Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 1 of 187
Found at i:3614 original size:83 final size:83
Alignment explanation
Indices: 3475--3641 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
3465 TAACATCAAC
3475 TGTTTTTCAAAGCTTGCTCTAGAAATACGAAACACTGCCATTAAGATTTCGTTTCTTTAAAGATG
1 TGTTTTTCAAAGCTTGCTCTAGAAATACGAAACACTGCCATTAAGATTTCGTTTCTTTAAAGATG
3540 AAATTAGTAAAAGTTGAA
66 AAATTAGTAAAAGTTGAA
*
3558 TGTTTTTCAAAGCTTGCTCTAGAAATACGAATCACTGCCATTAAGATTTCGTTTCTTTAAAGATG
1 TGTTTTTCAAAGCTTGCTCTAGAAATACGAAACACTGCCATTAAGATTTCGTTTCTTTAAAGATG
3623 AAATTAGTAAAAGTTGAA
66 AAATTAGTAAAAGTTGAA
3641 T
1 T
3642 TCATATAAGA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (83 bp):
TGTTTTTCAAAGCTTGCTCTAGAAATACGAAACACTGCCATTAAGATTTCGTTTCTTTAAAGATG
AAATTAGTAAAAGTTGAA
Found at i:3944 original size:13 final size:13
Alignment explanation
Indices: 3926--3967 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3916 GAATATTGAT
3926 AAATATTTTATAA
1 AAATATTTTATAA
*
3939 AAATA-TTTAAAA
1 AAATATTTTATAA
*
3951 TAAATATTTTTTAA
1 -AAATATTTTATAA
3965 AAA
1 AAA
3968 ATTAGCATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
14 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATATTTTATAA
Found at i:4596 original size:12 final size:12
Alignment explanation
Indices: 4579--4603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4569 TTTACATGTG
4579 TTTAAATTTTCA
1 TTTAAATTTTCA
4591 TTTAAATTTTCA
1 TTTAAATTTTCA
4603 T
1 T
4604 CGTTTATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAAATTTTCA
Found at i:20745 original size:7 final size:7
Alignment explanation
Indices: 20733--20768 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
20723 ATCATCAAAC
20733 ACATATT
1 ACATATT
20740 ACATATT
1 ACATATT
*
20747 ATATATT
1 ACATATT
20754 ACATATT
1 ACATATT
20761 ACATATT
1 ACATATT
20768 A
1 A
20769 TAAGATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
ACATATT
Found at i:24000 original size:27 final size:30
Alignment explanation
Indices: 23970--24030 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 30
23960 CATTTTAAGG
23970 CATAATTAAATT-TGAGTC-TATATG-TTT
1 CATAATTAAATTCTGAGTCATATATGATTT
* *
23997 CAT-ATTTATTTCTGAGTCATATATGATTT
1 CATAATTAAATTCTGAGTCATATATGATTT
24026 -ATAAT
1 CATAAT
24031 AGCTTTCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 6 0.21
27 9 0.32
28 8 0.29
29 5 0.18
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (30 bp):
CATAATTAAATTCTGAGTCATATATGATTT
Found at i:28819 original size:31 final size:31
Alignment explanation
Indices: 28776--28847 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
28766 ATTTAGTCCA
28776 TGTA-TTTT-AATTTGATT-AATTTCAATCCT
1 TGTACTTTTCAATTTG-TTCAATTTCAATCCT
* * *
28805 TTTACTTTTCAATTTGTTCAATTTTAGTCCT
1 TGTACTTTTCAATTTGTTCAATTTCAATCCT
28836 TGTAC-TTTCAAT
1 TGTACTTTTCAAT
28848 CTTTTGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.08
30 13 0.36
31 20 0.56
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.56
Consensus pattern (31 bp):
TGTACTTTTCAATTTGTTCAATTTCAATCCT
Found at i:29584 original size:34 final size:31
Alignment explanation
Indices: 29522--29598 Score: 77
Period size: 34 Copynumber: 2.4 Consensus size: 31
29512 TAGGCTCACC
**
29522 TATATGATTTTTTTAATTTTTTTAAAAATATT
1 TATATGATTTTTTTAATTTTAATAAAAAT-TT
29554 TATATGATTTTATTTTAATATTTAAT-AAAATTT
1 TATATGA-TTT-TTTTAAT-TTTAATAAAAATTT
*
29587 TATA-CATTTTTT
1 TATATGATTTTTT
29599 ATTTATTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 3 0.08
31 3 0.08
32 8 0.21
33 9 0.23
34 12 0.31
35 4 0.10
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (31 bp):
TATATGATTTTTTTAATTTTAATAAAAATTT
Found at i:35826 original size:61 final size:61
Alignment explanation
Indices: 35761--35947 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
35751 ATATAATTTA
35761 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * *
35822 ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT
*
35880 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
35942 ATAAAA
1 ATAAAA
35948 GATAATTTNN
Statistics
Matches: 95, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
58 3 0.03
59 33 0.35
60 17 0.18
61 39 0.41
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:35853 original size:120 final size:122
Alignment explanation
Indices: 35710--35955 Score: 451
Period size: 120 Copynumber: 2.0 Consensus size: 122
35700 ATTTAATCAT
*
35710 ATTTAAACATAAATTATTATTAAATATATTCTAATTAAAATATATAATTTAATAAAATTCTTAAT
1 ATTTAAACATAAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
*
35775 AATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 AATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
35832 ATTT-AACAT-AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 ATTTAAACATAAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
*
35895 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 AATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
35952 ATTT
1 ATTT
35956 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
120 112 0.93
121 5 0.04
122 4 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (122 bp):
ATTTAAACATAAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
AATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:35872 original size:16 final size:16
Alignment explanation
Indices: 35828--35874 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
35818 TACTATAAAA
*
35828 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
35844 TATTATT-AAATATAT
1 TATAATTAAAATATAT
35859 TATAATTAAAATATAT
1 TATAATTAAAATATAT
35875 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:47002 original size:29 final size:29
Alignment explanation
Indices: 46970--47118 Score: 124
Period size: 30 Copynumber: 5.0 Consensus size: 29
46960 TAACCCTGTT
* *
46970 ACTTTTTGAAATTTATATTTTGACCCCAA
1 ACTTTTTGAAAATTACATTTTGACCCCAA
**
46999 ACTTTTCT-AAAATTACATTTCAACCCCTAA
1 ACTTTT-TGAAAATTACATTTTGACCCC-AA
* * * *
47029 ACTTTCTCAAAATTACACTTTGACCCTTAA
1 ACTTTTTGAAAATTACATTTTGACCC-CAA
* *
47059 ACTTTTTGAAAATTACATTTTGGCCCCCAT
1 ACTTTTTGAAAATTACATTTT-GACCCCAA
*
47089 A-TTTTCCT-AAAATTACATTTTTACCCCAA
1 ACTTTT--TGAAAATTACATTTTGACCCCAA
47118 A
1 A
47119 TATTTTGCGT
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
29 32 0.34
30 58 0.61
31 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
ACTTTTTGAAAATTACATTTTGACCCCAA
Found at i:47012 original size:30 final size:29
Alignment explanation
Indices: 46986--47118 Score: 128
Period size: 30 Copynumber: 4.5 Consensus size: 29
46976 TGAAATTTAT
46986 ATTTTGACCCCAAACTTTTCTAAAATTAC
1 ATTTTGACCCCAAACTTTTCTAAAATTAC
**
47015 ATTTCAACCCCTAAAC-TTTCTCAAAATTAC
1 ATTTTGACCCC-AAACTTTTCT-AAAATTAC
* *
47045 ACTTTGACCCTTAAACTTTT-TGAAAATTAC
1 ATTTTGACCC-CAAACTTTTCT-AAAATTAC
* *
47075 ATTTTGGCCCCCATA-TTTTCCTAAAATTAC
1 ATTTT-GACCCCAAACTTTT-CTAAAATTAC
*
47105 ATTTTTACCCCAAA
1 ATTTTGACCCCAAA
47119 TATTTTGCGT
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
29 24 0.29
30 51 0.61
31 8 0.10
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (29 bp):
ATTTTGACCCCAAACTTTTCTAAAATTAC
Found at i:47033 original size:59 final size:60
Alignment explanation
Indices: 46948--47078 Score: 142
Period size: 59 Copynumber: 2.2 Consensus size: 60
46938 CAAAAAAATA
* ** * * * * *
46948 AAAATTACATTTTAACCCTGTTACTTTTTGAAATTTATATTTTGACCC-CAAACTTTTCT-
1 AAAATTACATTTCAACCCTGAAACTTTCTCAAAATTACACTTTGACCCTCAAACTTTT-TG
*
47007 AAAATTACATTTCAACCCCT-AAACTTTCTCAAAATTACACTTTGACCCTTAAACTTTTTG
1 AAAATTACATTTCAA-CCCTGAAACTTTCTCAAAATTACACTTTGACCCTCAAACTTTTTG
47067 AAAATTACATTT
1 AAAATTACATTT
47079 TGGCCCCCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 36 0.60
60 24 0.40
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (60 bp):
AAAATTACATTTCAACCCTGAAACTTTCTCAAAATTACACTTTGACCCTCAAACTTTTTG
Found at i:47636 original size:4 final size:4
Alignment explanation
Indices: 47627--47685 Score: 56
Period size: 4 Copynumber: 15.5 Consensus size: 4
47617 TGACCCGAAG
*
47627 AAGA AAGA AA-A AAGG AAGA AA-A AAGA AAG- AA-A AAGA AAGA AAGGGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA--GA
47673 AAGA AA-A AAGA AA
1 AAGA AAGA AAGA AA
47686 AAAATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 13 0.28
4 29 0.63
6 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:47659 original size:10 final size:11
Alignment explanation
Indices: 47627--47689 Score: 78
Period size: 11 Copynumber: 6.0 Consensus size: 11
47617 TGACCCGAAG
47627 AAGAAAGAAAA
1 AAGAAAGAAAA
*
47638 AAGGAAGAAAA
1 AAGAAAGAAAA
47649 AAGAAAG-AAA
1 AAGAAAGAAAA
47659 AAGAAAG-AAA
1 AAGAAAGAAAA
**
47669 GGGAAAGAAAA
1 AAGAAAGAAAA
47680 AAGAAA-AAAA
1 AAGAAAGAAAA
47690 TAAAAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 22 0.49
11 23 0.51
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:48709 original size:18 final size:18
Alignment explanation
Indices: 48686--48832 Score: 109
Period size: 18 Copynumber: 7.7 Consensus size: 18
48676 TGTTTCTTTC
48686 TTTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
48704 TTTTCAAAAATTCTCATG
1 TTTTCAAAAATTTTCGTG
* *
48722 -TTTCAAAAATTTTTGAG
1 TTTTCAAAAATTTTCGTG
48739 TTTTCAAAATTTTCATGTTTTCGTG
1 TTTTCAAAA-----A--TTTTCGTG
*
48764 TTTTCAAAAAAAATTCTCGTG
1 TTTTC---AAAAATTTTCGTG
*
48785 TTTTCAAAAAAATTTCGTG
1 TTTTC-AAAAATTTTCGTG
* *
48804 -TTTCAAAAATCTTCATG
1 TTTTCAAAAATTTTCGTG
48821 TTTTCAAAAATT
1 TTTTCAAAAATT
48833 ATTATTGTGT
Statistics
Matches: 102, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
17 23 0.23
18 38 0.37
19 12 0.12
21 12 0.12
23 2 0.02
25 11 0.11
28 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:48733 original size:35 final size:34
Alignment explanation
Indices: 48687--48758 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 34
48677 GTTTCTTTCT
*
48687 TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCATG
1 TTTCAAAAATTTTCGAGTTTTC-AAAATTCTCATG
* *
48722 TTTCAAAAATTTTTGAGTTTTCAAAATTTTCATG
1 TTTCAAAAATTTTCGAGTTTTCAAAATTCTCATG
48756 TTT
1 TTT
48759 TCGTGTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 14 0.41
35 20 0.59
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (34 bp):
TTTCAAAAATTTTCGAGTTTTCAAAATTCTCATG
Found at i:48785 original size:21 final size:20
Alignment explanation
Indices: 48757--48812 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
48747 ATTTTCATGT
48757 TTTCGTGTTTTCAAAAAAAA
1 TTTCGTGTTTTCAAAAAAAA
48777 TTCTCGTGTTTTC-AAAAAAA
1 TT-TCGTGTTTTCAAAAAAAA
48797 TTTCGTG-TTTCAAAAA
1 TTTCGTGTTTTCAAAAA
48813 TCTTCATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.12
19 9 0.26
20 11 0.32
21 10 0.29
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (20 bp):
TTTCGTGTTTTCAAAAAAAA
Found at i:55824 original size:19 final size:18
Alignment explanation
Indices: 55797--55835 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
55787 GCGTATATAT
*
55797 ATTTAAAACAGAATAATAA
1 ATTTAAAACAAAATAA-AA
*
55816 ATTTTAAACAAAATAAAA
1 ATTTAAAACAAAATAAAA
55834 AT
1 AT
55836 CAAGTGCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (18 bp):
ATTTAAAACAAAATAAAA
Found at i:65279 original size:39 final size:40
Alignment explanation
Indices: 65171--65308 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
65161 GGCGTTTGGA
* * * *
65171 TAAAAAATGCCACTAAAAATCAAGCAGTAGCGGCGCTTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
* * ** * **
65211 GAAAAAACGCTGCTAAAGGTCGATTATTAGCGGCGATTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
*
65251 TAAAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
* * *
65290 TGAAAAGCGCCGCAAAAAA
1 TAAAAAACGCCGCTAAAAA
65309 CTTAAGCCCA
Statistics
Matches: 76, Mismatches: 22, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
39 31 0.41
40 45 0.59
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
Found at i:69651 original size:24 final size:24
Alignment explanation
Indices: 69624--69669 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
69614 CTGAATTCTA
*
69624 TCTTT-TATTTAATTTATAATTAAT
1 TCTTTATAGTTAATTT-TAATTAAT
69648 TCTTTATAGTTAATTTTAATTA
1 TCTTTATAGTTAATTTTAATTA
69670 TTTATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TCTTTATAGTTAATTTTAATTAAT
Found at i:71930 original size:19 final size:18
Alignment explanation
Indices: 71882--71932 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
71872 GTTCTTTGAT
71882 TTTTTATTTATTTAATTC
1 TTTTTATTTATTTAATTC
*
71900 --TGTA-TTACTTTAATCTC
1 TTTTTATTTA-TTTAAT-TC
71917 TTTTTATTTATTTAAT
1 TTTTTATTTATTTAAT
71933 GCACCACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 2 0.08
19 9 0.35
20 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTTATTTAATTC
Found at i:75933 original size:22 final size:22
Alignment explanation
Indices: 75905--75949 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
75895 TTTTTGATAA
75905 TAGATTATAGCTGTTCAATTTG
1 TAGATTATAGCTGTTCAATTTG
75927 TAGATTATAGCTGTTCAATTTG
1 TAGATTATAGCTGTTCAATTTG
75949 T
1 T
75950 CTATGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (22 bp):
TAGATTATAGCTGTTCAATTTG
Found at i:82666 original size:12 final size:12
Alignment explanation
Indices: 82651--82675 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82641 AAATATACAT
82651 AAATAATAAATA
1 AAATAATAAATA
82663 AAATAATAAATA
1 AAATAATAAATA
82675 A
1 A
82676 GGTTATCGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:82923 original size:3 final size:3
Alignment explanation
Indices: 82915--82949 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
82905 AGATCCAGGC
82915 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
82950 ATCAAAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:93353 original size:5 final size:5
Alignment explanation
Indices: 93343--93371 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
93333 TGTGTTATTA
93343 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
93372 CACACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:94578 original size:30 final size:31
Alignment explanation
Indices: 94542--94603 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
94532 ATACAATTTG
*
94542 ATATATAAACTTTTAATTT-GA-TATGATTAT
1 ATATATAAAATTTTAATTTAGATTAT-ATTAT
94572 ATATATAAAATTTTAATTTAGATTATATTAT
1 ATATATAAAATTTTAATTTAGATTATATTAT
94603 A
1 A
94604 CACATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 18 0.62
31 8 0.28
32 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (31 bp):
ATATATAAAATTTTAATTTAGATTATATTAT
Found at i:101230 original size:16 final size:16
Alignment explanation
Indices: 101210--101241 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
101200 ATTGGTAATA
101210 TAAAAAAT-TTATTTT
1 TAAAAAATCTTATTTT
101225 TAAAAAATCTTATTTT
1 TAAAAAATCTTATTTT
101241 T
1 T
101242 TATACTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAAAAATCTTATTTT
Found at i:102083 original size:21 final size:21
Alignment explanation
Indices: 102057--102104 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
102047 AAAAACATTA
102057 AAAATAA-TTTATATATTTTTT
1 AAAATAATTTTATA-ATTTTTT
*
102078 AAAATAATTTTTTGAATTTTTT
1 AAAATAATTTTAT-AATTTTTT
102100 AAAAT
1 AAAAT
102105 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 16 0.67
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAATAATTTTATAATTTTTT
Found at i:107571 original size:61 final size:60
Alignment explanation
Indices: 107466--107606 Score: 178
Period size: 61 Copynumber: 2.3 Consensus size: 60
107456 TTTAGTGCGT
* * * *
107466 TTTCATTTTGGTCACCCAAAATGAATTCTTTGCAATTTTGTCACCCTAGTCTTATGA-TAC
1 TTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTCTCACCCTACTCTTA-GAGCAC
* *
107526 TTTCATTTTAGTCACACCAAAATGAAATTC-TTGTAATTTTCTCACCCTACTCTTAGAGCGC
1 TTTCATTTTAGTCAC-CCAAAATG-AATTCTTTGCAATTTTCTCACCCTACTCTTAGAGCAC
*
107587 TTTTATTTTAGTCACCCAAA
1 TTTCATTTTAGTCACCCAAA
107607 CGTTAAATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
60 21 0.30
61 45 0.63
62 5 0.07
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (60 bp):
TTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTCTCACCCTACTCTTAGAGCAC
Found at i:110893 original size:31 final size:29
Alignment explanation
Indices: 110820--110893 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
110810 ACCTTAGGTT
* *
110820 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
**
110849 ACATTTTTA-TCACTTATGTTATCATGTTGTA
1 ACA-TTTTAGTCACTTATGTT-TCA-AATGTA
110880 ACATTTTAGTCACT
1 ACATTTTAGTCACT
110894 AAGCTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 14 0.38
30 12 0.32
31 11 0.30
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:112037 original size:33 final size:33
Alignment explanation
Indices: 111995--112060 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
111985 TTATTTATTG
*
111995 CTAGGTTGTTAAGTATTGGATATGACAAAAGAA
1 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
112028 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
1 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
112061 ATAAATGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (33 bp):
CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
Found at i:112934 original size:365 final size:365
Alignment explanation
Indices: 112264--112996 Score: 1351
Period size: 365 Copynumber: 2.0 Consensus size: 365
112254 AAATGTGTCC
*
112264 AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGTGTCTTGCTGGACGCGCTTTTTGTTTCT
1 AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGCGTCTTGCTGGACGCGCTTTTTGTTTCT
* * *
112329 CTCTGTAACAGCCCGATTTTCAGTGTGTGTCGAAAACAGTAGTTTCAAGACCATAATTCGTAAAT
66 CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
112394 GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
131 GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
*
112459 TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAATTGTAAAGGTTGAGTAGTTAAATT
196 TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
112524 AAAGGGACTAAATGGAAAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGCT
261 AAAGGGACTAAATGGAAAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGCT
112589 TAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
326 TAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
* * *
112629 AGCAGGACGCACTTTCCTACCATGTTAGATAAAAACGCGTCTTGTTGGACGCGTTTTTTGTTTCT
1 AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGCGTCTTGCTGGACGCGCTTTTTGTTTCT
112694 CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
66 CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
*
112759 GTTATTCAATTAATATTTACAAGGACTATAACGTCGTATTAAACTTTGGTTAGGAAATTTTATCG
131 GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
*
112824 TTTAGATAGTTTAATAAGTAAAAATGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
196 TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
112889 AAAGGGACTAAATGGACAAA-TTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGC
261 AAAGGGACTAAATGGA-AAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGC
*
112953 TTAATTAAGTGGTTTAATTAGGCTTATTAATGATTTATTAA
325 TTAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
112994 AGC
1 AGC
112997 TTAATTAAGA
Statistics
Matches: 356, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
365 353 0.99
366 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (365 bp):
AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGCGTCTTGCTGGACGCGCTTTTTGTTTCT
CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
AAAGGGACTAAATGGAAAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGCT
TAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
Found at i:113003 original size:22 final size:23
Alignment explanation
Indices: 112951--113005 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
112941 ATGAGGTTAT
* *
112951 GCTTAATTAAGTGGTTTAATTAG
1 GCTTAATTAAGTGATTTAATTAA
112974 GCTT-ATTAA-TGATTT-ATTAAA
1 GCTTAATTAAGTGATTTAATT-AA
112995 GCTTAATTAAG
1 GCTTAATTAAG
113006 AAAGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 10 0.37
22 10 0.37
23 4 0.15
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (23 bp):
GCTTAATTAAGTGATTTAATTAA
Found at i:114034 original size:143 final size:143
Alignment explanation
Indices: 113789--114061 Score: 503
Period size: 143 Copynumber: 1.9 Consensus size: 143
113779 TATCATATAC
*
113789 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCACGCAAATCC
1 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
* *
113854 TACTGTTATACTGAGTGAAACTCAAACGAGGAGAAATCTAAAGATATA-CTGATGAAAACTCAAA
66 TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATC-GACGAAAACTCAAA
113918 TTTGTATTATAAAT
130 TTTGTATTATAAAT
113932 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
1 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
113997 TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATCGACGAAAACTCAAAT
66 TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATCGACGAAAACTCAAAT
114062 CGAGTAATGT
Statistics
Matches: 126, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
143 125 0.99
144 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (143 bp):
TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATCGACGAAAACTCAAAT
TTGTATTATAAAT
Found at i:115357 original size:16 final size:16
Alignment explanation
Indices: 115336--115381 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
115326 TTTTTCCCCA
115336 AAGGGTTTAAGGTTTT
1 AAGGGTTTAAGGTTTT
*
115352 AAGGGTTTAAAGTTTT
1 AAGGGTTTAAGGTTTT
* *
115368 TAGAGTTTAAGGTT
1 AAGGGTTTAAGGTT
115382 GAAAATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (16 bp):
AAGGGTTTAAGGTTTT
Found at i:120792 original size:63 final size:63
Alignment explanation
Indices: 120718--120853 Score: 184
Period size: 63 Copynumber: 2.2 Consensus size: 63
120708 AAAAAATACC
* * *
120718 TGCAGAAGGTGTTGATGTAGGGTAC-GATGGTGCATAGTGTGGTACATATGTAAAAATAAAAGG
1 TGCAGAAGGTGTTGATGCAAGGTACAG-TGGTGCATAGCGTGGTACATATGTAAAAATAAAAGG
* * * *
120781 TGCAGAAGGTGTTGATGCAAGTTACAGTGGTGCATTGCGTGGTGCTTATGTAAAAATAAAAGG
1 TGCAGAAGGTGTTGATGCAAGGTACAGTGGTGCATAGCGTGGTACATATGTAAAAATAAAAGG
*
120844 TGCAAAAGGT
1 TGCAGAAGGT
120854 TAGTGAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 63 0.98
64 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (63 bp):
TGCAGAAGGTGTTGATGCAAGGTACAGTGGTGCATAGCGTGGTACATATGTAAAAATAAAAGG
Found at i:122536 original size:22 final size:20
Alignment explanation
Indices: 122508--122586 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 20
122498 CTAAAAAATA
*
122508 AAAAATTACCAAAATTATTTTT
1 AAAAATTA--AAAAATATTTTT
122530 AAAAATTAAAAAATATTTTT
1 AAAAATTAAAAAATATTTTT
122550 AAAAAAATATAAAAAAATATTTTT
1 --AAAAAT-T-AAAAAATATTTTT
*
122574 -AAAATTCAAAAAT
1 AAAAATTAAAAAAT
122587 TTAATTAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.12
20 12 0.24
21 5 0.10
22 14 0.27
23 1 0.02
24 13 0.25
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTAAAAAATATTTTT
Found at i:122716 original size:15 final size:14
Alignment explanation
Indices: 122691--122735 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
122681 GTGATTTGAC
*
122691 AAAAAATACAAATT
1 AAAAAATACAAATA
122705 AAAAAATAACAAATA
1 AAAAAAT-ACAAATA
*
122720 AAAAAAT-TAAATA
1 AAAAAATACAAATA
122733 AAA
1 AAA
122736 TACTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.29
14 7 0.25
15 13 0.46
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAATACAAATA
Found at i:123415 original size:43 final size:44
Alignment explanation
Indices: 123358--123446 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
123348 GTTGATATAA
* *
123358 AATAGAAGTTGTGATAATTAAACATTT-AAAATAATTATAATTT
1 AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
*
123401 AATAGAAGTAGTGATAATTACACATTTAAAAATAATTAGAATTT
1 AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
123445 AA
1 AA
123447 GTTACAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 25 0.60
44 17 0.40
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (44 bp):
AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
Found at i:126346 original size:33 final size:33
Alignment explanation
Indices: 126301--126385 Score: 143
Period size: 33 Copynumber: 2.5 Consensus size: 33
126291 ATAAAGTAAT
*
126301 AATATACTTTAAAATTAAATAATATATTTTTATA
1 AATATA-TTTAAAAATAAATAATATATTTTTATA
*
126335 TATATATTTAAAAATAAATAATATATTTTTATA
1 AATATATTTAAAAATAAATAATATATTTTTATA
126368 AATATATTTAAAAATAAA
1 AATATATTTAAAAATAAA
126386 AAAATCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 43 0.90
34 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (33 bp):
AATATATTTAAAAATAAATAATATATTTTTATA
Found at i:128481 original size:25 final size:25
Alignment explanation
Indices: 128447--128498 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
128437 TTATAAAGAT
*
128447 GGAAAGAATATGGGAAATGAGTTAA
1 GGAAAGAATACGGGAAATGAGTTAA
128472 GGAAAGAATACGGGAAATGAGTTAA
1 GGAAAGAATACGGGAAATGAGTTAA
128497 GG
1 GG
128499 CCCCTGTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.35, T:0.17
Consensus pattern (25 bp):
GGAAAGAATACGGGAAATGAGTTAA
Found at i:129234 original size:15 final size:16
Alignment explanation
Indices: 129214--129244 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
129204 GTGGCTTGTG
129214 TTGGTATAAG-CATAT
1 TTGGTATAAGCCATAT
129229 TTGGTATAAGCCATAT
1 TTGGTATAAGCCATAT
129245 GCTTCAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGGTATAAGCCATAT
Found at i:130747 original size:30 final size:31
Alignment explanation
Indices: 130696--130755 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
130686 TGTTATACGA
**
130696 AAATTTTGATTTTGTGTAATTTT-ATAAATG
1 AAATTTTGATTTCATGTAATTTTCATAAATG
130726 AAATTTTGATTTCAT-TCAATTTTCATAAAT
1 AAATTTTGATTTCATGT-AATTTTCATAAAT
130756 CATTAGCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 19 0.73
31 6 0.23
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (31 bp):
AAATTTTGATTTCATGTAATTTTCATAAATG
Found at i:140744 original size:13 final size:13
Alignment explanation
Indices: 140719--140752 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
140709 TTGTTTTGGG
*
140719 AATAATTATAATT
1 AATAATTACAATT
*
140732 AATTATTACAATT
1 AATAATTACAATT
140745 AATAATTA
1 AATAATTA
140753 ATTAAACACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTACAATT
Found at i:141170 original size:2 final size:2
Alignment explanation
Indices: 141163--141196 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
141153 GGTCCCTGTT
*
141163 TA TA TA TA TA TA TA TA TA TA TA TGA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA T
141197 CAGATACGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:146513 original size:15 final size:15
Alignment explanation
Indices: 146462--146514 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
146452 TAAAATATAT
146462 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
146478 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
146493 ACTTTATATATTTTTT
1 A-TTTATATATTTTTA
146509 ATTTAT
1 ATTTAT
146515 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:156453 original size:24 final size:25
Alignment explanation
Indices: 156426--156477 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
156416 TCTTATTTTA
*
156426 ATTTAATATTTA-ATAATTTTATAT
1 ATTTAATATTTATAAAATTTTATAT
**
156450 ATTTTTTATTTATTAAAATTTTATAT
1 ATTTAATATTTA-TAAAATTTTATAT
156476 AT
1 AT
156478 AGTTACCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
26 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTAATATTTATAAAATTTTATAT
Found at i:159972 original size:2 final size:2
Alignment explanation
Indices: 159965--159989 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
159955 CATGGTTTTA
159965 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
159990 AGTTTCTTAG
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:170058 original size:9 final size:9
Alignment explanation
Indices: 170000--170057 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
169990 GTAGTGATTC
*
170000 AATTTGGTT
1 AATTCGGTT
170009 AATTCGGTT
1 AATTCGGTT
*
170018 AATTCGGGT
1 AATTCGGTT
170027 AATTCGGTT
1 AATTCGGTT
170036 AATTCGGTT
1 AATTCGGTT
*
170045 AATTTGGTT
1 AATTCGGTT
170054 AATT
1 AATT
170058 TTTTACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:172835 original size:18 final size:18
Alignment explanation
Indices: 172812--172970 Score: 194
Period size: 18 Copynumber: 8.8 Consensus size: 18
172802 CGTTTATAGT
*
172812 ACTATTTACGTATACGAC
1 ACTATTCACGTATACGAC
*
172830 ACTATTCACGTATACGAT
1 ACTATTCACGTATACGAC
* *
172848 ACTATTCACGTATATGGC
1 ACTATTCACGTATACGAC
* *
172866 ACTATTCATGTATACGAT
1 ACTATTCACGTATACGAC
*
172884 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGAC
*
172902 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGAC
172920 ACTATTCACGTATAC-AGC
1 ACTATTCACGTATACGA-C
* **
172938 ACTATTTACGTATACGGT
1 ACTATTCACGTATACGAC
*
172956 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
172971 AGTAGTTGGG
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
18 121 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:172894 original size:54 final size:54
Alignment explanation
Indices: 172812--172970 Score: 230
Period size: 54 Copynumber: 2.9 Consensus size: 54
172802 CGTTTATAGT
* * *
172812 ACTATTTACGTATACGACACTATTCACGTATACGATACTATTCACGTATATGGC
1 ACTATTCACGTATACGACACTATTCACGTATACGGTACTATTCACGTATACGGC
* * *
172866 ACTATTCATGTATACGATACTATTCACGTATACGGCACTATTCACGTATACGGC
1 ACTATTCACGTATACGACACTATTCACGTATACGGTACTATTCACGTATACGGC
* *
172920 ACTATTCACGTATAC-AGCACTATTTACGTATACGGTACTGTTCACGTATAC
1 ACTATTCACGTATACGA-CACTATTCACGTATACGGTACTATTCACGTATAC
172971 AGTAGTTGGG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (54 bp):
ACTATTCACGTATACGACACTATTCACGTATACGGTACTATTCACGTATACGGC
Found at i:172971 original size:36 final size:36
Alignment explanation
Indices: 172810--172972 Score: 220
Period size: 36 Copynumber: 4.5 Consensus size: 36
172800 ACCGTTTATA
*
172810 GTACTATTTACGTATAC-GACACTATTCACGTATACG
1 GTACTATTCACGTATACAG-CACTATTCACGTATACG
* ** *
172846 ATACTATTCACGTATATGGCACTATTCATGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACG
* *
172882 ATACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACG
* *
172918 GCACTATTCACGTATACAGCACTATTTACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACG
*
172954 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
172973 TAGTTGGGAT
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 113 0.99
37 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGTATACG
Found at i:186288 original size:6 final size:6
Alignment explanation
Indices: 186279--186319 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
186269 GAGATGATGA
* *
186279 GATTGG GATTGG GATTGG CATTGG CATTGG GATT-G GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG
186320 AGGGTTGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.17, C:0.05, G:0.44, T:0.34
Consensus pattern (6 bp):
GATTGG
Found at i:186307 original size:18 final size:17
Alignment explanation
Indices: 186279--186319 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
186269 GAGATGATGA
*
186279 GATTGGGATTGGGATTG
1 GATTGGCATTGGGATTG
186296 GCATTGGCATTGGGATTG
1 G-ATTGGCATTGGGATTG
186314 GATTGG
1 GATTGG
186320 AGGGTTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.17, C:0.05, G:0.44, T:0.34
Consensus pattern (17 bp):
GATTGGCATTGGGATTG
Found at i:196012 original size:18 final size:18
Alignment explanation
Indices: 195999--196109 Score: 90
Period size: 18 Copynumber: 6.4 Consensus size: 18
195989 ATTTTTATTT
195999 AACACGAGAATTTTTGAA
1 AACACGAGAATTTTTGAA
196017 AACACGAGAATTTTT--A
1 AACACGAGAATTTTTGAA
* * *
196033 AACAGGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
196050 AACATGAAAATTTTT-AGA
1 AACACGAGAATTTTTGA-A
*
196068 AACACGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
196085 AACACGACATTTTTTTG-A
1 AACACGAGA-ATTTTTGAA
196103 AACACGA
1 AACACGA
196110 TTTAAAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.16
17 23 0.29
18 44 0.55
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.29
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:196078 original size:35 final size:34
Alignment explanation
Indices: 195999--196109 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 34
195989 ATTTTTATTT
* * *
195999 AACACGAGAATTTTTGAAAACACGAGAATTTTT-A
1 AACACGAAAATTTTAG-AAACACGAAAATTTTTGA
* *
196033 AACAGGAAAATTTTAGAAACATGAAAATTTTTAGA
1 AACACGAAAATTTTAGAAACACGAAAATTTTT-GA
**
196068 AACACGAAAATTTTTA-AAACACGACATTTTTTTGA
1 AACACGAAAA-TTTTAGAAACACGA-AAATTTTTGA
196103 AACACGA
1 AACACGA
196110 TTTAAAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
33 14 0.22
34 13 0.20
35 26 0.41
36 11 0.17
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.29
Consensus pattern (34 bp):
AACACGAAAATTTTAGAAACACGAAAATTTTTGA
Found at i:196099 original size:17 final size:17
Alignment explanation
Indices: 195999--196091 Score: 109
Period size: 18 Copynumber: 5.4 Consensus size: 17
195989 ATTTTTATTT
*
195999 AACACGAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
*
196017 AACACGAGAATTTTT-A
1 AACACGAAAATTTTTAA
*
196033 AACAGGAAAA-TTTTAGA
1 AACACGAAAATTTTTA-A
*
196050 AACATGAAAATTTTTAGA
1 AACACGAAAATTTTTA-A
196068 AACACGAAAATTTTTAA
1 AACACGAAAATTTTTAA
196085 AACACGA
1 AACACGA
196092 CATTTTTTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.06
16 9 0.13
17 18 0.26
18 37 0.54
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (17 bp):
AACACGAAAATTTTTAA
Found at i:196112 original size:16 final size:17
Alignment explanation
Indices: 195974--196109 Score: 66
Period size: 18 Copynumber: 7.9 Consensus size: 17
195964 GTATTTCTTT
195974 TTTTTTTAAAA-ACGAA
1 TTTTTTTAAAACACGAA
*
195990 TTTTTATT-TAACACGAGA
1 TTTTT-TTAAAACACGA-A
* *
196008 ATTTTTGAAAACACGAGA
1 TTTTTTTAAAACACGA-A
* *
196026 -ATTTTT-AAACAGGAA
1 TTTTTTTAAAACACGAA
** *
196041 -AATTTTAGAAACATGAA
1 TTTTTTTA-AAACACGAA
**
196058 AATTTTTAGAAACACGAA
1 TTTTTTTA-AAACACGAA
**
196076 AATTTTTAAAACACGACA
1 TTTTTTTAAAACACGA-A
*
196094 TTTTTTTGAAACACGA
1 TTTTTTTAAAACACGA
196110 TTTAAAAAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.06
16 14 0.14
17 27 0.28
18 51 0.52
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (17 bp):
TTTTTTTAAAACACGAA
Found at i:196160 original size:18 final size:18
Alignment explanation
Indices: 196139--196217 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 18
196129 TGCGAGAATC
196139 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACGAAAAA
* *
196157 TTTTTTACAAACGCGAAAAGTGAAA
1 -TTTTT-GAAACACG-AAA----AA
* *
196182 TTTTTGAAATACGAGAAA
1 TTTTTGAAACACGAAAAA
196200 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
196218 TTTGAAACAC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
18 8 0.18
19 14 0.31
20 6 0.13
21 3 0.07
22 2 0.04
23 5 0.11
24 5 0.11
25 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAA
Found at i:196218 original size:18 final size:18
Alignment explanation
Indices: 196178--196220 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
196168 CGCGAAAAGT
*
196178 GAAATTTTTGAAATACGA
1 GAAATTTTTGAAACACGA
196196 GAAATTTTTGAAAACACGA
1 GAAATTTTTG-AAACACGA
196215 -AAATTT
1 GAAATTT
196221 GAAACACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (18 bp):
GAAATTTTTGAAACACGA
Found at i:196281 original size:79 final size:78
Alignment explanation
Indices: 196198--196373 Score: 237
Period size: 79 Copynumber: 2.2 Consensus size: 78
196188 AAATACGAGA
**
196198 AATTTTTGAAAACACGAAA-ATTTGAAACACAAGGTTTTTTTTTGAAAACACGAAAACACGAAAA
1 AATTTTTGAAAACACGAAATATTTGAAACACAA-G-AATTTTTTGAAAACACGAAAACACGAAAA
* *
196262 TTTGTCAAACACGGG
64 TTTGTAAAACACAGG
* * * *
196277 AATTTTTGAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACACGAAAACACGAAATT
1 AATTTTTGAAAACACGAAA-TATTTGAAACACAAGAATTTTTTGAAAACACGAAAACACGAAAAT
*
196342 TTTTAAAACACAGG
65 TTGTAAAACACAGG
196356 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
196374 TTTTTTTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 75 0.87
80 1 0.01
81 10 0.12
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (78 bp):
AATTTTTGAAAACACGAAATATTTGAAACACAAGAATTTTTTGAAAACACGAAAACACGAAAATT
TGTAAAACACAGG
Found at i:196283 original size:44 final size:42
Alignment explanation
Indices: 196205--196373 Score: 138
Period size: 43 Copynumber: 4.1 Consensus size: 42
196195 AGAAATTTTT
***
196205 GAAAACACGAAAATTTG-AAACACAAGGTTTTTTTTTGAAAACAC
1 GAAAACACGAAAATTTGTAAACAC--GG-GAATTTTTGAAAACAC
196249 GAAAACACGAAAATTTGTCAAACACGGGAATTTTTGAAAACAC
1 GAAAACACGAAAATTTGT-AAACACGGGAATTTTTGAAAACAC
** * *
196292 G-----A--AATTTTTTTAAACACGAGAATTTTTTGAAAACAC
1 GAAAACACGAAAATTTGTAAACACGGGAA-TTTTTGAAAACAC
* * *
196328 GAAAACACGAAATTTTTTAAAACACAGGAATTTTTGAAAACAC
1 GAAAACACGAAAATTTGT-AAACACGGGAATTTTTGAAAACAC
196371 GAA
1 GAA
196374 TTTTTTTTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
35 10 0.10
36 20 0.19
38 1 0.01
41 1 0.01
43 38 0.37
44 28 0.27
46 6 0.06
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (42 bp):
GAAAACACGAAAATTTGTAAACACGGGAATTTTTGAAAACAC
Found at i:196295 original size:35 final size:36
Alignment explanation
Indices: 196249--196332 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 36
196239 TTGAAAACAC
*
196249 GAAAACACGAAAATTTGTCAAACACGGGAA-TTTTT
1 GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
* * *
196284 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTT
1 GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
196320 GAAAACACGAAAA
1 GAAAACACGAAAA
196333 CACGAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 26 0.60
36 17 0.40
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.26
Consensus pattern (36 bp):
GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
Found at i:196301 original size:19 final size:18
Alignment explanation
Indices: 196249--196331 Score: 82
Period size: 18 Copynumber: 4.7 Consensus size: 18
196239 TTGAAAACAC
* *
196249 GAAAACACGAAAATTTGT
1 GAAAACACGAAATTTTTT
* *
196267 -CAAACACGGGAA-TTTTT
1 GAAAACAC-GAAATTTTTT
196284 GAAAACACGAAATTTTTT
1 GAAAACACGAAATTTTTT
*
196302 -TAAACACGAGAATTTTTT
1 GAAAACACGA-AATTTTTT
196320 GAAAACACGAAA
1 GAAAACACGAAA
196332 ACACGAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
17 21 0.40
18 24 0.45
19 8 0.15
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (18 bp):
GAAAACACGAAATTTTTT
Found at i:196349 original size:25 final size:27
Alignment explanation
Indices: 196303--196352 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
196293 AAATTTTTTT
196303 AAACACGAGAATTTTTTGAAAACACGA
1 AAACACGAGAATTTTTTGAAAACACGA
196330 AAACACGA-AATTTTTT-AAAACAC
1 AAACACGAGAATTTTTTGAAAACAC
196353 AGGAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (27 bp):
AAACACGAGAATTTTTTGAAAACACGA
Found at i:196351 original size:17 final size:17
Alignment explanation
Indices: 196250--196419 Score: 99
Period size: 17 Copynumber: 10.2 Consensus size: 17
196240 TGAAAACACG
* *
196250 AAAACACGAAAATTTGT
1 AAAACACGAAATTTTTT
* * *
196267 CAAACACGGGAATTTTTG
1 AAAACAC-GAAATTTTTT
196285 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
*
196302 TAAACACGAGAATTTTTT
1 AAAACACGA-AATTTTTT
196320 GAAAACACG---------
1 -AAAACACGAAATTTTTT
196329 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
* *
196346 AAAACACAGGAATTTTTG
1 AAAACAC-GAAATTTTTT
*
196364 AAAACACGAATTTTTTT
1 AAAACACGAAATTTTTT
* **
196381 TATTCACGAGAA-TTTTT
1 AAAACACGA-AATTTTTT
*
196398 GAAACACGAAATTTTTTT
1 AAAACACGAAA-TTTTTT
196416 AAAA
1 AAAA
196420 GAAAGAGACA
Statistics
Matches: 114, Mismatches: 23, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
8 8 0.07
16 2 0.02
17 53 0.46
18 44 0.39
19 7 0.06
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAACACGAAATTTTTT
Found at i:196362 original size:43 final size:44
Alignment explanation
Indices: 196284--196373 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
196274 GGGAATTTTT
*
196284 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACAC
1 GAAAACACGAAATTTTTTAAAACACGAGAATTTTTTGAAAACAC
196328 GAAAACACGAAATTTTTTAAAACAC-AGGAA-TTTTTGAAAACAC
1 GAAAACACGAAATTTTTTAAAACACGA-GAATTTTTTGAAAACAC
196371 GAA
1 GAA
196374 TTTTTTTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 17 0.39
44 27 0.61
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (44 bp):
GAAAACACGAAATTTTTTAAAACACGAGAATTTTTTGAAAACAC
Found at i:196379 original size:35 final size:35
Alignment explanation
Indices: 196328--196419 Score: 116
Period size: 35 Copynumber: 2.6 Consensus size: 35
196318 TTGAAAACAC
*
196328 GAAAACACGAAATTTTTTAAAACAC-AGGAATTTTT
1 GAAAACACGAATTTTTTTAAAACACGA-GAATTTTT
* **
196363 GAAAACACGAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAATTTTTTTAAAACACGAGAATTTTT
196398 G-AAACACGAAATTTTTTTAAAA
1 GAAAACACG-AATTTTTTTAAAA
196420 GAAAGAGACA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 7 0.15
35 40 0.83
36 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (35 bp):
GAAAACACGAATTTTTTTAAAACACGAGAATTTTT
Found at i:196379 original size:79 final size:79
Alignment explanation
Indices: 196235--196408 Score: 271
Period size: 79 Copynumber: 2.2 Consensus size: 79
196225 CACAAGGTTT
* *
196235 TTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGGGAATTTTTGAAAACACGAAATTTT
1 TTTTTTGAAAACACGAAAACACGAAAATTTGTAAAACACAGGAATTTTTGAAAACACGAAATTTT
196300 TTTAAACACGAGAA
66 TTTAAACACGAGAA
* * *
196314 TTTTTTGAAAACACGAAAACACGAAATTTTTTAAAACACAGGAATTTTTGAAAACACGAATTTTT
1 TTTTTTGAAAACACGAAAACACGAAAATTTGTAAAACACAGGAATTTTTGAAAACACGAAATTTT
**
196379 TTTATTCACGAGAA
66 TTTAAACACGAGAA
196393 -TTTTTG-AAACACGAAA
1 TTTTTTGAAAACACGAAA
196409 TTTTTTTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
77 10 0.11
78 6 0.07
79 72 0.82
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (79 bp):
TTTTTTGAAAACACGAAAACACGAAAATTTGTAAAACACAGGAATTTTTGAAAACACGAAATTTT
TTTAAACACGAGAA
Found at i:196516 original size:17 final size:17
Alignment explanation
Indices: 196470--196518 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
196460 TATTATTATT
*
196470 ATTTTGAAACACGAGAA
1 ATTTTGAAACATGAGAA
196487 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACATGAGAA
196504 ATTTTTGAAACATGA
1 A-TTTTGAAACATGA
196519 TTTTTCTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (17 bp):
ATTTTGAAACATGAGAA
Found at i:197319 original size:6 final size:6
Alignment explanation
Indices: 197308--197397 Score: 92
Period size: 6 Copynumber: 14.3 Consensus size: 6
197298 CTGACTATAA
197308 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT- TCTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC
** * *
197356 TTCTCAC TTTTTC TTCTTTT TTCTTTC TTCTTTC TTCTTC TT
1 TT-TTTC TTTTTC TT-TTTC TT-TTTC TT-TTTC TTTTTC TT
197398 CGGGCCGCAC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
5 1 0.01
6 49 0.67
7 23 0.32
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:197372 original size:21 final size:20
Alignment explanation
Indices: 197344--197394 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
197334 TTTCTTTTTC
197344 TTTT-TTCTTTTCTTCTCACT
1 TTTTCTTCTTTT-TTCTCACT
**
197364 TTTTCTTCTTTTTTCTTTCT
1 TTTTCTTCTTTTTTCTCACT
197384 TCTTTCTTCTT
1 T-TTTCTTCTT
197395 CTTCGGGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTTCTTTTTTCTCACT
Found at i:197556 original size:19 final size:17
Alignment explanation
Indices: 197532--197570 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
197522 TTTTCTCATT
197532 TTTTGCTACTGCGTTTTTG
1 TTTTGCTACT-C-TTTTTG
*
197551 TTTTGCTTCTCTTTTTG
1 TTTTGCTACTCTTTTTG
197568 TTT
1 TTT
197571 CGATTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.03, C:0.15, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTTGCTACTCTTTTTG
Found at i:198006 original size:30 final size:28
Alignment explanation
Indices: 197957--198055 Score: 83
Period size: 30 Copynumber: 3.4 Consensus size: 28
197947 AAATTGTAAT
* * *
197957 TTTTTGAAATTTTAGGGGTTAAAGTGAAA
1 TTTTAGAAAGTTTAAGGGTTAAA-TGAAA
*
197986 TTTTGAGAAAGTTTAAGGGTTGAAATGTAA
1 TTTT-AGAAAGTTTAAGGGTT-AAATGAAA
*
198016 TTTTAGAAAAGTTT-AGGGTCAAAATGTAAA
1 TTTTAG-AAAGTTTAAGGGT-TAAATG-AAA
*
198046 TTTTAAAAAG
1 TTTTAGAAAG
198056 GTTTGGGGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
29 20 0.34
30 35 0.60
31 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.37
Consensus pattern (28 bp):
TTTTAGAAAGTTTAAGGGTTAAATGAAA
Found at i:198033 original size:29 final size:28
Alignment explanation
Indices: 197984--198108 Score: 124
Period size: 30 Copynumber: 4.2 Consensus size: 28
197974 GTTAAAGTGA
* **
197984 AATTTTGAGAAAGTTTAAGGGTTGAAATGT
1 AATTTT-AAAAAGTTT-AGGGTCAAAATGT
198014 AATTTTAGAAAAGTTTAGGGTCAAAATGT
1 AATTTTA-AAAAGTTTAGGGTCAAAATGT
* *
198043 AAATTTTAAAAAGGTTTGGGGTCAAAATAT
1 -AATTTTAAAAA-GTTTAGGGTCAAAATGT
* *
198073 AAGTTTTAAAAAGTATAGGGGTCAAAATGC
1 AA-TTTTAAAAAGTTTA-GGGTCAAAATGT
198103 AATTTT
1 AATTTT
198109 TTATTTTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
29 25 0.31
30 56 0.69
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (28 bp):
AATTTTAAAAAGTTTAGGGTCAAAATGT
Found at i:198047 original size:60 final size:60
Alignment explanation
Indices: 197969--198101 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 60
197959 TTTGAAATTT
* * * ** * *
197969 TAGGGGTTAAAGTG-AAATTTTGAGAAA-GTTTAAGGGTTGAAATGTAA-TTTTAGAAAAGTT
1 TAGGGGTCAAAATGTAAATTTT-AAAAAGGTTT-AGGGTCAAAATATAAGTTTTA-AAAAGTA
*
198029 TA-GGGTCAAAATGTAAATTTTAAAAAGGTTTGGGGTCAAAATATAAGTTTTAAAAAGTA
1 TAGGGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGTCAAAATATAAGTTTTAAAAAGTA
198088 TAGGGGTCAAAATG
1 TAGGGGTCAAAATG
198102 CAATTTTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
59 32 0.52
60 29 0.48
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (60 bp):
TAGGGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGTCAAAATATAAGTTTTAAAAAGTA
Found at i:212574 original size:295 final size:295
Alignment explanation
Indices: 212044--212633 Score: 1180
Period size: 295 Copynumber: 2.0 Consensus size: 295
212034 TGCCTATAAG
212044 ACCAAGTGCTAAGGAGATCGGTACCGGCATCTGTTCAAGTCTTGGGAAAGGAGAAAATATGTATT
1 ACCAAGTGCTAAGGAGATCGGTACCGGCATCTGTTCAAGTCTTGGGAAAGGAGAAAATATGTATT
212109 GGGGGAGTTTTTCCACCTCAGGGTTAACCCGACTTAACTCAGAATAGTCGGCGCCAATGTGACTG
66 GGGGGAGTTTTTCCACCTCAGGGTTAACCCGACTTAACTCAGAATAGTCGGCGCCAATGTGACTG
212174 CTGATACCAGTTCTTAAACAAACAAAAAAAAAACAGTAGAAAATAGTGGCAAATGCGAGGACGAA
131 CTGATACCAGTTCTTAAACAAACAAAAAAAAAACAGTAGAAAATAGTGGCAAATGCGAGGACGAA
212239 GCTACAGATAAATGCAGCATACAAAAGAAAAAAAAAAGGCAAAATATTCTTAAAGTTAATTAGCT
196 GCTACAGATAAATGCAGCATACAAAAGAAAAAAAAAAGGCAAAATATTCTTAAAGTTAATTAGCT
212304 AAAATTAATGAGTTTCAGAGAAAGAAAATTTTCAA
261 AAAATTAATGAGTTTCAGAGAAAGAAAATTTTCAA
212339 ACCAAGTGCTAAGGAGATCGGTACCGGCATCTGTTCAAGTCTTGGGAAAGGAGAAAATATGTATT
1 ACCAAGTGCTAAGGAGATCGGTACCGGCATCTGTTCAAGTCTTGGGAAAGGAGAAAATATGTATT
212404 GGGGGAGTTTTTCCACCTCAGGGTTAACCCGACTTAACTCAGAATAGTCGGCGCCAATGTGACTG
66 GGGGGAGTTTTTCCACCTCAGGGTTAACCCGACTTAACTCAGAATAGTCGGCGCCAATGTGACTG
212469 CTGATACCAGTTCTTAAACAAACAAAAAAAAAACAGTAGAAAATAGTGGCAAATGCGAGGACGAA
131 CTGATACCAGTTCTTAAACAAACAAAAAAAAAACAGTAGAAAATAGTGGCAAATGCGAGGACGAA
212534 GCTACAGATAAATGCAGCATACAAAAGAAAAAAAAAAGGCAAAATATTCTTAAAGTTAATTAGCT
196 GCTACAGATAAATGCAGCATACAAAAGAAAAAAAAAAGGCAAAATATTCTTAAAGTTAATTAGCT
212599 AAAATTAATGAGTTTCAGAGAAAGAAAATTTTCAA
261 AAAATTAATGAGTTTCAGAGAAAGAAAATTTTCAA
212634 TACCTTTCCT
Statistics
Matches: 295, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
295 295 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (295 bp):
ACCAAGTGCTAAGGAGATCGGTACCGGCATCTGTTCAAGTCTTGGGAAAGGAGAAAATATGTATT
GGGGGAGTTTTTCCACCTCAGGGTTAACCCGACTTAACTCAGAATAGTCGGCGCCAATGTGACTG
CTGATACCAGTTCTTAAACAAACAAAAAAAAAACAGTAGAAAATAGTGGCAAATGCGAGGACGAA
GCTACAGATAAATGCAGCATACAAAAGAAAAAAAAAAGGCAAAATATTCTTAAAGTTAATTAGCT
AAAATTAATGAGTTTCAGAGAAAGAAAATTTTCAA
Found at i:213098 original size:6 final size:6
Alignment explanation
Indices: 213087--213116 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
213077 AAGATGATGA
213087 GATTGG GATTGG GATTGG GATTGG GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG
213117 AGGGTTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GATTGG
Found at i:219217 original size:42 final size:42
Alignment explanation
Indices: 219110--219217 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 42
219100 ATCGATGTCG
* *
219110 ATGCCATGTCTCAGACATGGTATTACACGAGATCACACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACGCCA
* * *
219152 ATGCCATGTCCCAAACATAGTCTTACACGAGATCACATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACGCCA
* *
219194 ATGTCATGTCCCAGTCATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
219218 CCACTGGCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACGCCA
Found at i:221849 original size:26 final size:26
Alignment explanation
Indices: 221819--221875 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
221809 ATAGCTCTTA
*
221819 TGAGCGTCCAGA-TATATGACTCTTTG
1 TGAGCGTCCAGATTA-AAGACTCTTTG
* * *
221845 TGAGCTTCCTGATTAAAGGCTCTTTG
1 TGAGCGTCCAGATTAAAGACTCTTTG
221871 TGAGC
1 TGAGC
221876 TTCCTGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (26 bp):
TGAGCGTCCAGATTAAAGACTCTTTG
Found at i:221891 original size:25 final size:26
Alignment explanation
Indices: 221838--221892 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
221828 AGATATATGA
221838 CTCTTTGTGAGCTTCCTGATTAAAGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
*
221864 CTCTTTGTGAGCTTCCTG-TTAATGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
221889 CTCT
1 CTCT
221893 CCGGTGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.42
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGATTAAAGG
Found at i:228131 original size:15 final size:15
Alignment explanation
Indices: 228111--228143 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
228101 ATAACATAAG
*
228111 AGAAGAAAAAGAAGA
1 AGAAGAAAAAGAAAA
228126 AGAAGAAAAAGAAAA
1 AGAAGAAAAAGAAAA
228141 AGA
1 AGA
228144 GATTGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAGAAAA
Found at i:235453 original size:17 final size:17
Alignment explanation
Indices: 235418--235461 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
235408 TAAAATTTAT
*
235418 AAATTTATAGAAAAAATC
1 AAATTT-TATAAAAAATC
*
235436 AAATTTTATAAAATATC
1 AAATTTTATAAAAAATC
235453 AAATTTTAT
1 AAATTTTAT
235462 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATTTTATAAAAAATC
Found at i:235523 original size:19 final size:19
Alignment explanation
Indices: 235469--235526 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
235459 TATGTATTTT
*
235469 AAATTTAATAATA-ATATAA
1 AAATTTAA-AATATATAAAA
* * *
235488 AAATATGATAATTTATAAAA
1 AAAT-TTAAAATATATAAAA
235508 AAATTTAAAATATATAAAA
1 AAATTTAAAATATATAAAA
235527 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTTAAAATATATAAAA
Found at i:235778 original size:22 final size:22
Alignment explanation
Indices: 235718--235774 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
235708 TTGCCCACTC
**
235718 ATATTATTTTTAAAATATATATTT
1 ATATTA-TTTTAATTTA-ATATTT
235742 ATATTATTTTAATTTAATATTT
1 ATATTATTTTAATTTAATATTT
235764 A-A-TATTTTAAT
1 ATATTATTTTAAT
235775 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.29
21 1 0.03
22 7 0.23
23 8 0.26
24 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTATTTTAATTTAATATTT
Found at i:235784 original size:15 final size:15
Alignment explanation
Indices: 235742--235785 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
235732 ATATATATTT
*
235742 ATATTATTTTAATTTA
1 ATATT-TTTTATTTTA
**
235758 ATATTTAATATTTTA
1 ATATTTTTTATTTTA
235773 ATATTTTTTATTT
1 ATATTTTTTATTT
235786 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTTTTATTTTA
Found at i:235795 original size:17 final size:17
Alignment explanation
Indices: 235770--235803 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
235760 ATTTAATATT
* *
235770 TTAATATTTTTTATTTA
1 TTAAAATTTTATATTTA
235787 TTAAAATTTTATATTTA
1 TTAAAATTTTATATTTA
235804 GTTTTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAAAATTTTATATTTA
Found at i:236191 original size:10 final size:10
Alignment explanation
Indices: 236171--236204 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
236161 TAGTTTTAAT
236171 ATTTT-TATA
1 ATTTTATATA
236180 ATTTTATATA
1 ATTTTATATA
236190 ATTTTATAT-
1 ATTTTATATA
236199 ATTTTA
1 ATTTTA
236205 GATTGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 11 0.46
10 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTATATA
Found at i:237094 original size:16 final size:17
Alignment explanation
Indices: 237062--237127 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 17
237052 ACATAATGTA
237062 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
237079 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
* * *
237095 TTATAAA-ATTTAAATT
1 TAATAAATATATAAAAT
*
237111 TAAT-GATAATATAAAAT
1 TAATAAAT-ATATAAAAT
237128 ATATAATAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.08
16 19 0.50
17 16 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:239536 original size:10 final size:10
Alignment explanation
Indices: 239523--239549 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
239513 TAAACAAATA
239523 TAATAATAAT
1 TAATAATAAT
239533 TAATAATAAT
1 TAATAATAAT
239543 TAATAAT
1 TAATAAT
239550 TAATATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:240175 original size:43 final size:43
Alignment explanation
Indices: 240010--240177 Score: 214
Period size: 43 Copynumber: 3.9 Consensus size: 43
240000 ACGTGTGGCT
* *
240010 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTATAGACCGAA-
1 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACC-AAG
* * * *
240053 ACCTTTAACGGCGCTTATCCCATAAACGCCGCTAAAGACCAAG
1 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACCAAG
* *
240096 -ACTTTTAGAGGCGCTTCTCCCACAAACGCCGCTAAAAACCAAG
1 AAC-TTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACCAAG
* *
240139 AACTTTAGCGGCGCTTTTCCCACAAACTCCGCTAAAAAC
1 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAAC
240178 ATTATTTAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.03
43 104 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (43 bp):
AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACCAAG
Found at i:244945 original size:81 final size:82
Alignment explanation
Indices: 244708--244938 Score: 326
Period size: 81 Copynumber: 2.9 Consensus size: 82
244698 CAAAATATTT
* * *
244708 TTAGCGGCGCTTTT--TAAAACGCCGCTAAAGACCCCAACATTAGCGGCGCTTTCTCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCATTAGCGGCGCTTTTTCAAAAACGC
*
244771 CGCTAAAGACCCCAGCA
66 CGCTAAAGACCCCAACA
* * * *
244788 TTAGCGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGT-ATTCGCGGCG-ATTTTCAAAAACA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCA-TCATTAGCGGCGCTTTTTCAAAAACG
244851 CCGCTAAAGACCCCAACA
65 CCGCTAAAGACCCCAACA
* * *
244869 TTAGCGGCGCTTTTCCAAAAACACCGCTAAAGACCCCATCATTAACGACGCTTTTTCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCATTAGCGGCGCTTTTTCAAAAACGC
244934 CGCTA
66 CGCTA
244939 CAACCCCCAA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 15 0.11
81 70 0.53
82 46 0.35
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (82 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCATTAGCGGCGCTTTTTCAAAAACGC
CGCTAAAGACCCCAACA
Found at i:244947 original size:41 final size:41
Alignment explanation
Indices: 244708--244938 Score: 315
Period size: 41 Copynumber: 5.7 Consensus size: 41
244698 CAAAATATTT
244708 TTAGCGGCGCTTTTT--AAAACGCCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* *
244747 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* * **
244788 TTAGCGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* * *
244829 TTCGCGGCG-ATTTTCAAAAACACCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* * *
244869 TTAGCGGCGCTTTTCCAAAAACACCGCTAAAGACCCCATCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* *
244910 TTAACGACGCTTTTTCAAAAACGCCGCTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTA
244939 CAACCCCCAA
Statistics
Matches: 168, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.08
40 33 0.20
41 121 0.72
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
Found at i:245015 original size:16 final size:16
Alignment explanation
Indices: 244994--245025 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
244984 TGCGGCGTTA
244994 AAAAACGCCGCTAATG
1 AAAAACGCCGCTAATG
245010 AAAAACGCCGCTAATG
1 AAAAACGCCGCTAATG
245026 CTCTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAACGCCGCTAATG
Found at i:253258 original size:15 final size:15
Alignment explanation
Indices: 253234--253263 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
253224 AATAATGTAC
*
253234 ATATAGTAATAATAA
1 ATATAATAATAATAA
253249 ATATAATAATAATAA
1 ATATAATAATAATAA
253264 TAAACCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAATAATAATAA
Found at i:255108 original size:87 final size:87
Alignment explanation
Indices: 254999--255303 Score: 391
Period size: 87 Copynumber: 3.5 Consensus size: 87
254989 ACAGGAATGC
* * *
254999 AAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCCACCTG
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
255064 CTCCAGTACTACTTAGGGAGAT
66 CTCCAGTACTACTTAGGGAGAT
* * * *
255086 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGGTCTTCGATCTA
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
* * * * * *
255151 CTTCGCTGCCAATAC--AAGAAGAC
66 C-TC-CAG-TACTACTTAGGGAGAT
*
255174 AAGATCTGCT-ATTTTCAACCTACTCCACTACTGCTCAAGGAGACAAGGCTGGGGACTTCGATCT
1 AAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCT
* * *
255238 GCTCCACTACTGCTTTGGGAGAT
65 GCTCCAGTACTACTTAGGGAGAT
*
255261 AAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
255304 TAGGATTCAT
Statistics
Matches: 182, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
85 3 0.02
86 2 0.01
87 104 0.57
88 66 0.36
89 3 0.02
90 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (87 bp):
AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
CTCCAGTACTACTTAGGGAGAT
Found at i:255126 original size:44 final size:44
Alignment explanation
Indices: 254998--255381 Score: 165
Period size: 44 Copynumber: 8.8 Consensus size: 44
254988 TACAGGAATG
*
254998 CAAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* ** * * * * * * * *
255042 CAAG-GCTGGGGA-CTTCCACCTGCTCCAGTACTACTTAGGGAGA
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* * *
255085 TAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTGAGGGAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* *** * * * * * *** *
255129 CAAG-GCTGGGGTCTTCGATCTACTTCGCTGCCAATACAAGAAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT-CAAGGAGA
*
255173 CAAGATCTGCT-ATTTTCAACCTACTCCACTACTGCTCAAGGAGA
1 CAAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* ** * * * * * ***
255217 CAAG-GCTGGGGA-CTTCGATCTGCTCCACTACTGCTTTGGGAGA
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* *
255260 TAAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* * * * * *
255304 TAGGAT-TCATAATCTTCAACCTATTCCACTGCTG-TCCAGGGAGA
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTGCT-CAAGGAGA
* * ** *
255348 TAGGA-CTCACAATTTTCAACCTATTCCACTGCTG
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTG
255382 TCCATGGAGA
Statistics
Matches: 247, Mismatches: 80, Indels: 26
0.70 0.23 0.07
Matches are distributed among these distances:
43 82 0.33
44 147 0.60
45 18 0.07
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
Found at i:255194 original size:175 final size:175
Alignment explanation
Indices: 254965--255295 Score: 529
Period size: 175 Copynumber: 1.9 Consensus size: 175
254955 AGGACTGGTA
* * * * * *
254965 TCTTCGATCTGCTTCGCCGTCAGTACAGGAATGCAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCCGCCAATACAAGAATGCAAGATCTGCTATTTTCAACCTACTCCACTAC
* *
255030 TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCAGTACTACTTAGGGAGATAAGATCTGT
66 TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATGT
255095 AATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
131 AATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
*
255140 TCTTCGATCTACTTCGCTGCCAATACAAGAA-GACAAGATCTGCTATTTTCAACCTACTCCACTA
1 TCTTCGATCTACTTCGCCGCCAATACAAGAATG-CAAGATCTGCTATTTTCAACCTACTCCACTA
* * * *
255204 CTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATATG
65 CTGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATG
255269 TAATTTTCAACCTACTCCACTGCTGCT
130 TAATTTTCAACCTACTCCACTGCTGCT
255296 CAAGGAGATA
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
174 1 0.01
175 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (175 bp):
TCTTCGATCTACTTCGCCGCCAATACAAGAATGCAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATGT
AATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
Found at i:255382 original size:44 final size:44
Alignment explanation
Indices: 255274--255486 Score: 268
Period size: 44 Copynumber: 4.8 Consensus size: 44
255264 ATATGTAATT
* *
255274 TTCAACCTACTCCACTGCTG-CTCAAGGAGATAGGATTCATAATC
1 TTCAACCTATTCCACTGCTGTC-CAAGGAGATAGGATTCACAATC
* * *
255318 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTCACAATT
1 TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
*
255362 TTCAACCTATTCCACTGCTGTCCATGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
* * * *
255406 TTCGACCTATTCCATTGTTGTCCAATGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
* * * *
255450 TTCAAACTATTTCACTACTGT-CTAGAGAGATAGGATT
1 TTCAACCTATTCCACTGCTGTCCAAG-GAGATAGGATT
255487 TATAACTTCA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
43 2 0.01
44 143 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
Found at i:265061 original size:27 final size:28
Alignment explanation
Indices: 265031--265090 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
265021 AAAAAATAAA
*
265031 AAAATAACTA-AAACTTTTTTATTTATC
1 AAAATAACTATAAACTTTTTTATTTACC
* *
265058 AAAAT-ATTATAAATTTTTTTATTTACC
1 AAAATAACTATAAACTTTTTTATTTACC
265085 AAAATA
1 AAAATA
265091 TATCAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAATAACTATAAACTTTTTTATTTACC
Found at i:265809 original size:28 final size:28
Alignment explanation
Indices: 265778--265833 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
265768 CTATTTTAAT
265778 TTTAAAAAATTAAATTAAATTAAAATAG
1 TTTAAAAAATTAAATTAAATTAAAATAG
*** **
265806 TTTACTTAATTTTATTAAATTAAAATAG
1 TTTAAAAAATTAAATTAAATTAAAATAG
265834 AGTTATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (28 bp):
TTTAAAAAATTAAATTAAATTAAAATAG
Found at i:265841 original size:19 final size:19
Alignment explanation
Indices: 265817--265879 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
265807 TTACTTAATT
265817 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
265836 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
265854 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
265873 TTATTAA
1 TTATTAA
265880 TGCTTACAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
18 15 0.41
19 22 0.59
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:266369 original size:16 final size:16
Alignment explanation
Indices: 266334--266369 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
266324 TGGTTTACTG
* *
266334 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTC
266350 TAATGGAATAGAGCTC
1 TAATGGAATAGAGCTC
266366 TAAT
1 TAAT
266370 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTC
Found at i:266663 original size:58 final size:58
Alignment explanation
Indices: 266533--266669 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
266523 TAGTGTTATT
*
266533 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGC
1 AAATTTTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
* * * * * *
266591 ATATTTAAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
266648 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
266670 ATGAATTTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 22 0.33
58 44 0.66
59 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (58 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
Found at i:268637 original size:31 final size:31
Alignment explanation
Indices: 268602--268662 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
268592 TTTATAAATT
268602 GTGAATTATTTAAAAAATTTTATTTAAGTCA
1 GTGAATTATTTAAAAAATTTTATTTAAGTCA
* ** *
268633 GTGAATTATTTTAAAGTTTTTATTTGAGTC
1 GTGAATTATTTAAAAAATTTTATTTAAGTC
268663 GTTGAGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.49
Consensus pattern (31 bp):
GTGAATTATTTAAAAAATTTTATTTAAGTCA
Found at i:268673 original size:31 final size:31
Alignment explanation
Indices: 268619--268701 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
268609 ATTTAAAAAA
* *
268619 TTTTATTTAAGTCAG-TGAATTATTTTAAAGT
1 TTTTATTTGAGTC-GTTGAGTTATTTTAAAGT
268650 TTTTATTTGAGTCGTTGAGTTATTTTAAAGT
1 TTTTATTTGAGTCGTTGAGTTATTTTAAAGT
* * *
268681 TTTTACTGGAGTCATTGAGTT
1 TTTTATTTGAGTCGTTGAGTT
268702 GTTGAGTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (31 bp):
TTTTATTTGAGTCGTTGAGTTATTTTAAAGT
Found at i:269415 original size:411 final size:434
Alignment explanation
Indices: 268941--270274 Score: 1370
Period size: 464 Copynumber: 3.0 Consensus size: 434
268931 CAAAATCGGG
* *
268941 TTTTT-TACCTAAATAATATTAAAAATATATATATACTAAAATGGCATG-TTCTAAAAATTATGT
1 TTTTTATACCTAAATAATATT-AAAATATATATATACTGAAATGACATGTTTC-AAAAATTATGT
* * * * * *
269004 ACCAAAATGGTATATTTAAAAGGGTGGA-GGATGGTGCATAAGCAGCACCGCCCTAATA-T-T-A
64 ACCAAAATGGTACATTCAAAGGGGTAGATGG-TGGTGCATAGGCGGCACCGCCCTAATATTCTGA
* *
269065 -A-AA-TAG-T-AACAATATTTTAGTAGTGGTGCCTATCTGATA-G-ACGA-C-ACCCTTATCTG
128 CATAATTAGTTAAAAAATATTTTAGTAGTGGTGCCTATCTGATAGGAAC-ACCGACCCCTATCTG
* *
269121 ATA-G-GT-G-G-T-ATA-C-CTA-AC-A-T-TTTTCCCCATTTGGCTCAATTTTAAAGTATCAG
192 ATAGGAGTGGTGCTGATAGCGCTACACTAGTATTTTCCCCATTCGGCTCAAGTTTAAAGTATCAG
* * *
269174 TTTAAAAAAATATATCTTTTACCTCCAT-A-AAAAAATTTTATATTAAAATAAT-AAA-AAGAT-
257 TTT-AAAAAATATA--TTTTACCTCCATAATAAAAAAATATATATTAAAATAATAAAATAACATG
* *
269234 GACAAGAAAAAAATATAACAAAAAATATAACGTAAACGATACATAATAAATAC-A-AATATTATT
319 GA-AAGAAAAAAATATAAC-AAAAACATAACATAAACGATACATAATAAATACGAGAATATTATT
*
269297 ATTATTTTAAAATGATAATAAGTAAAATGTATTGGTTTAAAATATAATAGGGTT
382 ATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAATATAATAGGG-T
*
269351 TTTTTATACCTAAATAATATTAAATATATATATATACTGAAATGATATGTTTCAAAAATTATGTA
1 TTTTTATACCTAAATAATATTAAA-ATATATATATACTGAAATGACATGTTTCAAAAATTATGTA
* *
269416 CCAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCTTGATATTCTGACA
65 CCAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCCTAATATTCTGACA
269481 TAATTTAGTTAAAAAAAAATATTTTAGTAGTGGTGCCTATCTGATAGGCAACACCAGTGACCCCT
130 TAA-TTAGTT---AAAAAATATTTTAGTAGTGGTGCCTATCTGATAGG-AACACC---GACCCCT
*
269546 ATCTGATAGGCGGAACTTGTGGTGCCTATCTGATAGGCGGTACACTTAGTATTTTCCCCATTCGG
187 ATCTGATA---GG-A---GTGGTG-----CTGATA-GCGCTACAC-TAGTATTTTCCCCATTCGG
269611 CTCAAGTTTAAAGTATCAGTTTAAAAAATATATTTTACCTCCATAAAGAATAAAAAAATATATAT
238 CTCAAGTTTAAAGTATCAGTTTAAAAAATATATTTTACCTCCAT----AATAAAAAAATATATAT
*
269676 TAAAATAATAAAAATAACATGGAAATAAAAAAATATAACAAAAACATAACATAAACGATACATAA
299 TAAAATAAT-AAAATAACATGGAAAGAAAAAAATATAACAAAAACATAACATAAACGATACATAA
* *
269741 TAAATACGAGTATTTTTATTATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAATAT
363 TAAATACGAG-AATATTATTATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAATAT
269806 AATAGGGT
427 AATAGGGT
*
269814 TTTTTATACCTAAATAATATTAAAA-ATATATATACTGAAATGACATGTTCCAAAAATTATGTAC
1 TTTTTATACCTAAATAATATTAAAATATATATATACTGAAATGACATGTTTCAAAAATTATGTAC
* *
269878 CAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCTTGATATTCTGACAT
66 CAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCCTAATATTCTGACAT
* * ** * ***
269943 AATTTAGTTAAAAAATAATAATATTTTAGTAGTGGTGCATATTTGATAGGCGGCACTTGTGGTGC
131 AA-TTAGTT----AA-AA-AATATTTTAGTAGTGGTGCCTATCTGATAGG-AACAC---CGACCC
* * *
270008 CTACCTGATAGGCGGCACTTGTGGTGCCTATCTGATAGGCGATACACTTAGTATTTTCCCCATCC
185 CTATCTGATA---GG-A---GTGGTG-----CTGATA-GCGCTACAC-TAGTATTTTCCCCATTC
* *
270073 GGCTCAAGTTTAAAGTATCAGTTTAAAAAATATATATTTTACCTCCATAAAAAATAAAAAATAAA
236 GGCTCAAGTTTAAAGTATCAGTTT-AAAAA-ATATATTTTACCTCCAT--AATA-AAAAAATATA
* *
270138 TATTAAAATAATAAAAATAACATGGCAATAAAAAAATATAACAAAAACATAACATAAACGATACA
296 TATTAAAATAAT-AAAATAACATGGAAAGAAAAAAATATAACAAAAACATAACATAAACGATACA
* * *
270203 TAATAAATACGAGTATTTTTATTATTATTTTAAAATGATAATAAGTAAAATGTATTGGTTTAAAA
360 TAATAAATACGAG-AATATTATTATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAA
270268 TATAATA
424 TATAATA
270275 TATATAATAA
Statistics
Matches: 808, Mismatches: 44, Indels: 89
0.86 0.05 0.09
Matches are distributed among these distances:
410 8 0.01
411 94 0.12
412 6 0.01
413 1 0.00
414 1 0.00
415 1 0.00
416 2 0.00
418 3 0.00
419 1 0.00
423 31 0.04
424 1 0.00
425 1 0.00
426 3 0.00
430 13 0.02
434 1 0.00
439 2 0.00
440 1 0.00
441 1 0.00
447 1 0.00
448 3 0.00
450 1 0.00
451 2 0.00
452 2 0.00
453 12 0.01
454 1 0.00
455 11 0.01
456 34 0.04
458 1 0.00
459 21 0.03
461 145 0.18
462 26 0.03
463 29 0.04
464 182 0.23
465 149 0.18
466 17 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (434 bp):
TTTTTATACCTAAATAATATTAAAATATATATATACTGAAATGACATGTTTCAAAAATTATGTAC
CAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCCTAATATTCTGACAT
AATTAGTTAAAAAATATTTTAGTAGTGGTGCCTATCTGATAGGAACACCGACCCCTATCTGATAG
GAGTGGTGCTGATAGCGCTACACTAGTATTTTCCCCATTCGGCTCAAGTTTAAAGTATCAGTTTA
AAAAATATATTTTACCTCCATAATAAAAAAATATATATTAAAATAATAAAATAACATGGAAAGAA
AAAAATATAACAAAAACATAACATAAACGATACATAATAAATACGAGAATATTATTATTATTTTA
AAATAATAATAAGTAAAATGTATTGGTTTAAAATATAATAGGGT
Found at i:269709 original size:19 final size:20
Alignment explanation
Indices: 269659--269712 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
269649 CTCCATAAAG
* *
269659 AATAAAAAAATATATATTAA
1 AATAAAAAAATATACATGAA
*
269679 AATAATAAAAATA-ACATGGA
1 AATAA-AAAAATATACATGAA
269699 AATAAAAAAATATA
1 AATAAAAAAATATA
269713 ACAAAAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.24
20 15 0.52
21 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
AATAAAAAAATATACATGAA
Found at i:270016 original size:27 final size:27
Alignment explanation
Indices: 269986--270048 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
269976 GGTGCATATT
269986 TGATAGGCGGCACTTGTGGTGCCTACC
1 TGATAGGCGGCACTTGTGGTGCCTACC
*
270013 TGATAGGCGGCACTTGTGGTGCCTATC
1 TGATAGGCGGCACTTGTGGTGCCTACC
270040 TGATAGGCG
1 TGATAGGCG
270049 ATACACTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (27 bp):
TGATAGGCGGCACTTGTGGTGCCTACC
Found at i:271156 original size:44 final size:44
Alignment explanation
Indices: 271063--271153 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 44
271053 AAGAAAATTA
271063 AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
1 AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
*
271107 AAATAATTTAATC-TGAAATAAATTTAAATTTAAGTAAATAAAGAC
1 AAATAATTTAATCTTG--ATAAATTTAAATGTAAGTAAATAAAGAC
271152 AA
1 AA
271154 TAAATAACGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 2 0.05
44 13 0.30
45 29 0.66
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (44 bp):
AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
Found at i:271959 original size:90 final size:91
Alignment explanation
Indices: 271804--272032 Score: 385
Period size: 90 Copynumber: 2.5 Consensus size: 91
271794 CAAAATAATA
271804 GTATT-ATTTCTTTAGAATGTTTGT-TTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
271867 TTAAGGTTTCATTTTTATATTTTCGT
66 TTAAGGTTTCATTTTTATATTTTCGT
*
271893 GTATTAATTTC-TTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGTAT
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
271957 TTAAGGTTTCATTTTTATATTTTCGT
66 TTAAGGTTTCATTTTTATATTTTCGT
* * *
271983 GTATTAATTTCTTTA-AATGTTTGTATTTTTTTTGTATTTGTAAATTTAAT
1 GTATTAATTTCTTTAGAATGTTTGTA-TTTTTTTATATCTATAAATTTAAT
272033 TTAATTCGTA
Statistics
Matches: 132, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
89 18 0.14
90 90 0.68
91 24 0.18
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (91 bp):
GTATTAATTTCTTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
TTAAGGTTTCATTTTTATATTTTCGT
Found at i:272069 original size:90 final size:90
Alignment explanation
Indices: 271804--272082 Score: 318
Period size: 90 Copynumber: 3.1 Consensus size: 90
271794 CAAAATAATA
* *
271804 GTATT-ATTTCTTTAGAATGTTTGT-TTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
1 GTATTAATTTC-TTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAATTGTTTAGTAT
* * * *
271867 TTAAGGTTTCATTTTTATATTTTCGT
65 GTAAGGTTTCAATTTAAAATTTTCGT
* *
271893 GTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGTATT
1 GTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAATTGTTTAGTATG
* * *
271958 TAAGGTTTCATTTTTATATTTTCGT
66 TAAGGTTTCAATTTAAAATTTTCGT
* * * *
271983 GTATTAATTTCTTTA-AATGTTTGTATTTTTTTTGTATTTGTAAATTTAATTTAATTCGTATTA-
1 GTATTAATTTC-TTAGAATGTTTGTA-TTTTTTTATATCTATAAATTTAATGTAATT-GT-TTAG
* *
272046 TATGT-A-GTTTGAATTTAAAATTTTTGT
62 TATGTAAGGTTTCAATTTAAAATTTTCGT
272073 GTATTAATTT
1 GTATTAATTT
272083 TACCATCCGT
Statistics
Matches: 172, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
89 18 0.10
90 116 0.67
91 29 0.17
92 6 0.03
93 3 0.02
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (90 bp):
GTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAATTGTTTAGTATG
TAAGGTTTCAATTTAAAATTTTCGT
Found at i:272354 original size:20 final size:20
Alignment explanation
Indices: 272308--272354 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
272298 AAATTAATAT
272308 TAAAAACAGAATAATTACAA
1 TAAAAACAGAATAATTACAA
* *
272328 AATAAAACA-AATATTTACATA
1 TA-AAAACAGAATAATTACA-A
272349 TAAAAA
1 TAAAAA
272355 TTAAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAACAGAATAATTACAA
Found at i:273931 original size:89 final size:89
Alignment explanation
Indices: 273681--273996 Score: 245
Period size: 89 Copynumber: 3.6 Consensus size: 89
273671 TAAGAATAGT
* * * * * **
273681 ATAC-GAC-AAATTAAATTTACAGACACAATAAAATACAAACCTTCTACAATATTAATACAAAAA
1 ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
* *
273744 AATATAAAATTCAAAC-AAAAATT
66 AATATAAAATTCAAACTAAATATA
* * * * * * * * *
273767 GTAC-GCACTAAATTAAATTTAAACA-ACCAACAAACTACAAACAGAT-GAGCAAAATTAACATA
1 ATACAG-ACTAAATTAAATTTACAGATA-CAACAAAATACAAACA-TTCTA-AAAAATTAATACA
* * *
273829 TGGAAATTTAAAATTCAAACTACATATA
62 TGAAAATATAAAATTCAAACTAAATATA
*
273857 ATACAGATTAAATTAAATTTACAGATACAA-AAAATACAAACATTCTAAAAAATTAATACATGAA
1 ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
* * *
273921 AATATAAAAATGAAACATTAAATCCTA
66 AATATAAAATTCAAAC--TAAAT-ATA
* * *
273948 A-ACA-ACTATATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAA
1 ATACAGACTAAATTAAATTTACAGATA-CAACAAAATACAAACATTCTAAA
273997 GATATAATAC
Statistics
Matches: 179, Mismatches: 37, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
86 4 0.02
87 3 0.02
88 55 0.31
89 58 0.32
90 35 0.20
91 24 0.13
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.25
Consensus pattern (89 bp):
ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
AATATAAAATTCAAACTAAATATA
Found at i:277103 original size:30 final size:29
Alignment explanation
Indices: 277046--277103 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
277036 TAAATTAGTA
*
277046 GAAACCTGAAAAGTAGACAGCTGAATTTT
1 GAAACCTGAAAAGTAGACAGATGAATTTT
* * *
277075 GAAATCTGAAAAAGTAGAGAGATTAATTT
1 GAAACCTG-AAAAGTAGACAGATGAATTT
277104 CCTAGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (29 bp):
GAAACCTGAAAAGTAGACAGATGAATTTT
Found at i:293083 original size:903 final size:903
Alignment explanation
Indices: 291338--293143 Score: 3612
Period size: 903 Copynumber: 2.0 Consensus size: 903
291328 ATTTCAAAAA
291338 AAAAATATATATATATATATTATTGTTTTGATGTTTAATATCATCATGATTATAAATTTTCAAAG
1 AAAAATATATATATATATATTATTGTTTTGATGTTTAATATCATCATGATTATAAATTTTCAAAG
291403 TATTTTTATATGTATATATGTATTTTAAGTTGATTTGATTTATATAATCTATTTCTTTCAAAACC
66 TATTTTTATATGTATATATGTATTTTAAGTTGATTTGATTTATATAATCTATTTCTTTCAAAACC
291468 TATTTGGGTAATTACTTATTTCTTTTAAGTCATACATGCATTGAGACCCTTTCATAGTTAATTTA
131 TATTTGGGTAATTACTTATTTCTTTTAAGTCATACATGCATTGAGACCCTTTCATAGTTAATTTA
291533 TGTGTATTATTTAAGGTGGATTAATAAATATATTTTAAGTTCATTTCGAAATGCTATTATACGAA
196 TGTGTATTATTTAAGGTGGATTAATAAATATATTTTAAGTTCATTTCGAAATGCTATTATACGAA
291598 GTCATTATTATTTTATTTCAAATCTATTTTTTAATTCGTGAATAAATCCTTTTTAGAACTTGTGT
261 GTCATTATTATTTTATTTCAAATCTATTTTTTAATTCGTGAATAAATCCTTTTTAGAACTTGTGT
291663 GCATAGATTTTGTTAGGTGAAATTCCTCTCTTATTATCTTGGATATACTTTAGAATTTGATGTTC
326 GCATAGATTTTGTTAGGTGAAATTCCTCTCTTATTATCTTGGATATACTTTAGAATTTGATGTTC
291728 GATTGTCAATGTTAGCATTAGTATGATATTATTAAAACTATTATTGCTATTCTTTATTTGTATTT
391 GATTGTCAATGTTAGCATTAGTATGATATTATTAAAACTATTATTGCTATTCTTTATTTGTATTT
291793 ATTTATCGCTTATTTGCCACTTCTAGGTCTAAGTTTGAATTATCATTTATCTTTTGCATCACATA
456 ATTTATCGCTTATTTGCCACTTCTAGGTCTAAGTTTGAATTATCATTTATCTTTTGCATCACATA
291858 TTTCTTTTAAAATTTCTCTTTTCATTCTATTTCATATTAAAAAGGCTTAGCGTTTATAATTCTCA
521 TTTCTTTTAAAATTTCTCTTTTCATTCTATTTCATATTAAAAAGGCTTAGCGTTTATAATTCTCA
291923 AGAGAATTGTGCCCTAACTTACTGGGTTCCAACTTTTCTCGAGGAATTTAAATAGTCATGTGATT
586 AGAGAATTGTGCCCTAACTTACTGGGTTCCAACTTTTCTCGAGGAATTTAAATAGTCATGTGATT
291988 ATTTTATCTAAACCATATCATTTTAACTAAGCATTTAGGATTTCAAAATGTCGGATCCTAACTTA
651 ATTTTATCTAAACCATATCATTTTAACTAAGCATTTAGGATTTCAAAATGTCGGATCCTAACTTA
292053 CCGAATGTGACATCCTGTTATCCTGATTTTAAAATAAAGGCAATGTTTGACGTTTAAGAACTTCG
716 CCGAATGTGACATCCTGTTATCCTGATTTTAAAATAAAGGCAATGTTTGACGTTTAAGAACTTCG
292118 AGAAATCGAAACCTAACTTACTGGATTCTGATTTCTCGTTTGACTTAAATGACCGAACAACCTTC
781 AGAAATCGAAACCTAACTTACTGGATTCTGATTTCTCGTTTGACTTAAATGACCGAACAACCTTC
292183 TCAAAATGCATGAATTTTAAATTTAAAAACTAAAAAGACATACTTAATTTTGACGATT
846 TCAAAATGCATGAATTTTAAATTTAAAAACTAAAAAGACATACTTAATTTTGACGATT
292241 AAAAATATATATATATATATTATTGTTTTGATGTTTAATATCATCATGATTATAAATTTTCAAAG
1 AAAAATATATATATATATATTATTGTTTTGATGTTTAATATCATCATGATTATAAATTTTCAAAG
292306 TATTTTTATATGTATATATGTATTTTAAGTTGATTTGATTTATATAATCTATTTCTTTCAAAACC
66 TATTTTTATATGTATATATGTATTTTAAGTTGATTTGATTTATATAATCTATTTCTTTCAAAACC
292371 TATTTGGGTAATTACTTATTTCTTTTAAGTCATACATGCATTGAGACCCTTTCATAGTTAATTTA
131 TATTTGGGTAATTACTTATTTCTTTTAAGTCATACATGCATTGAGACCCTTTCATAGTTAATTTA
292436 TGTGTATTATTTAAGGTGGATTAATAAATATATTTTAAGTTCATTTCGAAATGCTATTATACGAA
196 TGTGTATTATTTAAGGTGGATTAATAAATATATTTTAAGTTCATTTCGAAATGCTATTATACGAA
292501 GTCATTATTATTTTATTTCAAATCTATTTTTTAATTCGTGAATAAATCCTTTTTAGAACTTGTGT
261 GTCATTATTATTTTATTTCAAATCTATTTTTTAATTCGTGAATAAATCCTTTTTAGAACTTGTGT
292566 GCATAGATTTTGTTAGGTGAAATTCCTCTCTTATTATCTTGGATATACTTTAGAATTTGATGTTC
326 GCATAGATTTTGTTAGGTGAAATTCCTCTCTTATTATCTTGGATATACTTTAGAATTTGATGTTC
292631 GATTGTCAATGTTAGCATTAGTATGATATTATTAAAACTATTATTGCTATTCTTTATTTGTATTT
391 GATTGTCAATGTTAGCATTAGTATGATATTATTAAAACTATTATTGCTATTCTTTATTTGTATTT
292696 ATTTATCGCTTATTTGCCACTTCTAGGTCTAAGTTTGAATTATCATTTATCTTTTGCATCACATA
456 ATTTATCGCTTATTTGCCACTTCTAGGTCTAAGTTTGAATTATCATTTATCTTTTGCATCACATA
292761 TTTCTTTTAAAATTTCTCTTTTCATTCTATTTCATATTAAAAAGGCTTAGCGTTTATAATTCTCA
521 TTTCTTTTAAAATTTCTCTTTTCATTCTATTTCATATTAAAAAGGCTTAGCGTTTATAATTCTCA
292826 AGAGAATTGTGCCCTAACTTACTGGGTTCCAACTTTTCTCGAGGAATTTAAATAGTCATGTGATT
586 AGAGAATTGTGCCCTAACTTACTGGGTTCCAACTTTTCTCGAGGAATTTAAATAGTCATGTGATT
292891 ATTTTATCTAAACCATATCATTTTAACTAAGCATTTAGGATTTCAAAATGTCGGATCCTAACTTA
651 ATTTTATCTAAACCATATCATTTTAACTAAGCATTTAGGATTTCAAAATGTCGGATCCTAACTTA
292956 CCGAATGTGACATCCTGTTATCCTGATTTTAAAATAAAGGCAATGTTTGACGTTTAAGAACTTCG
716 CCGAATGTGACATCCTGTTATCCTGATTTTAAAATAAAGGCAATGTTTGACGTTTAAGAACTTCG
293021 AGAAATCGAAACCTAACTTACTGGATTCTGATTTCTCGTTTGACTTAAATGACCGAACAACCTTC
781 AGAAATCGAAACCTAACTTACTGGATTCTGATTTCTCGTTTGACTTAAATGACCGAACAACCTTC
293086 TCAAAATGCATGAATTTTAAATTTAAAAACTAAAAAGACATACTTAATTTTGACGATT
846 TCAAAATGCATGAATTTTAAATTTAAAAACTAAAAAGACATACTTAATTTTGACGATT
293144 GAATTGTTGC
Statistics
Matches: 903, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
903 903 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (903 bp):
AAAAATATATATATATATATTATTGTTTTGATGTTTAATATCATCATGATTATAAATTTTCAAAG
TATTTTTATATGTATATATGTATTTTAAGTTGATTTGATTTATATAATCTATTTCTTTCAAAACC
TATTTGGGTAATTACTTATTTCTTTTAAGTCATACATGCATTGAGACCCTTTCATAGTTAATTTA
TGTGTATTATTTAAGGTGGATTAATAAATATATTTTAAGTTCATTTCGAAATGCTATTATACGAA
GTCATTATTATTTTATTTCAAATCTATTTTTTAATTCGTGAATAAATCCTTTTTAGAACTTGTGT
GCATAGATTTTGTTAGGTGAAATTCCTCTCTTATTATCTTGGATATACTTTAGAATTTGATGTTC
GATTGTCAATGTTAGCATTAGTATGATATTATTAAAACTATTATTGCTATTCTTTATTTGTATTT
ATTTATCGCTTATTTGCCACTTCTAGGTCTAAGTTTGAATTATCATTTATCTTTTGCATCACATA
TTTCTTTTAAAATTTCTCTTTTCATTCTATTTCATATTAAAAAGGCTTAGCGTTTATAATTCTCA
AGAGAATTGTGCCCTAACTTACTGGGTTCCAACTTTTCTCGAGGAATTTAAATAGTCATGTGATT
ATTTTATCTAAACCATATCATTTTAACTAAGCATTTAGGATTTCAAAATGTCGGATCCTAACTTA
CCGAATGTGACATCCTGTTATCCTGATTTTAAAATAAAGGCAATGTTTGACGTTTAAGAACTTCG
AGAAATCGAAACCTAACTTACTGGATTCTGATTTCTCGTTTGACTTAAATGACCGAACAACCTTC
TCAAAATGCATGAATTTTAAATTTAAAAACTAAAAAGACATACTTAATTTTGACGATT
Found at i:293535 original size:15 final size:15
Alignment explanation
Indices: 293505--293533 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
293495 TCATCTTACG
293505 TGAAATAATTTAAAA
1 TGAAATAATTTAAAA
293520 TGAAA-AATTTAAAA
1 TGAAATAATTTAAAA
293534 ATAGATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
TGAAATAATTTAAAA
Found at i:293954 original size:20 final size:20
Alignment explanation
Indices: 293929--293971 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
293919 TTGCTGCACC
* *
293929 ATGCTGTTGTTGTCCCTTCA
1 ATGCTGCTGCTGTCCCTTCA
293949 ATGCTGCTGCTGTCCCTTCA
1 ATGCTGCTGCTGTCCCTTCA
293969 ATG
1 ATG
293972 GGAAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.40
Consensus pattern (20 bp):
ATGCTGCTGCTGTCCCTTCA
Found at i:294068 original size:3 final size:3
Alignment explanation
Indices: 294055--294087 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
294045 AAGAGAAAGG
*
294055 AGA AG- AGA AGA AGA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
294088 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Done.