAATTAAAA
27529489 CTATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
12 8 0.42
13 6 0.32
14 5 0.26
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (14 bp):
TAAAATTAAAATCC
Found at i:27529495 original size:26 final size:26
Alignment explanation
Indices: 27529440--27529502 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
27529430 ACTAAAACCC
*
27529440 TAAATGAAACCTTAAAATTAAAATCC
1 TAAATGAAACCTTAAAATTAAAATCA
27529466 TAAATGAAATCC-TAAAATTAAAA-CTA
1 TAAATGAAA-CCTTAAAATTAAAATC-A
*
27529492 TAAATAAAACC
1 TAAATGAAACC
27529503 CAAGACCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 3 0.09
26 28 0.85
27 2 0.06
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (26 bp):
TAAATGAAACCTTAAAATTAAAATCA
Found at i:27532237 original size:21 final size:21
Alignment explanation
Indices: 27532211--27532256 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
27532201 TTCAAATATG
*
27532211 AAAAATGATAAAATGGAATGT
1 AAAAATGATAAAATGGAATGC
* *
27532232 AAAAATGATCAAATGTAATGC
1 AAAAATGATAAAATGGAATGC
27532253 AAAA
1 AAAA
27532257 GGTATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAAATGATAAAATGGAATGC
Found at i:27532456 original size:18 final size:18
Alignment explanation
Indices: 27532433--27532486 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
27532423 ACAAAGAAAT
*
27532433 AAAATTTTTCTTTTTTTG
1 AAAATTTTTCTTTTTTTC
27532451 AAAATTTTTTCCTTTTATTTC
1 AAAA-TTTTT-CTTTT-TTTC
27532472 AAAA--TTTCTTTTTTT
1 AAAATTTTTCTTTTTTT
27532487 ATTTTTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 3 0.09
17 5 0.16
18 7 0.22
19 5 0.16
20 5 0.16
21 7 0.22
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (18 bp):
AAAATTTTTCTTTTTTTC
Found at i:27532465 original size:20 final size:20
Alignment explanation
Indices: 27532433--27532490 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
27532423 ACAAAGAAAT
*
27532433 AAAA-TTTTTCTTTT-TTTG
1 AAAATTTTTTCTTTTATTTC
27532451 AAAATTTTTTCCTTTTATTTC
1 AAAATTTTTT-CTTTTATTTC
27532472 AAAATTTCTTT-TTTTATTT
1 AAAATTT-TTTCTTTTATTT
27532491 TTTTGAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 13 0.37
21 10 0.29
22 3 0.09
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
AAAATTTTTTCTTTTATTTC
Found at i:27535025 original size:30 final size:32
Alignment explanation
Indices: 27534961--27535018 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
27534951 AATTCGATAT
27534961 TTACATAAGTTAATAAGTTAATATGAAAAAAA
1 TTACATAAGTTAATAAGTTAATATGAAAAAAA
*
27534993 TTACAT-AGTTAGTAA-TTAATAT-AAAA
1 TTACATAAGTTAATAAGTTAATATGAAAA
27535019 TCAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 7 0.28
31 8 0.32
32 6 0.24
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (32 bp):
TTACATAAGTTAATAAGTTAATATGAAAAAAA
Found at i:27535402 original size:21 final size:22
Alignment explanation
Indices: 27535378--27535420 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27535368 TATACTTAAA
*
27535378 TAATTTATAAATT-TTAATAAT
1 TAATTTATAAATTATAAATAAT
*
27535399 TAATTTGTAAATTATAAATAAT
1 TAATTTATAAATTATAAATAAT
27535421 ATATACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATTTATAAATTATAAATAAT
Found at i:27537538 original size:6 final size:6
Alignment explanation
Indices: 27537527--27537559 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27537517 CTTGCTGAGG
27537527 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
27537560 CTTTCTGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:27542199 original size:11 final size:11
Alignment explanation
Indices: 27542183--27542208 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27542173 TTTATATGGA
27542183 TCCTCTCAATC
1 TCCTCTCAATC
27542194 TCCTCTCAATC
1 TCCTCTCAATC
27542205 TCCT
1 TCCT
27542209 TTAATCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (11 bp):
TCCTCTCAATC
Found at i:27547417 original size:21 final size:20
Alignment explanation
Indices: 27547383--27547421 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27547373 TTGAAAATAA
* *
27547383 TATTAAGTTGAATTCTTTATC
1 TATTAACTTAAATT-TTTATC
27547404 TATTAACTTAAATTTTTA
1 TATTAACTTAAATTTTTA
27547422 AGGCAATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
TATTAACTTAAATTTTTATC
Found at i:27548715 original size:46 final size:46
Alignment explanation
Indices: 27548610--27548701 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
27548600 TGTAATTTTT
*
27548610 AATTATAAGAATAACTTCATCAATCAAATAATGAAAATTTTTTAAG
1 AATTATAAGAATAACTTCATCAATAAAATAATGAAAATTTTTTAAG
*
27548656 AATTATAAGAATAACTTCATCAATAAAATAATGAAATTTTTTTAAG
1 AATTATAAGAATAACTTCATCAATAAAATAATGAAAATTTTTTAAG
27548702 TATAAAGCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.36
Consensus pattern (46 bp):
AATTATAAGAATAACTTCATCAATAAAATAATGAAAATTTTTTAAG
Found at i:27552944 original size:2 final size:2
Alignment explanation
Indices: 27552937--27552971 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
27552927 CATACATACA
* *
27552937 TG TG TG TG TG TG TG TG TG TG TG TA TA TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27552972 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.06, C:0.00, G:0.43, T:0.51
Consensus pattern (2 bp):
TG
Found at i:27552952 original size:12 final size:12
Alignment explanation
Indices: 27552936--27552973 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
27552926 ACATACATAC
27552936 ATGTGTGTGTGT
1 ATGTGTGTGTGT
*
27552948 GTGTGTGTGTGT
1 ATGTGTGTGTGT
*
27552960 ATATGTGTGTGT
1 ATGTGTGTGTGT
27552972 AT
1 AT
27552974 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (12 bp):
ATGTGTGTGTGT
Found at i:27574733 original size:15 final size:16
Alignment explanation
Indices: 27574706--27574735 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27574696 AAAAAAATAA
27574706 TTTTTATATTTTTAAG
1 TTTTTATATTTTTAAG
27574722 TTTTTAT-TTTTTAA
1 TTTTTATATTTTTAA
27574736 AAAATTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTATATTTTTAAG
Found at i:27575077 original size:24 final size:23
Alignment explanation
Indices: 27575046--27575110 Score: 88
Period size: 21 Copynumber: 3.1 Consensus size: 23
27575036 GATCCAATCA
27575046 AAATATAATAAAATATTATTTTT
1 AAATATAATAAAATATTATTTTT
27575069 AAA-AT-ATAAAATATTATTTTT
1 AAATATAATAAAATATTATTTTT
27575090 -AATATAAT---ATATTATTTTT
1 AAATATAATAAAATATTATTTTT
27575109 AA
1 AA
27575111 TGTAAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 11 0.28
20 3 0.08
21 18 0.46
22 4 0.10
23 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATAATAAAATATTATTTTT
Found at i:27575079 original size:21 final size:21
Alignment explanation
Indices: 27575053--27575110 Score: 93
Period size: 19 Copynumber: 2.9 Consensus size: 21
27575043 TCAAAATATA
27575053 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
27575074 ATAAAATATTATTTTT--AAT
1 ATAAAATATTATTTTTAAAAT
*
27575093 ATAATATATTATTTTTAA
1 ATAAAATATTATTTTTAA
27575111 TGTAAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:27575829 original size:14 final size:15
Alignment explanation
Indices: 27575790--27575829 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
27575780 TAAACAATAA
27575790 AATAATATTATTTTT
1 AATAATATTATTTTT
27575805 AAT-ATGA-TATTTTT
1 AATAAT-ATTATTTTT
27575819 AATAAT-TTATT
1 AATAATATTATT
27575830 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATAATATTATTTTT
Found at i:27576056 original size:43 final size:45
Alignment explanation
Indices: 27575973--27576065 Score: 102
Period size: 43 Copynumber: 2.1 Consensus size: 45
27575963 TAATGCTATA
* * * *
27575973 AATATTTTAATAATAATATTACTCTTTTAATATTAATAAAA-A-T
1 AATATCTTAAGAATAATACTACTATTTTAATATTAATAAAATATT
* *
27576016 AATATCTTAAGAATAGTACTACTATTTTAAATATT-TTAAAATATT
1 AATATCTTAAGAATAATACTACTATTTT-AATATTAATAAAATATT
27576061 AATAT
1 AATAT
27576066 AAAAATAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
43 28 0.68
44 7 0.17
45 6 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (45 bp):
AATATCTTAAGAATAATACTACTATTTTAATATTAATAAAATATT
Found at i:27576167 original size:20 final size:20
Alignment explanation
Indices: 27576100--27576164 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
27576090 AAGTATTGTT
*
27576100 ATATTAATATAATATTTT-A
1 ATATTAATATATTATTTTAA
27576119 ATATTAA-ATATTATTATTAA
1 ATATTAATATATTATT-TTAA
27576139 A-ATT--TA-ATTATTCTTAA
1 ATATTAATATATTATT-TTAA
27576156 ATATTAATA
1 ATATTAATA
27576165 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 11 0.29
18 11 0.29
19 12 0.32
20 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATATATTATTTTAA
Found at i:27577979 original size:59 final size:59
Alignment explanation
Indices: 27577907--27578020 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
27577897 TAAAAAAAAA
* *
27577907 TTGAATATCCAAGATCAACATT-ATATTTTAGTTATATACATTTATACTCCAAGCCTATT
1 TTGAATATCCAAGACCAAC-TTCATATTTTAGTTATATACATATATACTCCAAGCCTATT
* * *
27577966 TTGAATATCCAAGACCAGCTTCATATTTTAGTTGTATACATATGTACTCCAAGCC
1 TTGAATATCCAAGACCAACTTCATATTTTAGTTATATACATATATACTCCAAGCC
27578021 CAATTTTCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
58 2 0.04
59 47 0.96
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (59 bp):
TTGAATATCCAAGACCAACTTCATATTTTAGTTATATACATATATACTCCAAGCCTATT
Found at i:27581079 original size:14 final size:16
Alignment explanation
Indices: 27581047--27581078 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
27581037 CTTTCGATTA
27581047 TTATATTAAAATTTTT
1 TTATATTAAAATTTTT
27581063 TTAT-TTAAAATTTTT
1 TTATATTAAAATTTTT
27581078 T
1 T
27581079 AATAATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATATTAAAATTTTT
Found at i:27583467 original size:227 final size:236
Alignment explanation
Indices: 27582919--27583563 Score: 772
Period size: 250 Copynumber: 2.7 Consensus size: 236
27582909 TTTTTTTTAC
* * *
27582919 ATTCTTTTATGAAATATATTTAAAAGCTAAAAATAAT-ATAAGGATTATTTATAAAAAATATTAA
1 ATTCCTTTGTGAAATATATTTAAAA---AAAAATAATGA-AAGAATTATTTATAAAAAATATTAA
* *
27582983 AGATATTAAATAATACTTTTAAAAGTTGTGATAAATTTAAATACTCATATTAACTATAAATAAAT
62 AGATATTAAATAATATTTTTAAAAATTGTGATAAATTTAAATACTCATATTAACTATAAATAAAT
* * * * **
27583048 TGAAAAAGATAAA-TAGCTTTAAAATTAATTTTAAATTGATATGAGGTGATATAAAATAGAAATT
127 TGAAAAAGATAAATTA-TTTTAAAATTAATTTTAAATTGAAATGAGGTGATACAAAAGAGAAAAC
* * * *
27583112 TGATATACAGGAGAAACTATTCTGAAATTGTTTTGGTATATATATATATTTTTTCAC
191 T-ATATAC-------ACTA-TC--AAATTGTTATGGTATATATATATATGTTTTAAA
** * * * **
27583169 ATTTTTTTGTGAAATGTATTTAAAAACTGAAGATAATGAAAGAATTATTTATAAAAACTATCGAA
1 ATTCCTTTGTGAAATATATTTAAAAA---AAAATAATGAAAGAATTATTTATAAAAAATATTAAA
27583234 GATATTAAATAATATTTTTAAAAATTGTGATAAATTTAAATACTCATATTAACTATAAATAAATT
63 GATATTAAATAATATTTTTAAAAATTGTGATAAATTTAAATACTCATATTAACTATAAATAAATT
* *
27583299 AAAAAAGATAAATTATTTTAAAATTAGTTTTAAATTGAAATGAGGTGATACAAAAGA-AAAACT-
128 GAAAAAGATAAATTATTTTAAAATTAATTTTAAATTGAAATGAGGTGATACAAAAGAGAAAACTA
*
27583362 T-T-C-CTA-C-ACTTGTTATGGTAT-T-TATATATGTTTTAAA
193 TATACACTATCAAATTGTTATGGTATATATATATATGTTTTAAA
* *
27583399 TTTCCTTTGTGAAATATATTTAAAAAAAAATAATGCAAGAATTATTTATAAAAAATATTAAAGAT
1 ATTCCTTTGTGAAATATATTTAAAAAAAAATAATGAAAGAATTATTTATAAAAAATATTAAAGAT
* * *
27583464 ATTAAATAATATTTTTAAAAATTGTGATAAATATAAATACTCATATTAACTCTAGATAAATTGAA
66 ATTAAATAATATTTTTAAAAATTGTGATAAATTTAAATACTCATATTAACTATAAATAAATTGAA
27583529 AAAGATAAATTATTTTAAAATTAATTTTAAATTGA
131 AAAGATAAATTATTTTAAAATTAATTTTAAATTGA
27583564 GACAAAGTGA
Statistics
Matches: 353, Mismatches: 37, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
227 129 0.37
230 34 0.10
231 1 0.00
232 12 0.03
235 1 0.00
237 3 0.01
245 1 0.00
246 1 0.00
247 2 0.01
249 4 0.01
250 162 0.46
251 3 0.01
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (236 bp):
ATTCCTTTGTGAAATATATTTAAAAAAAAATAATGAAAGAATTATTTATAAAAAATATTAAAGAT
ATTAAATAATATTTTTAAAAATTGTGATAAATTTAAATACTCATATTAACTATAAATAAATTGAA
AAAGATAAATTATTTTAAAATTAATTTTAAATTGAAATGAGGTGATACAAAAGAGAAAACTATAT
ACACTATCAAATTGTTATGGTATATATATATATGTTTTAAA
Found at i:27585429 original size:11 final size:12
Alignment explanation
Indices: 27585408--27585440 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
27585398 TAGATCTACC
27585408 ATTTGTATATTT
1 ATTTGTATATTT
27585420 ATTT-TATATTT
1 ATTTGTATATTT
27585431 ATTTGGTATA
1 ATTT-GTATA
27585441 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 4 0.21
13 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
ATTTGTATATTT
Found at i:27585720 original size:3 final size:3
Alignment explanation
Indices: 27585712--27585753 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
27585702 ATGGTGCTAG
27585712 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27585754 AAGACTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:27588783 original size:24 final size:25
Alignment explanation
Indices: 27588754--27588807 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
27588744 TTGTGGCAAA
27588754 ATAAC-ACTAAACAGGATGATTAGC
1 ATAACAACTAAACAGGATGATTAGC
27588778 ATAACAATACTAAACAGGATGATTAGC
1 ATAAC-A-ACTAAACAGGATGATTAGC
27588805 ATA
1 ATA
27588808 TTTAAACCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 5 0.19
27 22 0.81
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (25 bp):
ATAACAACTAAACAGGATGATTAGC
Found at i:27589914 original size:19 final size:20
Alignment explanation
Indices: 27589878--27589915 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27589868 GCCTTGAGGT
*
27589878 TTAAAAAAGAATTAATAAAA
1 TTAAAAAAGAACTAATAAAA
*
27589898 TTAAAAATGAACT-ATAAA
1 TTAAAAAAGAACTAATAAA
27589916 CTTTTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
TTAAAAAAGAACTAATAAAA
Found at i:27600325 original size:31 final size:32
Alignment explanation
Indices: 27600287--27600351 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
27600277 TTGATTTAAT
27600287 AAAGTTGATTATTTTATTTTAT-TTTATAAAA
1 AAAGTTGATTATTTTATTTTATATTTATAAAA
* * *
27600318 AAAGTTGATTATTTTGTTTTTTATTTATTAAA
1 AAAGTTGATTATTTTATTTTATATTTATAAAA
27600350 AA
1 AA
27600352 TATAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (32 bp):
AAAGTTGATTATTTTATTTTATATTTATAAAA
Found at i:27601176 original size:2 final size:2
Alignment explanation
Indices: 27601169--27601193 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27601159 CATCTTCGGA
27601169 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27601194 ACAATTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27601796 original size:23 final size:23
Alignment explanation
Indices: 27601753--27601796 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
27601743 TTGATTTATA
*
27601753 CATATATTTTTTGTTTTTAATAT
1 CATATATTTTTTCTTTTTAATAT
27601776 CATA-ATTTTTTCTTTTATAAT
1 CATATATTTTTTCTTTT-TAAT
27601797 TATTTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (23 bp):
CATATATTTTTTCTTTTTAATAT
Found at i:27604784 original size:2 final size:2
Alignment explanation
Indices: 27604777--27604824 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
27604767 AGATGCTGAG
27604777 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
27604819 AT AT AT
1 AT AT AT
27604825 TCCTAGCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27622330 original size:547 final size:547
Alignment explanation
Indices: 27621031--27623247 Score: 3718
Period size: 547 Copynumber: 4.0 Consensus size: 547
27621021 TGGTGAAATG
27621031 CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
1 CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
* *
27621096 TTATGTGCGATTATTTATATTTAAGATCTCATTTTATTAGTATACTTTTATTATTAATTATGGAT
66 TTATGTGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
* * *
27621161 CTCATTGTTAAAACGAATTAAGAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
131 CCCATTATTAAAACGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
*
27621226 CCCATCATCTAGGCGTCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
196 CCCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
27621291 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
261 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
27621356 GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
326 GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
* *
27621421 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATTTCTAACATCTAGGCAGA
391 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATCTCTAACATCTAGGCGGA
* *
27621486 CTTTCGGAGTAAGTTCTATTTTTTTTATCATTTTTCAAAAATTAATTTTAAAAAATCTCTCTTTT
456 CTTTCGGAGCAAGTTCTA-TTTTTTTATCATTTTTCAAAAATTAATTTAAAAAAATCTCTCTTTT
* *
27621551 TTTTAATGAAAGTTTGTTATTAAAACAT
520 TTTTAATGAAAATTTATTATTAAAACAT
* *
27621579 CAATTTAAAAAATGGATTCTTAAATACAATGAGATCACTTTGATTCTCCAACATCTAGGTAGAGC
1 CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
* * *
27621644 TTATGTACGATTATTTTTATTTAAGATCACATTTTATTAGTATACTTTTATTATTAATTATTGAT
66 TTATGTGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
* *
27621709 CACATTATTAAAGCGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
131 CCCATTATTAAAACGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
*
27621774 CTCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
196 CCCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
27621839 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
261 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
* *
27621904 AGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAACTTTAGGTT
326 GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
27621969 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATCTCTAACATCTAGGCGGA
391 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATCTCTAACATCTAGGCGGA
* * *
27622034 TTTTCAGAGCAAGTTTTATTTTTTTATCATTTTTCAAAAATTAATTTAAAAAAATCTCTCTTTTT
456 CTTTCGGAGCAAGTTCTATTTTTTTATCATTTTTCAAAAATTAATTTAAAAAAATCTCTCTTTTT
*
27622099 TTTAATGAAAGTTTATTATTAAAACAT
521 TTTAATGAAAATTTATTATTAAAACAT
27622126 CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
1 CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
*
27622191 TTATATGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
66 TTATGTGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
**
27622256 CCCATTATTAAAGTGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
131 CCCATTATTAAAACGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
*
27622321 CCCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTAAGATTTTCACACGTATCTTTAAA
196 CCCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
*
27622386 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTGATCTTAGACTTTTAAAATTTTGGGTTTA
261 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
*
27622451 GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGAT
326 GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
*
27622516 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATCTCTAACATCTAGGCGAA
391 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATCTCTAACATCTAGGCGGA
* *
27622581 TTTTTGGAGCAAGTTCTATTTTTTTTTATCATTTTTCAAAAATTAATTTAAAAAAAATCTCTCTT
456 CTTTCGGAGCAAGTTCTA--TTTTTTTATCATTTTTCAAAAATTAATTT-AAAAAAATCTCTCTT
27622646 TTTTTTAATGAAAATTTATTATTAAAACAT
518 TTTTTTAATGAAAATTTATTATTAAAACAT
*
27622676 CAATTTTAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
1 CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
27622741 TTATGTGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
66 TTATGTGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
* *
27622806 CCCATTGTTAAAACGAATTAAGAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
131 CCCATTATTAAAACGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
* * *** ** * *
27622871 CCAATCATTTAGGCATTATTCGAAAATAAATTACTCCACTTGAGATTTTTGCATGTTTCTTTAAA
196 CCCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
* * *
27622936 GTTTTGAAATGATTTTGAGTATAAGTTTAGGTTTTTGATCTTAGACTTTTAAAATTTTGGGTTTA
261 GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
*
27623001 GGTTTCGAAGGTTTTGGGATTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
326 GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
*
27623066 TTGGTTTTAATTTTTTTGACTTTTAAAACTCGAACATCTCTAAAAATCTCGAATATCTCTAAAAA
391 TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCT---AA-----AA-A--TC------
* *
27623131 TCTCCAACATCTAGGTGGACTTTCGGAGCAAATTCTA-TTTTTTATCATTTTTCAAAAATTAATT
439 TCT--AACATCTAGGCGGACTTTCGGAGCAAGTTCTATTTTTTTATCATTTTTCAAAAATTAA-T
27623195 TTAAAAAAATCTCTC-TTTTTTTAATGAAAATTTATTATTAAAACAT
501 TTAAAAAAATCTCTCTTTTTTTTAATGAAAATTTATTATTAAAACAT
27623241 CAATTTA
1 CAATTTA
27623248 TTATTATTAT
Statistics
Matches: 1578, Mismatches: 68, Indels: 29
0.94 0.04 0.02
Matches are distributed among these distances:
547 527 0.33
548 453 0.29
549 29 0.02
550 454 0.29
553 2 0.00
558 2 0.00
559 1 0.00
561 2 0.00
565 37 0.02
566 38 0.02
567 6 0.00
569 27 0.02
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (547 bp):
CAATTTAAAAAATGGATTCTTAAATATAATGAGATCACCTTGATTCTCCAACATCTAGGTAGAGC
TTATGTGCGATTATTTATATTTAAGATCCCATTTTATTAGTATACTTTTATTATTAATTATTGAT
CCCATTATTAAAACGAATTAAAAGCTCATGAGAAAAACTTAATGGAATAAGATTTCTTTAAATAC
CCCATCATCTAGGCGCCATTCGAAAATAAATTACTCCACTTGAGATTTTCACACGTATCTTTAAA
GTTTTGAAATGGTTTTGAGTATAGGTTTAGGTTTTTCATCTTAGACTTTTAAAATTTTGGGTTTA
GGTTTCGAAGGTTTTGGGGTTTGGATTTTAGGGATTTTGATTTAAGGGTTTTAAAATTTTAGGTT
TTGGTTTTAATTTTTTTGAATTTTAAAACTCGAACATCTCTAAAAATCTCTAACATCTAGGCGGA
CTTTCGGAGCAAGTTCTATTTTTTTATCATTTTTCAAAAATTAATTTAAAAAAATCTCTCTTTTT
TTTAATGAAAATTTATTATTAAAACAT
Found at i:27623118 original size:19 final size:19
Alignment explanation
Indices: 27623090--27623142 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
27623080 TTTGACTTTT
27623090 AAAA-CTCGAACATCTCTA
1 AAAATCTCGAACATCTCTA
*
27623108 AAAATCTCGAATATCTCTA
1 AAAATCTCGAACATCTCTA
*
27623127 AAAATCTCCAACATCT
1 AAAATCTCGAACATCT
27623143 AGGTGGACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 4 0.13
19 27 0.87
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATCTCGAACATCTCTA
Found at i:27623251 original size:3 final size:3
Alignment explanation
Indices: 27623245--27623283 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
27623235 AAACATCAAT
27623245 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27623284 CTTTTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27623381 original size:3 final size:3
Alignment explanation
Indices: 27623373--27623420 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
27623363 AAAATAAAAA
* *
27623373 ATT ATT ATT -TT ATT CTT ATT ATT ATT ATT TTT GATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
27623418 ATT
1 ATT
27623421 TAAGCATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:27623411 original size:16 final size:15
Alignment explanation
Indices: 27623374--27623417 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
27623364 AAATAAAAAA
27623374 TTATTATT-TTATTC
1 TTATTATTATTATTC
*
27623388 TTATTATTATTATTT
1 TTATTATTATTATTC
27623403 TTGATTATTATTATT
1 TT-ATTATTATTATT
27623418 ATTTAAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 8 0.30
15 7 0.26
16 12 0.44
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (15 bp):
TTATTATTATTATTC
Found at i:27623412 original size:19 final size:20
Alignment explanation
Indices: 27623373--27623421 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
27623363 AAAATAAAAA
**
27623373 ATTATTATTTTATTCTTATT
1 ATTATTATTTTATGATTATT
27623393 ATTATTATTTT-TGATTATT
1 ATTATTATTTTATGATTATT
27623412 ATTATTATTT
1 ATTATTATTT
27623422 AAGCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTATTATTTTATGATTATT
Found at i:27625058 original size:37 final size:36
Alignment explanation
Indices: 27624999--27625147 Score: 102
Period size: 37 Copynumber: 4.1 Consensus size: 36
27624989 TAAAGAAAAT
* **
27624999 GACTAGGATGACACCATGAGTCGAAAAATAAAGAATC
1 GACT-GGATAACACCACAAGTCGAAAAATAAAGAATC
* **
27625036 GACCTGGATAACACCACAAGTCGAGAAATATGGAATC
1 GA-CTGGATAACACCACAAGTCGAAAAATAAAGAATC
** * **** * *
27625073 GATCAAGACAACATTGTAAGTCGATAAATAAAGAATT
1 GA-CTGGATAACACCACAAGTCGAAAAATAAAGAATC
* *
27625110 GACTGGAATAACACCACGAGTC-AAAATTAAAGAATC
1 GACTGG-ATAACACCACAAGTCGAAAAATAAAGAATC
27625146 GA
1 GA
27625148 TCGGGACAAC
Statistics
Matches: 81, Mismatches: 29, Indels: 5
0.70 0.25 0.04
Matches are distributed among these distances:
36 15 0.19
37 64 0.79
38 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (36 bp):
GACTGGATAACACCACAAGTCGAAAAATAAAGAATC
Found at i:27625243 original size:22 final size:21
Alignment explanation
Indices: 27625168--27625255 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 21
27625158 ACCGCGAATC
* *
27625168 AAAATTATGCCTAGAGATCTTA
1 AAAATTATG-TTAGAGGTCTTA
**
27625190 AAAATTATGTCCGTAGGTCTTA
1 AAAATTATGTTAG-AGGTCTTA
*
27625212 AAAATAATGTTAGGAGGTCTTA
1 AAAATTATGTTA-GAGGTCTTA
27625234 AAAATTATGTTCAGAGGTCTTA
1 AAAATTATGTT-AGAGGTCTTA
27625256 CAGAATTGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
21 1 0.02
22 52 0.95
23 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (21 bp):
AAAATTATGTTAGAGGTCTTA
Found at i:27625484 original size:132 final size:131
Alignment explanation
Indices: 27625226--27626025 Score: 790
Period size: 132 Copynumber: 6.1 Consensus size: 131
27625216 TAATGTTAGG
* * * * ** * *
27625226 AGGTCTTAAAAATTATGTTCAGAGGTCTTACAGAATTGATTGGGATAACACTGTAAGTCAAAAAA
1 AGGTCTTAAAAATCATG-CCGGAGGTCTTACAGAATCGACCGAGATAACACCGTAAGTCAAAAAA
* * * *
27625291 TAAAAAAATCGATCAGG-ATAACATCGCGAATCAAAATTATGCTAAGAGGTCTTAAAAATTATGC
65 T-AAAGAATCGATC-GGAACAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAGATTATGC
* *
27625355 TTGT
128 CTGA
* * * * *
27625359 AGGTTTTAAAAATCATGCCTGGAGGACTTATAGAATTGACCGAGATAATACCGTAAGTCAAAAAA
1 AGGTCTTAAAAATCATGCC-GGAGGTCTTACAGAATCGACCGAGATAACACCGTAAGTCAAAAAA
* * ** *
27625424 TAAAGAATCGATTGGGACAACATCGTAAATCAAAATTATGTTCAGAGGTCTTAAAGATTATGCCT
65 TAAAGAATCGATCGGAACAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAGATTATGCCT
*
27625489 AA
130 GA
* ** * * * * *
27625491 AGGTCTTAAAAATAATGCCCAAAGATCTTACAGATTCGACCGAGATAATATCGCAAGTCAAAAAA
1 AGGTCTTAAAAATCATG-CCGGAGGTCTTACAGAATCGACCGAGATAACACCGTAAGTCAAAAAA
* * * *
27625556 TAAAGAATCGATCGAAACAATATCACGAATCAAAATTATGCTC-GAAAGTCTTAAAGATTATGCC
65 TAAAGAATCGATCGGAACAACATCGCGAATCAAAATTATGCTCAG-AGGTCTTAAAGATTATGCC
*
27625620 TGG
129 TGA
* * *
27625623 AGGTCTTAGAAATCATGCTTGGAGGTCTTACAGAATCGACC-AGGATAACATCGTAAGTCAAAAA
1 AGGTCTTAAAAATCATGC-CGGAGGTCTTACAGAATCGACCGA-GATAACACCGTAAGTCAAAAA
** * * *
27625687 ATAAAGAATCGATAAGAACAATACCGTGAATCAAAATTATGCAT-AGAGGTCTTAAAGATTATGC
64 ATAAAGAATCGATCGGAACAACATCGCGAATCAAAATTATGC-TCAGAGGTCTTAAAGATTATGC
27625751 CTGA
128 CTGA
** * *
27625755 AGGTCTTAAAAATCATGTCC-GAGGTCTTACAGAATCGATGGGGATAACACCGTAAGTCACAAAA
1 AGGTCTTAAAAATCATG-CCGGAGGTCTTACAGAATCGACCGAGATAACACCGTAAGTCAAAAAA
* * * * *
27625819 TAAAGAATCGATCGAAACAATA-CTGCGAATCAAAATTATGC-CTTGAGGTCTTAAGGATTATTC
65 TAAAGAATCGATCGGAACAACATC-GCGAATCAAAATTATGCTC-AGAGGTCTTAAAGATTATGC
*
27625882 CTAA
128 CTGA
* * * * * *
27625886 AGATCTTAGAAATCATGTCCAGAGGTCTTACAGAATCAACCGGGATAACACCTTAAGTCAAAAAA
1 AGGTCTTAAAAATCATG-CCGGAGGTCTTACAGAATCGACCGAGATAACACCGTAAGTCAAAAAA
* * * * * *
27625951 TAAAGAATCGATCTTG-ACAACACCGCAAATCAAAATTATGCCCGGAGGTCTTAAAGATTAT-AC
65 TAAAGAATCGATC-GGAACAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAGATTATGCC
27626014 TCGA
129 T-GA
27626018 AGGTCTTA
1 AGGTCTTA
27626026 TAGAATTGAC
Statistics
Matches: 557, Mismatches: 92, Indels: 37
0.81 0.13 0.05
Matches are distributed among these distances:
130 1 0.00
131 118 0.21
132 378 0.68
133 60 0.11
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (131 bp):
AGGTCTTAAAAATCATGCCGGAGGTCTTACAGAATCGACCGAGATAACACCGTAAGTCAAAAAAT
AAAGAATCGATCGGAACAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAGATTATGCCTG
A
Found at i:27625494 original size:22 final size:22
Alignment explanation
Indices: 27625469--27625526 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
27625459 TTATGTTCAG
*
27625469 AGGTCTTAAAGATTATGCCTAA
1 AGGTCTTAAAGATTATGCCCAA
* *
27625491 AGGTCTTAAAAATAATGCCCAA
1 AGGTCTTAAAGATTATGCCCAA
* *
27625513 AGATCTTACAGATT
1 AGGTCTTAAAGATT
27625527 CGACCGAGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (22 bp):
AGGTCTTAAAGATTATGCCCAA
Found at i:27625750 original size:22 final size:22
Alignment explanation
Indices: 27625722--27625764 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27625712 GTGAATCAAA
27625722 ATTATGCAT-AGAGGTCTTAAAG
1 ATTATGCATGA-AGGTCTTAAAG
*
27625744 ATTATGCCTGAAGGTCTTAAA
1 ATTATGCATGAAGGTCTTAAA
27625765 AATCATGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (22 bp):
ATTATGCATGAAGGTCTTAAAG
Found at i:27625781 original size:21 final size:21
Alignment explanation
Indices: 27625732--27625783 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
27625722 ATTATGCATA
* *
27625732 GAGGTCTTAAAGATTATGCCT
1 GAGGTCTTAAAAATCATGCCT
27625753 GAAGGTCTTAAAAATCATGTCC-
1 G-AGGTCTTAAAAATCATG-CCT
27625775 GAGGTCTTA
1 GAGGTCTTA
27625784 CAGAATCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 16 0.59
23 2 0.07
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (21 bp):
GAGGTCTTAAAAATCATGCCT
Found at i:27625913 original size:263 final size:259
Alignment explanation
Indices: 27625226--27626025 Score: 883
Period size: 263 Copynumber: 3.0 Consensus size: 259
27625216 TAATGTTAGG
* * * * *
27625226 AGGTCTTAAAAATTATGTTCAGAGGTCTTACAGAATTGATTGGGATAACACTGTAAGTCAAAAAA
1 AGGTCTTAAAAATAATG-TCCGAGGTCTTACAGAATCGATCGGGATAACACCGTAAGTCAAAAAA
* *
27625291 TAAAAAAATCGATCAGGATAAC-AT-C-GCGAATCAAAATTATGCTAAGAGGTCTTAAAAATTAT
65 T-AAAGAATCGATC--GA-AACAATACTGCGAATCAAAATTATGCT-AGAGGTCTTAAAGATTAT
* * * * * * * *
27625353 GCTTGTAGGTTTTAAAAATCATGCCTGGAGGACTTATAGAATTGACCGAGATAATACCGTAAGTC
125 GCCTGAAGGTCTTAGAAATCATGCC-GGAGGTCTTACAGAATCGACCG-GATAACACCGTAAGTC
* * *
27625418 AAAAAATAAAGAATCGATTGGGACAACATCGTAAATCAAAATTATG-TTCAGAGGTCTTAAAGAT
188 AAAAAATAAAGAATCGATT-AGACAACACCGTAAATCAAAATTATGCAT-AGAGGTCTTAAAGAT
*
27625482 TATGCCTAA
251 TATGCCTGA
* * * * * * * * *
27625491 AGGTCTTAAAAATAATGCCCAAAGATCTTACAGATTCGACCGAGATAATATCGCAAGTCAAAAAA
1 AGGTCTTAAAAATAATGTCC-GAGGTCTTACAGAATCGATCGGGATAACACCGTAAGTCAAAAAA
* * *
27625556 TAAAGAATCGATCGAAACAATA-TCACGAATCAAAATTATGCTCGAAAGTCTTAAAGATTATGCC
65 TAAAGAATCGATCGAAACAATACT-GCGAATCAAAATTATGCTAG-AGGTCTTAAAGATTATGCC
* * *
27625620 TGGAGGTCTTAGAAATCATGCTTGGAGGTCTTACAGAATCGACCAGGATAACATCGTAAGTCAAA
128 TGAAGGTCTTAGAAATCATGC-CGGAGGTCTTACAGAATCGACC-GGATAACACCGTAAGTCAAA
* * *
27625685 AAATAAAGAATCGATAAGAACAATACCGTGAATCAAAATTATGCATAGAGGTCTTAAAGATTATG
191 AAATAAAGAATCGATTAG-ACAACACCGTAAATCAAAATTATGCATAGAGGTCTTAAAGATTATG
27625750 CCTGA
255 CCTGA
* * *
27625755 AGGTCTTAAAAATCATGTCCGAGGTCTTACAGAATCGATGGGGATAACACCGTAAGTCACAAAAT
1 AGGTCTTAAAAATAATGTCCGAGGTCTTACAGAATCGATCGGGATAACACCGTAAGTCAAAAAAT
* * * *
27625820 AAAGAATCGATCGAAACAATACTGCGAATCAAAATTATGCCTTGAGGTCTTAAGGATTATTCCTA
66 AAAGAATCGATCGAAACAATACTGCGAATCAAAATTATG-CTAGAGGTCTTAAAGATTATGCCTG
* * * *
27625885 AAGATCTTAGAAATCATGTCCAGAGGTCTTACAGAATCAACCGGGATAACACCTTAAGTCAAAAA
130 AAGGTCTTAGAAATCATG-CCGGAGGTCTTACAGAATCGACC-GGATAACACCGTAAGTCAAAAA
* * *** *
27625950 ATAAAGAATCGATCTTGACAACACCGCAAATCAAAATTATGCCCGGAGGTCTTAAAGATTAT-AC
193 ATAAAGAATCGAT-TAGACAACACCGTAAATCAAAATTATGCATAGAGGTCTTAAAGATTATGCC
27626014 TCGA
257 T-GA
27626018 AGGTCTTA
1 AGGTCTTA
27626026 TAGAATTGAC
Statistics
Matches: 449, Mismatches: 71, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
261 3 0.01
262 6 0.01
263 207 0.46
264 181 0.40
265 52 0.12
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (259 bp):
AGGTCTTAAAAATAATGTCCGAGGTCTTACAGAATCGATCGGGATAACACCGTAAGTCAAAAAAT
AAAGAATCGATCGAAACAATACTGCGAATCAAAATTATGCTAGAGGTCTTAAAGATTATGCCTGA
AGGTCTTAGAAATCATGCCGGAGGTCTTACAGAATCGACCGGATAACACCGTAAGTCAAAAAATA
AAGAATCGATTAGACAACACCGTAAATCAAAATTATGCATAGAGGTCTTAAAGATTATGCCTGA
Found at i:27626120 original size:22 final size:22
Alignment explanation
Indices: 27626090--27626163 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
27626080 ACACCTTAAA
27626090 TAAAAATTATGTCTAGAGGTCT
1 TAAAAATTATGTCTAGAGGTCT
* * * *
27626112 TAAAGATTATGCCTAAAGATCT
1 TAAAAATTATGTCTAGAGGTCT
* *
27626134 TAAAAATCATGTCCAGAGGTCT
1 TAAAAATTATGTCTAGAGGTCT
27626156 TATAAAAT
1 TA-AAAAT
27626164 CGATTGGGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 36 0.88
23 5 0.12
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (22 bp):
TAAAAATTATGTCTAGAGGTCT
Found at i:27626135 original size:110 final size:110
Alignment explanation
Indices: 27625929--27626135 Score: 263
Period size: 110 Copynumber: 1.9 Consensus size: 110
27625919 AATCAACCGG
* * ** *
27625929 GATAACACCTTAAGTCAAAAAATAAAGAATCGATCTTGACAACACCGCAAATCAAAATTATGCCC
1 GATAACACCATAAGTCAAAAAATAAAAAATCGATCGGGACAACACCGCAAATAAAAATTATGCCC
* * *
27625994 GGAGGTCTTAAAGATTATACTCGAAGGTCTTATAGAATTGACTGA
66 AGAGGTCTTAAAGATTATACTCAAAGATCTTATAGAATTGACTGA
* * ** * *
27626039 GATAACATCATAAGTTAAAAAATAAAAAATCGATCGGGACAACACCTTAAATAAAAATTATGTCT
1 GATAACACCATAAGTCAAAAAATAAAAAATCGATCGGGACAACACCGCAAATAAAAATTATGCCC
*
27626104 AGAGGTCTTAAAGATTATGC-CTAAAGATCTTA
66 AGAGGTCTTAAAGATTATACTC-AAAGATCTTA
27626136 AAAATCATGT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
109 1 0.01
110 80 0.99
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (110 bp):
GATAACACCATAAGTCAAAAAATAAAAAATCGATCGGGACAACACCGCAAATAAAAATTATGCCC
AGAGGTCTTAAAGATTATACTCAAAGATCTTATAGAATTGACTGA
Found at i:27626370 original size:22 final size:22
Alignment explanation
Indices: 27626329--27626377 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27626319 CGCCTAAAGG
* * *
27626329 TCTTAAAAATTATGTTCGAAGA
1 TCTTAAAAATCATATCCGAAGA
*
27626351 TCTTAAAAATCATATCCGAAGG
1 TCTTAAAAATCATATCCGAAGA
27626373 TCTTA
1 TCTTA
27626378 CAGAATCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (22 bp):
TCTTAAAAATCATATCCGAAGA
Found at i:27626411 original size:132 final size:132
Alignment explanation
Indices: 27626238--27626814 Score: 400
Period size: 132 Copynumber: 4.4 Consensus size: 132
27626228 TTATGCCCTG
* ** **
27626238 AGGTCTTACAAAATCGATCAGGATAACACTGCAAGTCAAAAAAATAAAGAATTGATCGAGAC-A-
1 AGGTCTTACAGAATCGATCAGGATAACACCACAAGTC-AAAAAATAAAGAATCAATCGAGACAAT
* * * *
27626301 ACGCCGAGATCAAAATTACGCCTAAAGGTCTTAAAAATTATGTTCGAAGATCTTAAAAATCATAT
65 ACGAC-AAATCAAAATTACACCCAAAGGTCTTAAAAATTATGTTCGAAGATCTTAAAAATCATAT
27626366 CCGA
129 CCGA
* *
27626370 AGGTCTTACAGAATCGATCAGGATAATACCACAAGTCAAAAAATAAAGAATCAATCGGGACAATA
1 AGGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGACAATA
* * * * * * *
27626435 TGACAAATTAAAATTATACCCAAAGGTCTTAAAGATTATGTTTGGAGATCTTAAAAATCATCTCC
66 CGACAAATCAAAATTACACCCAAAGGTCTTAAAAATTATGTTCGAAGATCTTAAAAATCATATCC
*
27626500 GG
131 GA
* ** * ** * * * ** *
27626502 AGATCTTACAGAATCGATCAAAATAACATCGTAACTTAAAAAATAAAAAATTGATCGAAACAATA
1 AGGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGACAATA
* * **** * * * * *
27626567 CCG-TAAATCAAAATTATACATGGAGGTCTTAAAGATTATATCCGAA-AGTCTTACAAA-C-TTT
66 -CGACAAATCAAAATTACACCCAAAGGTCTTAAAAATTATGTTCGAAGA-TCTTAAAAATCATAT
27626628 GCTCGA
129 -C-CGA
* * * * * * *
27626634 AAGTCTTACAGAATTGATCGGGATAACATCACAAGTCAAAAAATAAAAAAT-AGAT-TAGGATAA
1 AGGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAGAATCA-ATCGA-GACAA
* * ** ** * * * *
27626697 TACCG-TAAATTAAAATTATGCCCAAAAATCTTACAGATTATGTTCGAAGGTCTTAGAAATCAT-
64 TA-CGACAAATCAAAATTACACCCAAAGGTCTTAAAAATTATGTTCGAAGATCTTAAAAATCATA
* *
27626760 GCTCAA
128 TC-CGA
* ** **
27626766 AGGTCTTACAGAATTGATTGGGATAACACTGCAAGTCAAAAAATAAAGA
1 AGGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAGA
27626815 TCGATCGTAA
Statistics
Matches: 352, Mismatches: 82, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
130 2 0.01
131 25 0.07
132 319 0.91
133 5 0.01
134 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (132 bp):
AGGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGACAATA
CGACAAATCAAAATTACACCCAAAGGTCTTAAAAATTATGTTCGAAGATCTTAAAAATCATATCC
GA
Found at i:27626464 original size:220 final size:221
Alignment explanation
Indices: 27626055--27626465 Score: 490
Period size: 220 Copynumber: 1.9 Consensus size: 221
27626045 ATCATAAGTT
* * * * * *
27626055 AAAAAATAAAAAATCGATCGGGACAACACCTTAAATAAAAATTATGTCTAGAGGTCTTAAAGATT
1 AAAAAATAAAAAATCGATCGAGACAACACCTGAAATAAAAATTACGCCTAAAGGTCTTAAAAATT
* * ** *
27626120 ATGCCTAAAGATCTTAAAAATCATGTCCAGAGGTCTTATAAAATCGATTGGGATAATACCGCAAG
66 ATGCCTAAAGATCTTAAAAATCATATCCAGAGGTCTTACAAAATCGATCAGGATAATACCACAAG
* * * ** * **
27626185 TTAAAAAATAAAGAATCGATCGAAAACAATATCGCGAATCGAATTATGCCCTGAGGTCTTACAAA
131 TCAAAAAATAAAGAATCAATCGAAAACAATATCGCAAATAAAATTATACCCAAAGGTCTTACAAA
27626250 ATCGATCAGGATAACACTGCAAGTCA
196 ATCGATCAGGATAACACTGCAAGTCA
* * * * *
27626276 AAAAAATAAAGAATTGATCGAGACAACGCC-GAGATCAAAATTACGCCTAAAGGTCTTAAAAATT
1 AAAAAATAAAAAATCGATCGAGACAACACCTGAAATAAAAATTACGCCTAAAGGTCTTAAAAATT
* * *
27626340 ATG-TTCGAAGATCTTAAAAATCATATCC-GAAGGTCTTACAGAATCGATCAGGATAATACCACA
66 ATGCCT-AAAGATCTTAAAAATCATATCCAG-AGGTCTTACAAAATCGATCAGGATAATACCACA
**
27626403 AGTCAAAAAATAAAGAATCAATCG-GGACAATAT-GACAAATTAAAATTATACCCAAAGGTCTTA
129 AGTCAAAAAATAAAGAATCAATCGAAAACAATATCG-CAAA-TAAAATTATACCCAAAGGTCTTA
27626466 AAGATTATGT
Statistics
Matches: 157, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
218 1 0.01
219 12 0.08
220 118 0.75
221 26 0.17
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (221 bp):
AAAAAATAAAAAATCGATCGAGACAACACCTGAAATAAAAATTACGCCTAAAGGTCTTAAAAATT
ATGCCTAAAGATCTTAAAAATCATATCCAGAGGTCTTACAAAATCGATCAGGATAATACCACAAG
TCAAAAAATAAAGAATCAATCGAAAACAATATCGCAAATAAAATTATACCCAAAGGTCTTACAAA
ATCGATCAGGATAACACTGCAAGTCA
Found at i:27626750 original size:22 final size:22
Alignment explanation
Indices: 27626725--27626777 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
27626715 TGCCCAAAAA
* * *
27626725 TCTTACAGATTATGTTCGAAGG
1 TCTTACAGATCATGCTCAAAGG
* *
27626747 TCTTAGAAATCATGCTCAAAGG
1 TCTTACAGATCATGCTCAAAGG
27626769 TCTTACAGA
1 TCTTACAGA
27626778 ATTGATTGGG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (22 bp):
TCTTACAGATCATGCTCAAAGG
Found at i:27626809 original size:264 final size:263
Alignment explanation
Indices: 27626238--27626812 Score: 606
Period size: 264 Copynumber: 2.2 Consensus size: 263
27626228 TTATGCCCTG
* * *
27626238 AGGTCTTACAAAATCGATCAGGATAACACTGCAAGTCAAAAAAATAAAGAATTGATCGAGACAAC
1 AGGTCTTACAGAATCGATCAGGATAACACTGCAAGTC-AAAAAATAAAAAATTGATCGAAACAAC
* * * * * *
27626303 GCCGAGATCAAAATTACGCCTAAAGGTCTTAAAAATTATGTTCGAAGATCTTAAAAATCATATCC
65 ACCGAAATCAAAATTACACATAAAGGTCTTAAAAATTATATCCGAAGATCTTAAAAATCATATCC
* * * *
27626368 GAAGGTCTTACAGAATCGATCAGGATAATACCACAAGTCAAAAAATAAAGAATCAATCGGGACAA
130 GAAAGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAAAATCAATCAGGACAA
* ** * *
27626433 TATGACAAATTAAAATTATACCCAAAGGTCTTAAAGATTATGTTTGGAGATCTTAAAAATCATCT
195 TACGACAAATTAAAATTATACCCAAAAATCTTAAAGATTATGTTCGAAGATCTTAAAAATCATCT
**
27626498 CCGG
260 CCAA
* ** * * * *
27626502 AGATCTTACAGAATCGATCAAAATAACA-TCGTAACTTAAAAAATAAAAAATTGATCGAAACAAT
1 AGGTCTTACAGAATCGATCAGGATAACACT-GCAAGTCAAAAAATAAAAAATTGATCGAAACAAC
* ** * * *
27626566 ACCGTAAATCAAAATTATACATGGAGGTCTTAAAGATTATATCCGAA-AGTCTTACAAA-C-TTT
65 ACCG-AAATCAAAATTACACATAAAGGTCTTAAAAATTATATCCGAAGA-TCTTAAAAATCATAT
* * * *
27626628 GCTCGAAAGTCTTACAGAATTGATCGGGATAACATCACAAGTCAAAAAATAAAAAAT-AGATTAG
128 -C-CGAAAGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAAAATCA-ATCAG
* * * * * *
27626692 GATAATACCG-TAAATTAAAATTATGCCCAAAAATCTTACAGATTATGTTCGAAGGTCTTAGAAA
190 GACAATA-CGACAAATTAAAATTATACCCAAAAATCTTAAAGATTATGTTCGAAGATCTTAAAAA
27626756 TCATGCT-CAA
254 TCAT-CTCCAA
* **
27626766 AGGTCTTACAGAATTGATTGGGATAACACTGCAAGTCAAAAAATAAA
1 AGGTCTTACAGAATCGATCAGGATAACACTGCAAGTCAAAAAATAAA
27626813 GATCGATCGT
Statistics
Matches: 250, Mismatches: 52, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
262 2 0.01
263 32 0.13
264 212 0.85
265 4 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (263 bp):
AGGTCTTACAGAATCGATCAGGATAACACTGCAAGTCAAAAAATAAAAAATTGATCGAAACAACA
CCGAAATCAAAATTACACATAAAGGTCTTAAAAATTATATCCGAAGATCTTAAAAATCATATCCG
AAAGTCTTACAGAATCGATCAGGATAACACCACAAGTCAAAAAATAAAAAATCAATCAGGACAAT
ACGACAAATTAAAATTATACCCAAAAATCTTAAAGATTATGTTCGAAGATCTTAAAAATCATCTC
CAA
Found at i:27633565 original size:20 final size:19
Alignment explanation
Indices: 27633529--27633567 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27633519 TTCGAAAAAA
*
27633529 GAAAAAGAAAAATTTTTTT
1 GAAAAAGAAAAAATTTTTT
*
27633548 GAAAAGGAAAAACATTTTTT
1 GAAAAAGAAAAA-ATTTTTT
27633568 TTCACACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (19 bp):
GAAAAAGAAAAAATTTTTT
Found at i:27638151 original size:10 final size:10
Alignment explanation
Indices: 27638136--27638174 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
27638126 TGCCTAGTAC
27638136 TTTTTTTAAA
1 TTTTTTTAAA
27638146 TTTTTTT-AA
1 TTTTTTTAAA
*
27638155 TTTTTTAAAA
1 TTTTTTTAAA
27638165 TATTTTTTAA
1 T-TTTTTTAA
27638175 GAATTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 10 0.40
11 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:27638170 original size:20 final size:19
Alignment explanation
Indices: 27638136--27638174 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
27638126 TGCCTAGTAC
*
27638136 TTTTTTTAAATTTTTTTAA
1 TTTTTTAAAATTTTTTTAA
27638155 TTTTTTAAAATATTTTTTAA
1 TTTTTTAAAAT-TTTTTTAA
27638175 GAATTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTAAAATTTTTTTAA
Found at i:27638547 original size:24 final size:22
Alignment explanation
Indices: 27638505--27638556 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 22
27638495 ATCAATTGCA
27638505 AAAATAATCTACATGAAAATCAACT
1 AAAA-AATCTACATGAAAAT-AA-T
27638530 AAAAAATCTCACAT-AAAATAAT
1 AAAAAATCT-ACATGAAAATAAT
27638552 AAAAA
1 AAAAA
27638557 TTCTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.23
23 2 0.08
24 10 0.38
25 8 0.31
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAATCTACATGAAAATAAT
Found at i:27642037 original size:13 final size:14
Alignment explanation
Indices: 27642016--27642045 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27642006 TGTATTAAGA
27642016 TTGGTTTTTAAGTT
1 TTGGTTTTTAAGTT
27642030 TTGG-TTTTAAGTT
1 TTGGTTTTTAAGTT
27642043 TTG
1 TTG
27642046 AATGTTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.63
Consensus pattern (14 bp):
TTGGTTTTTAAGTT
Found at i:27649519 original size:11 final size:11
Alignment explanation
Indices: 27649503--27649530 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27649493 ATGACAATTA
27649503 GTAAGTTATTC
1 GTAAGTTATTC
27649514 GTAAGTTATTC
1 GTAAGTTATTC
27649525 GTAAGT
1 GTAAGT
27649531 GATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (11 bp):
GTAAGTTATTC
Found at i:27663624 original size:24 final size:24
Alignment explanation
Indices: 27663597--27663643 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
27663587 GTTGTTATAA
27663597 GATTGATAGTATTAACTAATAAAT
1 GATTGATAGTATTAACTAATAAAT
27663621 GATTGATAGTATTAACTAATAAA
1 GATTGATAGTATTAACTAATAAA
27663644 AGCTGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (24 bp):
GATTGATAGTATTAACTAATAAAT
Found at i:27666346 original size:2 final size:2
Alignment explanation
Indices: 27666339--27666371 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
27666329 TTTCATTAAA
*
27666339 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27666372 ACACTATCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27667085 original size:2 final size:2
Alignment explanation
Indices: 27667080--27667108 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27667070 CTTTTTTTCT
27667080 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 T
27667109 TTAATTGATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27669389 original size:5 final size:5
Alignment explanation
Indices: 27669379--27669404 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27669369 TTTTTATGAC
27669379 ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA A
27669405 ATCCCTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:27673507 original size:2 final size:2
Alignment explanation
Indices: 27673462--27673493 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27673452 CTCAGATGCT
27673462 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27673494 CAATGCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27675231 original size:14 final size:16
Alignment explanation
Indices: 27675198--27675235 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
27675188 TTAATTTTTT
*
27675198 TATTTATATAATTATA
1 TATTTAAATAATTATA
27675214 TATTTAAAT-ATT-TA
1 TATTTAAATAATTATA
27675228 TATTTAAA
1 TATTTAAA
27675236 AAAATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 3 0.14
16 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTAAATAATTATA
Found at i:27675260 original size:20 final size:21
Alignment explanation
Indices: 27675220--27675270 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
27675210 TATATATTTA
27675220 AATA-TTTATATTTAAAAAAAT
1 AATATTTTATATTT-AAAAAAT
27675241 AATATTTTATATTT-AAAAAT
1 AATATTTTATATTTAAAAAAT
*
27675261 ATTATTTTAT
1 AATATTTTAT
27675271 TAAATTTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.54
21 4 0.14
22 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:27685746 original size:84 final size:84
Alignment explanation
Indices: 27685658--27685827 Score: 189
Period size: 84 Copynumber: 2.0 Consensus size: 84
27685648 TACCATGCAT
* * *** * * *
27685658 TCACC-ATCCTTATCACCAATCAATTCCTTTGAGCCAGCACCATCAACATTCTCACTCTGATTTT
1 TCACCAATCC-TATCACCAATCAACTCATTTGAAAAAGAACCATCAACATTCTCACCCTGATTTA
*
27685722 CATTGGAGCAAAATGTACTA
65 CATTGGAGCAAAATGCACTA
* * *
27685742 TCACCAATCCTATCACCCATCAACTCATTTGAAAAAGAACCATCCACATTCTCGCCCTGATTTAC
1 TCACCAATCCTATCACCAATCAACTCATTTGAAAAAGAACCATCAACATTCTCACCCTGATTTAC
* * *
27685807 ATTTGAGTAAACTGCACTA
66 ATTGGAGCAAAATGCACTA
27685826 TC
1 TC
27685828 CCTGCACCTA
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
84 66 0.94
85 4 0.06
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (84 bp):
TCACCAATCCTATCACCAATCAACTCATTTGAAAAAGAACCATCAACATTCTCACCCTGATTTAC
ATTGGAGCAAAATGCACTA
Found at i:27689413 original size:21 final size:19
Alignment explanation
Indices: 27689383--27689430 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
27689373 AATTGATACC
*
27689383 ATAATTAAAAGTAATTATAAA
1 ATAA-TAAAAGTAA-TAAAAA
*
27689404 ATATATAAAATTAATAAAAA
1 ATA-ATAAAAGTAATAAAAA
27689424 ATAATAA
1 ATAATAA
27689431 TTTTATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 11 0.46
22 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAATAAAAGTAATAAAAA
Found at i:27689444 original size:21 final size:21
Alignment explanation
Indices: 27689415--27689455 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27689405 TATATAAAAT
27689415 TAATAAAAAATAATAATTTTA
1 TAATAAAAAATAATAATTTTA
* * *
27689436 TAATTAAAAATTATTATTTT
1 TAATAAAAAATAATAATTTT
27689456 TATTAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATAAAAAATAATAATTTTA
Found at i:27689497 original size:26 final size:25
Alignment explanation
Indices: 27689465--27689531 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
27689455 TTATTAATTT
27689465 TATAATAAAAATAATAATTTGTAATAA
1 TATAATAAAAATAAT-ATTT-TAATAA
* *
27689492 TA-AATAATAATTATATTTTAATAA
1 TATAATAAAAATAATATTTTAATAA
27689516 TATAATAAATAATAAT
1 TATAATAAA-AATAAT
27689532 TATTGTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 8 0.24
25 9 0.26
26 15 0.44
27 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (25 bp):
TATAATAAAAATAATATTTTAATAA
Found at i:27689513 original size:51 final size:51
Alignment explanation
Indices: 27689383--27689531 Score: 137
Period size: 52 Copynumber: 2.9 Consensus size: 51
27689373 AATTGATACC
* * *
27689383 ATAATTAAAAGTAATTATAAAATATATAA-AAT-TAATAAAAAATAATAATTTT
1 ATAATTAAAAATAATTAT-TATTAT-TAATAATATAAT-AAAAATAATAATTTT
* * **
27689435 ATAATTAAAAATTATTATTTTTATTAATTTTATAATAAAAATAATAATTTGT
1 ATAATTAAAAATAATTATTATTATTAATAATATAATAAAAATAATAATTT-T
27689487 AATAA-TAAATAATAATTA-TATT-TTAATAATATAATAAATAATAAT
1 -ATAATTAAA-AATAATTATTATTATTAATAATATAATAAA-AATAAT
27689532 TATTGTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
50 3 0.04
51 32 0.40
52 34 0.43
53 11 0.14
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (51 bp):
ATAATTAAAAATAATTATTATTATTAATAATATAATAAAAATAATAATTTT
Found at i:27689520 original size:29 final size:31
Alignment explanation
Indices: 27689488--27689571 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 31
27689478 ATAATTTGTA
27689488 ATAATAAATAATAATTATATTT-TAATA-AT
1 ATAATAAATAATAATTATATTTGTAATATAT
* * *
27689517 ATAATAAATAATAATTATTGTTTGTTATATTT
1 ATAATAAATAATAATTA-TATTTGTAATATAT
*
27689549 ATTAATAAATAATATTTATATTT
1 A-TAATAAATAATAATTATATTT
27689572 ATTAAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.37
30 4 0.09
31 4 0.09
32 6 0.13
33 15 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATAATAAATAATAATTATATTTGTAATATAT
Found at i:27689555 original size:33 final size:30
Alignment explanation
Indices: 27689488--27689596 Score: 91
Period size: 29 Copynumber: 3.7 Consensus size: 30
27689478 ATAATTTGTA
27689488 ATAATAAATAATAATTA-TATTTTAATAAT
1 ATAATAAATAATAATTATTATTTTAATAAT
* * *
27689517 ATAATAAATAATAATTATTGTTTGTTATATTT
1 ATAATAAATAATAATTATTATTT-TAATA-AT
* * *
27689549 ATTAATAAATAATATTTA-TA-TTTATTAAA
1 A-TAATAAATAATAATTATTATTTTAATAAT
* *
27689578 AT-ATAAATATTATTTATTA
1 ATAATAAATAATAATTATTA
27689597 ATAAATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
27 13 0.20
28 3 0.05
29 18 0.28
30 7 0.11
31 6 0.09
32 3 0.05
33 15 0.23
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATAATAAATAATAATTATTATTTTAATAAT
Found at i:27689600 original size:17 final size:17
Alignment explanation
Indices: 27689580--27689613 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27689570 TTATTAAAAT
27689580 ATAAATATTATTTATTA
1 ATAAATATTATTTATTA
27689597 ATAAATATTATTTATTA
1 ATAAATATTATTTATTA
27689614 TTTATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAATATTATTTATTA
Found at i:27689601 original size:24 final size:24
Alignment explanation
Indices: 27689574--27689635 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
27689564 TTATATTTAT
27689574 TAAAATATAAATATTATTTATTAA
1 TAAAATATAAATATTATTTATTAA
**
27689598 T-AAATATTATTTATTATTTATTAA
1 TAAAATA-TAAATATTATTTATTAA
* *
27689622 TAAAAAAGAAATAT
1 TAAAATATAAATAT
27689636 CTTTATATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 5 0.17
24 21 0.70
25 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TAAAATATAAATATTATTTATTAA
Found at i:27689651 original size:30 final size:30
Alignment explanation
Indices: 27689617--27689674 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27689607 TTTATTATTT
*
27689617 ATTAATAAAAAAGAAATATCTTTATATAAA
1 ATTAATAAAAAAGAAATATCTATATATAAA
* *
27689647 ATTAATAAAAAATAAATATGTATATATA
1 ATTAATAAAAAAGAAATATCTATATATA
27689675 TGGAAATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (30 bp):
ATTAATAAAAAAGAAATATCTATATATAAA
Found at i:27689869 original size:27 final size:25
Alignment explanation
Indices: 27689839--27689889 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
27689829 TAGACATTTC
*
27689839 ATTTTTTTAATAATTTTATATATTATT
1 ATTTTTATAATAATTTT-TA-ATTATT
*
27689866 ATTTTTATAATTATTTTTAATTAT
1 ATTTTTATAATAATTTTTAATTAT
27689890 GATATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTTTATAATAATTTTTAATTATT
Found at i:27692404 original size:17 final size:17
Alignment explanation
Indices: 27692345--27692404 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
27692335 ATATTATTTG
*
27692345 TGTTAATCACATGATGA
1 TGTTAATCACATAATGA
* *
27692362 TGTTAATCATATTAATCA
1 TGTTAATCACA-TAATGA
*
27692380 TGCT-ATCACATAATGA
1 TGTTAATCACATAATGA
*
27692396 TATTAATCA
1 TGTTAATCA
27692405 TGTTGGTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 7 0.21
17 19 0.58
18 7 0.21
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (17 bp):
TGTTAATCACATAATGA
Done.