Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 63 of 117
Found at i:11621090 original size:34 final size:34
Alignment explanation
Indices: 11621028--11621092 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
11621018 ACTAAACCGT
* * *
11621028 AAGTCAAAAAACAAAATAGTTGGTACTAAATTGC
1 AAGTCAAAAAACAAAATAATCGGGACTAAATTGC
*
11621062 AAGTCAAAAAATAAAATAATCGGGACTAAAT
1 AAGTCAAAAAACAAAATAATCGGGACTAAAT
11621093 CAAAAGTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.22
Consensus pattern (34 bp):
AAGTCAAAAAACAAAATAATCGGGACTAAATTGC
Found at i:11621100 original size:34 final size:34
Alignment explanation
Indices: 11621028--11621102 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
11621018 ACTAAACCGT
* * * ***
11621028 AAGTCAAAAAACAAAATAGTTGGTACTAAATTGC
1 AAGTCAAAAAACAAAATAATCGGGACTAAATCAA
*
11621062 AAGTCAAAAAATAAAATAATCGGGACTAAATCAA
1 AAGTCAAAAAACAAAATAATCGGGACTAAATCAA
11621096 AAGTCAA
1 AAGTCAA
11621103 TAATTAAGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.20
Consensus pattern (34 bp):
AAGTCAAAAAACAAAATAATCGGGACTAAATCAA
Found at i:11621246 original size:35 final size:35
Alignment explanation
Indices: 11621167--11621246 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
11621157 AATTGCAAGT
*
11621167 AAAAAAAA-ATGACCAGTACTAAACCGCAAATAAA
1 AAAAAAAAGATGACCAGTACTAAAACGCAAATAAA
** * **
11621201 AAAATTAAGATGACCAAG-ACTAAAATGCATGTAAA
1 AAAAAAAAGATGACC-AGTACTAAAACGCAAATAAA
11621236 AAAAAAAAGAT
1 AAAAAAAAGAT
11621247 TGGGACTAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
34 6 0.17
35 28 0.78
36 2 0.06
ACGTcount: A:0.61, C:0.12, G:0.11, T:0.15
Consensus pattern (35 bp):
AAAAAAAAGATGACCAGTACTAAAACGCAAATAAA
Found at i:11621774 original size:21 final size:21
Alignment explanation
Indices: 11621750--11621789 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11621740 TTTTTTTTTT
11621750 TTCTT-AATGATGCAAATGCTC
1 TTCTTGAA-GATGCAAATGCTC
11621771 TTCTTGAAGATGCAAATGC
1 TTCTTGAAGATGCAAATGC
11621790 AAAATCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
TTCTTGAAGATGCAAATGCTC
Found at i:11623806 original size:29 final size:28
Alignment explanation
Indices: 11623773--11623840 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
11623763 CCACTCCATC
* *
11623773 ATTTTATTTTAT-TTTCCCTTTATTTTTTT
1 ATTTT-TTTTATCATTCCCTTT-TCTTTTT
11623802 ATTTTCTTTTATCATTCCCTTTTCTTTTT
1 ATTTT-TTTTATCATTCCCTTTTCTTTTT
11623831 ACTTTTTTTT
1 A-TTTTTTTT
11623841 CTTCTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (28 bp):
ATTTTTTTTATCATTCCCTTTTCTTTTT
Found at i:11623812 original size:18 final size:18
Alignment explanation
Indices: 11623779--11623905 Score: 57
Period size: 18 Copynumber: 7.1 Consensus size: 18
11623769 CATCATTTTA
*
11623779 TTTTATTTTCCCTTTATTT
1 TTTTATTTT-CTTTTATTT
**
11623798 TTTTATTTTCTTTTATCA
1 TTTTATTTTCTTTTATTT
*** **
11623816 TTCCCTTTTCTTTT-TAC
1 TTTTATTTTCTTTTATTT
* *
11623833 TTTT-TTTTCTTCT-TTC
1 TTTTATTTTCTTTTATTT
* *
11623849 TTTCATTTTCTTTCATTT
1 TTTTATTTTCTTTTATTT
11623867 TTCTTATTTTC--TTATTT
1 TT-TTATTTTCTTTTATTT
* *
11623884 TTTCACTTTTTCTTTTCTTT
1 TTTTA--TTTTCTTTTATTT
11623904 TT
1 TT
11623906 CTTTAAGCAT
Statistics
Matches: 81, Mismatches: 20, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
16 15 0.19
17 17 0.21
18 26 0.32
19 16 0.20
20 7 0.09
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATTTTCTTTTATTT
Found at i:11623842 original size:16 final size:16
Alignment explanation
Indices: 11623802--11623861 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
11623792 TTATTTTTTT
*
11623802 ATTTTCTTTTATCATTCC
1 ATTTTCTTTT-TC-TTTC
*
11623820 CTTTTCTTTTTACTTT-
1 ATTTTCTTTTT-CTTTC
*
11623836 TTTTTCTTCTTTCTTTC
1 ATTTTCTT-TTTCTTTC
11623853 ATTTTCTTT
1 ATTTTCTTT
11623862 CATTTTTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 12 0.34
17 13 0.37
18 10 0.29
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTCTTTTTCTTTC
Found at i:11623852 original size:11 final size:10
Alignment explanation
Indices: 11623832--11623909 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
11623822 TTTCTTTTTA
11623832 CTTTTT-TTT
1 CTTTTTCTTT
11623841 CTTCTTTCTTT
1 CTT-TTTCTTT
*
11623852 CATTTTCTTT
1 CTTTTTCTTT
11623862 CATTTTTC-TT
1 C-TTTTTCTTT
*
11623872 -ATTTTCTTAT
1 CTTTTTCTT-T
*
11623882 -TTTTTC--A
1 CTTTTTCTTT
11623889 CTTTTTCTTTT
1 CTTTTTC-TTT
11623900 CTTTTTCTTT
1 CTTTTTCTTT
11623910 AAGCATATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
8 11 0.20
9 4 0.07
10 22 0.41
11 17 0.31
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:11623897 original size:37 final size:36
Alignment explanation
Indices: 11623820--11623908 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
11623810 TTATCATTCC
* *
11623820 CTTTTCTTTTTACTTTTTTTTCTTCTTTCTTTCATTTT
1 CTTTTCTTTTT-C-TTATTTTCTTATTTCTTTCATTTT
11623858 C-TTTCATTTTTCTTATTTTCTTATTT-TTTCACTTTTT
1 CTTTTC-TTTTTCTTATTTTCTTATTTCTTTCA--TTTT
11623895 CTTTTCTTTTTCTT
1 CTTTTCTTTTTCTT
11623909 TAAGCATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
35 5 0.11
36 12 0.27
37 18 0.40
38 10 0.22
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (36 bp):
CTTTTCTTTTTCTTATTTTCTTATTTCTTTCATTTT
Found at i:11625048 original size:13 final size:13
Alignment explanation
Indices: 11625030--11625072 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
11625020 ACAAGAGAGA
11625030 TTTTTCCTTCTTT
1 TTTTTCCTTCTTT
*
11625043 TTTTT-CTTTTTT
1 TTTTTCCTTCTTT
*
11625055 CTTTTTCTTTCTTT
1 -TTTTTCCTTCTTT
11625069 TTTT
1 TTTT
11625073 GGATGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 6 0.24
13 14 0.56
14 5 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCCTTCTTT
Found at i:11625058 original size:16 final size:17
Alignment explanation
Indices: 11625037--11625071 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11625027 AGATTTTTCC
11625037 TTCTTTTT-TTTCTTTT
1 TTCTTTTTCTTTCTTTT
11625053 TTCTTTTTCTTTCTTTT
1 TTCTTTTTCTTTCTTTT
11625070 TT
1 TT
11625072 TGGATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTCTTTTTCTTTCTTTT
Found at i:11625872 original size:11 final size:11
Alignment explanation
Indices: 11625856--11625883 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11625846 TTTTTAAAGC
11625856 CCAAGACATTG
1 CCAAGACATTG
11625867 CCAAGACATTG
1 CCAAGACATTG
11625878 CCAAGA
1 CCAAGA
11625884 AATGGCCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (11 bp):
CCAAGACATTG
Found at i:11626138 original size:13 final size:12
Alignment explanation
Indices: 11626096--11626140 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
11626086 GATACCAAAC
11626096 TAAAAAAATAAAA
1 TAAAAAAA-AAAA
11626109 TAAAAAAAAAAA
1 TAAAAAAAAAAA
* *
11626121 TAAAAAAAGAAC
1 TAAAAAAAAAAA
11626133 TAAAAAAA
1 TAAAAAAA
11626141 CCAAGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 22 0.73
13 8 0.27
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.11
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:11626601 original size:20 final size:20
Alignment explanation
Indices: 11626534--11626642 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
11626524 TAAATGCAAG
* *
11626534 CCCTAAACCCCCAAACACAAA
1 CCCTAAA-CCCCAAGCAAAAA
*
11626555 -CCTCAAACCCCAAACAAAAA
1 CCCT-AAACCCCAAGCAAAAA
**
11626575 CTTTAAACCCCAAGCAAAAA
1 CCCTAAACCCCAAGCAAAAA
* * *
11626595 CCCTAAACCCTTATGC--AAG
1 CCCTAAACCC-CAAGCAAAAA
* *
11626614 CCCTAAACCCCAAGCACAAG
1 CCCTAAACCCCAAGCAAAAA
11626634 CCCTAAACC
1 CCCTAAACC
11626643 TCCACTGCAA
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
18 3 0.04
19 12 0.17
20 50 0.69
21 7 0.10
ACGTcount: A:0.44, C:0.41, G:0.05, T:0.10
Consensus pattern (20 bp):
CCCTAAACCCCAAGCAAAAA
Found at i:11626663 original size:40 final size:39
Alignment explanation
Indices: 11626511--11626663 Score: 96
Period size: 40 Copynumber: 3.8 Consensus size: 39
11626501 CCACCCATGT
* * * * *
11626511 AAACCCTAAACCCTAAATGCAAGCCCTAAACCCCCAAACAC
1 AAACCCTAAACCCT-CATGCAAACCTTAAA-CCCCAAGCAA
** *
11626552 AAA-CCTCAAACCC-CAAACAAAAACTTTAAACCCCAAGCAA
1 AAACCCT-AAACCCTCATGC--AAACCTTAAACCCCAAGCAA
* * * *
11626592 AAACCCTAAACCCTTATGCAAGCCCTAAACCCCAAGCAC
1 AAACCCTAAACCCTCATGCAAACCTTAAACCCCAAGCAA
* *
11626631 AAGCCCTAAA-CCTCCACTGCAAATCTTAAACCC
1 AAACCCTAAACCCT-CA-TGCAAACCTTAAACCC
11626664 TAATGTAAAC
Statistics
Matches: 85, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
38 3 0.04
39 28 0.33
40 33 0.39
41 21 0.25
ACGTcount: A:0.43, C:0.39, G:0.05, T:0.12
Consensus pattern (39 bp):
AAACCCTAAACCCTCATGCAAACCTTAAACCCCAAGCAA
Found at i:11626708 original size:18 final size:18
Alignment explanation
Indices: 11626669--11626710 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11626659 AACCCTAATG
* *
11626669 TAAACCCTAAACCTTGAG
1 TAAACCCTAAACCTTAAC
11626687 TAAACCCT-AACCTTAACC
1 TAAACCCTAAACCTTAA-C
11626705 TAAACC
1 TAAACC
11626711 TTTATGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (18 bp):
TAAACCCTAAACCTTAAC
Found at i:11627792 original size:120 final size:119
Alignment explanation
Indices: 11627630--11628103 Score: 413
Period size: 120 Copynumber: 4.0 Consensus size: 119
11627620 ACTTTTGGGT
* * * *
11627630 AAAATCTTAGATTTTTAAATGATTTGC-AAAAACTCTAGGAAAAATCTTAGATTTTTTAATGATT
1 AAAATCTTAGATTTTTAAATGATTT-CTAAGACCTTTAGGAAAAATCTTAGATTTTTAAATGATT
* * *
11627694 TTTAAAACC-TCAAAGTAAAATCTTAGATTTTTTAAATGATTTCCAAAACCTTTGAGA
65 TCTAAGACCTTC-AAGCAAAATCTTAGA-TTTTTAAATGATTTCCAAAA-CTTTGAGA
* * * ***
11627751 AAAATCTTCGA-TTTTAAATGATTTCTAAGACCTTTGGGAAAAATCTTAGA-TTTTGAATGAAGA
1 AAAATCTTAGATTTTTAAATGATTTCTAAGACCTTTAGGAAAAATCTTAGATTTTTAAATGATTT
* * * *
11627814 CCAAGACCTTCAAGCAAACT-TTCAGATTTTTTAAATGATTTGCAAAACTTTCGGGA
66 CTAAGACCTTCAAGCAAAATCTT-AGA-TTTTTAAATGATTTCCAAAACTTT-GAGA
* * ** * * *
11627870 AAAATTTTAGATTTTTAAATGACTTGAAAGACCTATTAGAAAAAAT-TTATATTTTTAAAGGATT
1 AAAATCTTAGATTTTTAAATGATTTCTAAGACCT-TTAGGAAAAATCTTAGATTTTTAAATGATT
* *** * * * * *
11627934 TCTAGGACCTTTGGGTAAAATCTTAGATTTTTGAATGATTTCCAATATCTTCGAGC
65 TCTAAGACCTTCAAGCAAAATCTTAGATTTTTAAATGATTTCCAA-AACTTTGAGA
* * * * * * *
11627990 AAAATCATAGATTTTTTAATGATTTCTAATACCTTCAAGCAAAATCTTAGATTCTTAAATGATTT
1 AAAATCTTAGATTTTTAAATGATTTCTAAGACCTTTAGGAAAAATCTTAGATTTTTAAATGATTT
* * * *
11628055 TTAAGACCTTCAGGCAAAATCATT-GATTTTTGAATGATTTCCAAGACTT
66 CTAAGACCTTCAAGCAAAATC-TTAGATTTTTAAATGATTTCCAAAACTT
11628104 CTAGGTAGAA
Statistics
Matches: 279, Mismatches: 63, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
118 6 0.02
119 67 0.24
120 155 0.56
121 49 0.18
122 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (119 bp):
AAAATCTTAGATTTTTAAATGATTTCTAAGACCTTTAGGAAAAATCTTAGATTTTTAAATGATTT
CTAAGACCTTCAAGCAAAATCTTAGATTTTTAAATGATTTCCAAAACTTTGAGA
Found at i:11627853 original size:160 final size:159
Alignment explanation
Indices: 11627670--11628063 Score: 406
Period size: 160 Copynumber: 2.5 Consensus size: 159
11627660 AACTCTAGGA
* * *
11627670 AAAATCTTAGATTTTTTAATGATTTTTAAAACCTCAAAGTAAAATCTTAGATTTTTTAAATGATT
1 AAAATCATAGATTTTTTAATGATTTCTAAAACCTC-AAGAAAAATCTTAGA-TTTTTAAATGATT
* *
11627735 TCCAAA-ACCT-TT-GAGAAAAATCTTCGA-TTTTAAATGATTTCTAAGACCTTTGGGAAAAATC
64 T-CAAAGACCTATTAGA-AAAAAT-TTAGATTTTTAAAGGATTTCTAAGACCTTTGGGAAAAATC
11627796 TTAGA-TTTTGAATGAAGACCAAGACCTTCAAGC
126 TTAGATTTTTGAATGAAGACCAAGACCTTCAAGC
* * * ** *
11627829 AAACT-TTCAGATTTTTTAAATGATTTGC-AAAACTTTCGGGAAAAATTTTAGATTTTTAAATGA
1 AAAATCAT-AGATTTTTT-AATGATTT-CTAAAAC-CTCAAGAAAAATCTTAGATTTTTAAATGA
* * * * *
11627892 CTTGAAAGACCTATTAGAAAAAATTTATATTTTTAAAGGATTTCTAGGACCTTTGGGTAAAATCT
62 TTTCAAAGACCTATTAGAAAAAATTTAGATTTTTAAAGGATTTCTAAGACCTTTGGGAAAAATCT
*** * * *
11627957 TAGATTTTTGAATGATTTCCAATATCTTCGAGC
127 TAGATTTTTGAATGAAGACCAAGACCTTCAAGC
* * *
11627990 AAAATCATAGATTTTTTAATGATTTCTAATACCTTCAAGCAAAATCTTAGATTCTTAAATGATTT
1 AAAATCATAGATTTTTTAATGATTTCTAAAACC-TCAAGAAAAATCTTAGATTTTTAAATGATTT
**
11628055 TTAAGACCT
65 CAAAGACCT
11628064 TCAGGCAAAA
Statistics
Matches: 191, Mismatches: 32, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
158 5 0.03
159 34 0.18
160 112 0.59
161 39 0.20
162 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (159 bp):
AAAATCATAGATTTTTTAATGATTTCTAAAACCTCAAGAAAAATCTTAGATTTTTAAATGATTTC
AAAGACCTATTAGAAAAAATTTAGATTTTTAAAGGATTTCTAAGACCTTTGGGAAAAATCTTAGA
TTTTTGAATGAAGACCAAGACCTTCAAGC
Found at i:11628072 original size:80 final size:80
Alignment explanation
Indices: 11627630--11628095 Score: 340
Period size: 80 Copynumber: 5.8 Consensus size: 80
11627620 ACTTTTGGGT
* * *
11627630 AAAATCTTAGATTTTTAAATGATTTGCAAAAAC-TCTAGGAAAAATCTTAGATTTTTTAATGATT
1 AAAATCTTAGATTTTTAAATGATTTCCAAGACCTTC-AGGAAAAATCTTAGATTTTTTAATGATT
* ** *
11627694 TTTAAAACC-TCAAAGT
65 TCTAAAACCTTC-GGGA
* * * *
11627710 AAAATCTTAGATTTTTTAAATGATTTCCAAAACCTT-TGAGAAAAATCTTCGA-TTTTAAATGAT
1 AAAATCTTAGA-TTTTTAAATGATTTCCAAGACCTTCAG-GAAAAATCTTAGATTTTTTAATGAT
* *
11627773 TTCTAAGACCTTTGGGA
64 TTCTAAAACCTTCGGGA
* *** * * *
11627790 AAAATCTTAGA-TTTTGAATGAAGACCAAGACCTTCAAGCAAACT-TTCAGATTTTTTAAATGAT
1 AAAATCTTAGATTTTTAAATGATTTCCAAGACCTTCAGGAAAAATCTT-AGATTTTTT-AATGAT
*
11627853 TTGC-AAAACTTTCGGGA
64 TT-CTAAAACCTTCGGGA
* * ** * * * * *
11627870 AAAATTTTAGATTTTTAAATGACTTGAAAGACCTATTAGAAAAAAT-TTATATTTTTAAAGGATT
1 AAAATCTTAGATTTTTAAATGATTTCCAAGACCT-TCAGGAAAAATCTTAGATTTTTTAATGATT
** * *
11627934 TCTAGGACCTTTGGGT
65 TCTAAAACCTTCGGGA
* * * * *
11627950 AAAATCTTAGATTTTTGAATGATTTCCAATATCTTC-GAGCAAAATCATAGATTTTTTAATGATT
1 AAAATCTTAGATTTTTAAATGATTTCCAAGACCTTCAG-GAAAAATCTTAGATTTTTTAATGATT
* ** *
11628014 TCTAATACCTTCAAGC
65 TCTAAAACCTTCGGGA
* ** * *
11628030 AAAATCTTAGATTCTTAAATGATTTTTAAGACCTTCAGGCAAAATCATT-GATTTTTGAATGATT
1 AAAATCTTAGATTTTTAAATGATTTCCAAGACCTTCAGGAAAAATC-TTAGATTTTTTAATGATT
11628094 TC
65 TC
11628096 CAAGACTTCT
Statistics
Matches: 297, Mismatches: 73, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
77 2 0.01
78 26 0.09
79 11 0.04
80 190 0.64
81 59 0.20
82 9 0.03
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (80 bp):
AAAATCTTAGATTTTTAAATGATTTCCAAGACCTTCAGGAAAAATCTTAGATTTTTTAATGATTT
CTAAAACCTTCGGGA
Found at i:11628101 original size:40 final size:40
Alignment explanation
Indices: 11627630--11628141 Score: 279
Period size: 40 Copynumber: 12.8 Consensus size: 40
11627620 ACTTTTGGGT
* * * * *
11627630 AAAATCTTAGATTTTTAAATGATTTGCAAAAAC-TCTAGGA
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTC-AGGC
* ** * * *
11627670 AAAATCTTAGATTTTTTAATGATTTTTAAAACC-TCAAAGT
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTC-AGGC
* * * *
11627710 AAAATCTTAGATTTTTTAAATGATTTCCAAAACCTT-TGAGA
1 AAAATCTTAGA-TTTTTGAATGATTTCCAAGACCTTCAG-GC
* * * ** *
11627751 AAAATCTTCGA-TTTTAAATGATTTCTAAGACCTTTGGGA
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAGGC
*** *
11627790 AAAATCTTAGA-TTTTGAATGAAGACCAAGACCTTCAAGC
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAGGC
* * * * * * *
11627829 AAACT-TTCAGATTTTTTAAATGATTTGCAAAACTTTCGGGA
1 AAAATCTT-AGA-TTTTTGAATGATTTCCAAGACCTTCAGGC
* * * ** * **
11627870 AAAATTTTAGATTTTTAAATGACTTGAAAGACCTATTAGAA
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCT-TCAGGC
* * * * * ** *
11627911 AAAAT-TTATATTTTTAAAGGATTTCTAGGACCTTTGGGT
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAGGC
* *
11627950 AAAATCTTAGATTTTTGAATGATTTCCAATATCTTC-GAGC
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAG-GC
* * * * *
11627990 AAAATCATAGATTTTTTAATGATTTCTAATACCTTCAAGC
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAGGC
* * **
11628030 AAAATCTTAGATTCTTAAATGATTTTTAAGACCTTCAGGC
1 AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAGGC
*
11628070 AAAATCATT-GATTTTTGAATGATTTCCAAGA-CTTCTAGGT
1 AAAATC-TTAGATTTTTGAATGATTTCCAAGACCTTC-AGGC
* * * * *
11628110 AGAATTTTAAATTTTTGATTGATTTTCAAGAC
1 AAAATCTTAGATTTTTGAATGATTTCCAAGAC
11628142 TTTTGGGTAA
Statistics
Matches: 371, Mismatches: 85, Indels: 31
0.76 0.17 0.06
Matches are distributed among these distances:
38 2 0.01
39 74 0.20
40 227 0.61
41 65 0.18
42 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (40 bp):
AAAATCTTAGATTTTTGAATGATTTCCAAGACCTTCAGGC
Found at i:11628160 original size:40 final size:40
Alignment explanation
Indices: 11627617--11628185 Score: 127
Period size: 40 Copynumber: 14.2 Consensus size: 40
11627607 CAAGATTTGT
* * *
11627617 AAGACTTTTGGGTAAAATCTTAGATTTTTAAATGATTTGC
1 AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * * * * * *
11627657 AAAAAC-TCTAGGAAAAATCTTAGATTTTTTAATGATTTTT
1 -AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * **** * * *
11627697 AAAACCTCAAAGTAAAATCTTAGATTTTTTAAATGATTTCC
1 AAGACTTTTGGGTAAAATCTTA-AATTTTTGAATGATTTTC
* * * * ** *
11627738 AAAACCTTTGAGAAAAATCTTCGA-TTTTAAATGA-TTTC
1 AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * * ****
11627776 TAAGACCTTTGGGAAAAATCTTAGA-TTTTGAATGAAGACC
1 -AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* *** * * * * *
11627816 AAGACCTTCAAGCAAACT-TTCAGATTTTTTAAATGATTTGC
1 AAGACTTTTGGGTAAAATCTT-A-AATTTTTGAATGATTTTC
* * * * * * * **
11627857 AAAACTTTCGGGAAAAATTTTAGATTTTTAAATGACTTGA
1 AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * ** * * *
11627897 AAGACCTATTAGAAAAAAT-TTATATTTTTAAAGGA-TTTC
1 AAGA-CTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * * *
11627936 TAGGACCTTTGGGTAAAATCTTAGATTTTTGAATGATTTCC
1 -AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * * * * * *
11627977 AATA-TCTTCGAGCAAAATCATAGATTTTTTAATGA-TTTC
1 AAGACT-TTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* * *** * * * * *
11628016 TAATACCTTCAAGCAAAATCTTAGATTCTTAAATGATTTTT
1 -AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
* ** * * *
11628057 AAGACCTTCAGGCAAAATCATT-GATTTTTGAATGATTTCC
1 AAGACTTTTGGGTAAAATC-TTAAATTTTTGAATGATTTTC
* * * * *
11628097 AAGACTTCTAGGTAGAATTTTAAATTTTTGATTGATTTTC
1 AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
*
11628137 AAGACTTTTGGGTAAAATCTTAAA-GTTTGAATGAATTTT-
1 AAGACTTTTGGGTAAAATCTTAAATTTTTGAATG-ATTTTC
*
11628176 AAGTCTTTTG
1 AAGACTTTTG
11628186 AGTAGAGTTG
Statistics
Matches: 401, Mismatches: 108, Indels: 40
0.73 0.20 0.07
Matches are distributed among these distances:
38 5 0.01
39 91 0.23
40 228 0.57
41 75 0.19
42 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (40 bp):
AAGACTTTTGGGTAAAATCTTAAATTTTTGAATGATTTTC
Found at i:11628306 original size:22 final size:22
Alignment explanation
Indices: 11628278--11628321 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11628268 TTTTGTATGA
*
11628278 CCTCTAAGC-ATAGTTTATAAGT
1 CCTCTAAACAATA-TTTATAAGT
11628300 CCTCTAAACAATATTTATAAGT
1 CCTCTAAACAATATTTATAAGT
11628322 GTTTCAAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
CCTCTAAACAATATTTATAAGT
Found at i:11628992 original size:49 final size:48
Alignment explanation
Indices: 11628870--11629009 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 48
11628860 CAAGCAAAAT
* * ** * *
11628870 GTTAAGATTTTTAAAGTTTTAAAACTTTTATTTAGAGGAGTTTTCCTAA
1 GTTAAGATTTTTAAAGTTTTAAAGC-TCTATTTAGAAAAGCTTTCCAAA
* * *
11628919 GTTAAGATTTTAAAAGTTTTAAAGCCCATATTTAAAAAAGCTTTCCAAA
1 GTTAAGATTTTTAAAGTTTTAAAGCTC-TATTTAGAAAAGCTTTCCAAA
*
11628968 GTTAAGATTTTTAAAGTTTCAAAGCTCTATTTAGGAAAAGCT
1 GTTAAGATTTTTAAAGTTTTAAAGCTCTATTTA-GAAAAGCT
11629010 CTTCAAAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 6 0.08
49 70 0.92
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (48 bp):
GTTAAGATTTTTAAAGTTTTAAAGCTCTATTTAGAAAAGCTTTCCAAA
Found at i:11629061 original size:2 final size:2
Alignment explanation
Indices: 11629054--11629094 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
11629044 TTTGGAAAAT
* *
11629054 AG AG AG AG AA AG AG AC A- AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11629094 A
1 A
11629095 AAAAACCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.56, C:0.02, G:0.41, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11629078 original size:19 final size:19
Alignment explanation
Indices: 11629054--11629094 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11629044 TTTGGAAAAT
11629054 AGAGAGAGAAAGAGACAAG
1 AGAGAGAGAAAGAGACAAG
* *
11629073 AGAGAGAGAGAGAGAGAAG
1 AGAGAGAGAAAGAGACAAG
11629092 AGA
1 AGA
11629095 AAAAACCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.41, T:0.00
Consensus pattern (19 bp):
AGAGAGAGAAAGAGACAAG
Found at i:11629324 original size:12 final size:12
Alignment explanation
Indices: 11629309--11629333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11629299 AGGGACCAAA
11629309 TTAACCTGGACG
1 TTAACCTGGACG
11629321 TTAACCTGGACG
1 TTAACCTGGACG
11629333 T
1 T
11629334 CTTACAGTCA
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:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TTAACCTGGACG
Found at i:11631540 original size:21 final size:21
Alignment explanation
Indices: 11631481--11631543 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
11631471 AAACCTAAGT
* * *
11631481 CAAACCCAAACCAAAC-CAAC
1 CAAACCTAAGCCAAACTAAAC
*
11631501 CAAACCTAAGCTAAACTAAAC
1 CAAACCTAAGCCAAACTAAAC
* **
11631522 CAACCCTAAGCCATCCTAAAC
1 CAAACCTAAGCCAAACTAAAC
11631543 C
1 C
11631544 CTAAATTAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.48, C:0.40, G:0.03, T:0.10
Consensus pattern (21 bp):
CAAACCTAAGCCAAACTAAAC
Found at i:11633071 original size:3 final size:3
Alignment explanation
Indices: 11633063--11633102 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11633053 CTAGTGCATG
11633063 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11633103 GTTATAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11642333 original size:21 final size:21
Alignment explanation
Indices: 11642308--11642367 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
11642298 TTTATTTTGA
*
11642308 AATTATTGAGAATT-AAATTTT
1 AATTATT-AAAATTAAAATTTT
11642329 AATTATTAAAATTAAAATTTT
1 AATTATTAAAATTAAAATTTT
* *
11642350 AATATTTTTAAATTAAAA
1 AAT-TATTAAAATTAAAA
11642368 CTTAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 17 0.50
22 12 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AATTATTAAAATTAAAATTTT
Found at i:11644028 original size:102 final size:102
Alignment explanation
Indices: 11643847--11644050 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 102
11643837 AGAGGAAATT
**
11643847 GGCAAGAATTGGCTGGATTTTGTGCCGGATACGAACAAGACATCCTGAATATCAATGGACCTGCA
1 GGCAAGAATTGGCTGGATTTCATGCCGGATACGAACAAGACATCCTGAATATCAATGGACCTGCA
11643912 CAGAATTTCAACCCAGTTGAACAAATGGGTCAGAGTG
66 CAGAATTTCAACCCAGTTGAACAAATGGGTCAGAGTG
* * ** * * *
11643949 GGCAGGAATTGGCTGGATTTCATGCTGGATTTGTACAAGATATTCTGAATATCAATGGACCTGCA
1 GGCAAGAATTGGCTGGATTTCATGCCGGATACGAACAAGACATCCTGAATATCAATGGACCTGCA
11644014 CAGAATTTCAACCCAGTTGAACAAATGGGTCAGAGTG
66 CAGAATTTCAACCCAGTTGAACAAATGGGTCAGAGTG
11644051 CAGGGCATTA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (102 bp):
GGCAAGAATTGGCTGGATTTCATGCCGGATACGAACAAGACATCCTGAATATCAATGGACCTGCA
CAGAATTTCAACCCAGTTGAACAAATGGGTCAGAGTG
Found at i:11655948 original size:37 final size:37
Alignment explanation
Indices: 11655893--11655963 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
11655883 CCAAAAGGTA
* *
11655893 CCAACCAGCATGAATCCATAAAGGAAACTAAAATATG
1 CCAACCAGCATCAATCCATAAAGGAAACGAAAATATG
**
11655930 CCAACCAGCATCTGTCCATAAAGGAAACGAAAAT
1 CCAACCAGCATCAATCCATAAAGGAAACGAAAAT
11655964 TTGGTGATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.14, T:0.15
Consensus pattern (37 bp):
CCAACCAGCATCAATCCATAAAGGAAACGAAAATATG
Found at i:11663202 original size:18 final size:19
Alignment explanation
Indices: 11663157--11663199 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
11663147 TTTATTATAG
*
11663157 TTTATAATTTAATTTAATT
1 TTTATAATTAAATTTAATT
11663176 TTT-TAATTAAATTTAATT
1 TTTATAATTAAATTTAATT
11663194 TTTATA
1 TTTATA
11663200 TTACTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATAATTAAATTTAATT
Found at i:11663911 original size:3 final size:3
Alignment explanation
Indices: 11663903--11663942 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11663893 TAAAACATTA
11663903 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11663943 TTTTCTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11670150 original size:20 final size:20
Alignment explanation
Indices: 11670125--11670166 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11670115 ATCTTAATGC
*
11670125 TTTCATTTATACGTAAAGAA
1 TTTCATTTATACGCAAAGAA
*
11670145 TTTCATTTATATGCAAAGAA
1 TTTCATTTATACGCAAAGAA
11670165 TT
1 TT
11670167 AGGTTGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTCATTTATACGCAAAGAA
Found at i:11677855 original size:18 final size:18
Alignment explanation
Indices: 11677834--11677872 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
11677824 AGGAAAATAA
11677834 AAAATAAAAAGAACAATG
1 AAAATAAAAAGAACAATG
*
11677852 AAAATAAAAATAACAATG
1 AAAATAAAAAGAACAATG
11677870 AAA
1 AAA
11677873 TGATTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAGAACAATG
Found at i:11678705 original size:50 final size:49
Alignment explanation
Indices: 11678501--11678727 Score: 240
Period size: 49 Copynumber: 4.6 Consensus size: 49
11678491 AACCTAAAAG
* * * *
11678501 CTTTTCCAAGATGAGACATTTAAAATTACATAGCCTTTGTTTAAAGGAGC
1 CTTTTCCAAGATGAGA-TTTTAAAGTTGCATAGCCTTTGTTTAAATGAGC
* * * ** * *
11678551 TTTTTCGAACACAAGATTTTAAAGTTCCATAGCTTTTGTTTAAAAT-AGC
1 CTTTTCCAAGATGAGATTTTAAAGTTGCATAGCCTTTGTTT-AAATGAGC
* * *
11678600 CTTTTCCAATATGAGATTTTAAAGTTGCATAGCCTTTGTTTAAATAAAC
1 CTTTTCCAAGATGAGATTTTAAAGTTGCATAGCCTTTGTTTAAATGAGC
* * *
11678649 CTTTTTCCAAAATGAGACTTTTAAAGTTGCATAGCCTTTGCTTCAATGAGC
1 C-TTTTCCAAGATGAGA-TTTTAAAGTTGCATAGCCTTTGTTTAAATGAGC
*
11678700 CTTTTCGAAGATGAGATTTTTAAAGTTG
1 CTTTTCCAAGATGAGA-TTTTAAAGTTG
11678728 TTGAGTCTTT
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
48 4 0.03
49 61 0.41
50 52 0.35
51 30 0.20
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (49 bp):
CTTTTCCAAGATGAGATTTTAAAGTTGCATAGCCTTTGTTTAAATGAGC
Found at i:11678753 original size:100 final size:98
Alignment explanation
Indices: 11678501--11678767 Score: 272
Period size: 100 Copynumber: 2.7 Consensus size: 98
11678491 AACCTAAAAG
* * * * * *
11678501 CTTTTCCAAGATGAGACATTTAAAATTACATAGCCTTTGTTTAAAGGAGCTTTTTCGAACACAAG
1 CTTTTCCAAGATGAGA-TTTTAAAGTTGCATAGCCTTTGTTTAAAAGAGCTTTTTCCAAAACAAG
* *
11678566 ATTTTAAAGTTCCATAGCTTTTGTTTAAAATAGC
65 ATTTTAAAGTTCCATAGCCTTTGCTTAAAATAGC
* * * **
11678600 CTTTTCCAATATGAGATTTTAAAGTTGCATAGCCTTTGTTTAAATAAACCTTTTTCCAAAATGAG
1 CTTTTCCAAGATGAGATTTTAAAGTTGCATAGCCTTTGTTTAAA-AGAGCTTTTTCCAAAACAAG
* *
11678665 ACTTTTAAAGTTGCATAGCCTTTGCTT-CAATGAGC
65 A-TTTTAAAGTTCCATAGCCTTTGCTTAAAAT-AGC
* * * * *
11678700 CTTTTCGAAGATGAGATTTTTAAAGTTG-TTGAGTCTTTGTTCAAAAGAGCTTTTT--AAAATAA
1 CTTTTCCAAGATGAGA-TTTTAAAGTTGCAT-AGCCTTTGTTTAAAAGAGCTTTTTCCAAAACAA
11678762 GATTTT
64 GATTTT
11678768 TTTTTAAGTT
Statistics
Matches: 140, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.03
98 33 0.24
99 32 0.23
100 48 0.34
101 23 0.16
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (98 bp):
CTTTTCCAAGATGAGATTTTAAAGTTGCATAGCCTTTGTTTAAAAGAGCTTTTTCCAAAACAAGA
TTTTAAAGTTCCATAGCCTTTGCTTAAAATAGC
Found at i:11679581 original size:25 final size:25
Alignment explanation
Indices: 11679549--11679597 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11679539 GTGCAATTCA
*
11679549 ATTTAAGTT-AGTTCAGAATTCAATC
1 ATTTAAGTTGAGTCCA-AATTCAATC
11679574 ATTTAAGTTGAGTCCAAATTCAAT
1 ATTTAAGTTGAGTCCAAATTCAAT
11679598 TAATAAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
ATTTAAGTTGAGTCCAAATTCAATC
Found at i:11694069 original size:3 final size:3
Alignment explanation
Indices: 11694063--11694096 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
11694053 CCCACCACCC
*
11694063 CCT CCT CCC CCT CCT CCT CCT CCT CCT -CT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
11694097 CACTCCCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (3 bp):
CCT
Found at i:11694072 original size:9 final size:9
Alignment explanation
Indices: 11694060--11694102 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
11694050 CACCCCACCA
11694060 CCCCCTCCT
1 CCCCCTCCT
11694069 CCCCCTCCT
1 CCCCCTCCT
*
11694078 CCTCCTCCT
1 CCCCCTCCT
*
11694087 -CCTCTCCT
1 CCCCCTCCT
*
11694095 CCCACTCC
1 CCCCCTCC
11694103 CAATGTCGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.02, C:0.72, G:0.00, T:0.26
Consensus pattern (9 bp):
CCCCCTCCT
Found at i:11697000 original size:14 final size:15
Alignment explanation
Indices: 11696974--11697002 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11696964 AGCTTGGCTT
11696974 GACTTGAAAGCTCAA
1 GACTTGAAAGCTCAA
11696989 GACTTG-AAGCTCAA
1 GACTTGAAAGCTCAA
11697003 TTTAGGCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (15 bp):
GACTTGAAAGCTCAA
Found at i:11699569 original size:102 final size:103
Alignment explanation
Indices: 11699391--11699593 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 103
11699381 TTACTCGACC
* * * * *
11699391 GCTTTAATGACAAAAATTATTCTGGAGCAAATATTACACAAAGGCAGTCGATTTTGTGTGTAGGA
1 GCTTTAATGACAAAAATTATTCTGGAACAAATATTACACAAAGGCAGTCGAATGTCTGCGTAGGA
11699456 AAATCGACTATTCTAGTTCAAAA-GTTGTGTTTTTACT
66 AAATCGACTATTCTAGTTCAAAACGTTGTGTTTTTACT
* *
11699493 GCTTTAATGACAAAAATTATTCTGGAACAAATATTAGACTAAGGCAGTCGAATGTCTGCGTAGGA
1 GCTTTAATGACAAAAATTATTCTGGAACAAATATTACACAAAGGCAGTCGAATGTCTGCGTAGGA
*
11699558 AAATCGTCTATTCTAGTTCAAAACGTTGTGTTTTTA
66 AAATCGACTATTCTAGTTCAAAACGTTGTGTTTTTA
11699594 TAACTATGAA
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 80 0.87
103 12 0.13
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (103 bp):
GCTTTAATGACAAAAATTATTCTGGAACAAATATTACACAAAGGCAGTCGAATGTCTGCGTAGGA
AAATCGACTATTCTAGTTCAAAACGTTGTGTTTTTACT
Found at i:11701530 original size:15 final size:16
Alignment explanation
Indices: 11701510--11701539 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11701500 AAAAAGTAAA
11701510 AAAATTGAAA-ATATC
1 AAAATTGAAATATATC
11701525 AAAATTGAAATATAT
1 AAAATTGAAATATAT
11701540 ATTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (16 bp):
AAAATTGAAATATATC
Found at i:11703913 original size:40 final size:40
Alignment explanation
Indices: 11703869--11703952 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
11703859 ATATATTATC
*
11703869 AAATAATAGCTTCAACATGAAACTTGTAAAATATGAGTCA
1 AAATAATAGCTTCAACATGAAACTTGTAAAACATGAGTCA
11703909 AAATAATAGCTTCAACATGAAACTTGTAAAACATGAGTCA
1 AAATAATAGCTTCAACATGAAACTTGTAAAACATGAGTCA
11703949 AAAT
1 AAAT
11703953 GTACTTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (40 bp):
AAATAATAGCTTCAACATGAAACTTGTAAAACATGAGTCA
Found at i:11705814 original size:19 final size:20
Alignment explanation
Indices: 11705780--11705839 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
11705770 TTAAAAATAC
* *
11705780 AAAAAATGATAAAATAAATT
1 AAAAAATTAAAAAATAAATT
*
11705800 AAAGAAA-T-AAAAATAAAAT
1 AAA-AAATTAAAAAATAAATT
11705819 AAAAAATTACAAAAATAAATT
1 AAAAAATTA-AAAAATAAATT
11705840 TATTTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 3 0.09
21 13 0.41
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (20 bp):
AAAAAATTAAAAAATAAATT
Found at i:11709615 original size:18 final size:19
Alignment explanation
Indices: 11709563--11709631 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 19
11709553 AGAATACATG
*
11709563 CAAATATATTAATTATCATG
1 CAAATATATTAA-TATCATA
*
11709583 C-AATA-A-TAACAATCATA
1 CAAATATATTAA-TATCATA
* *
11709600 TAAATATA-TAATATCATG
1 CAAATATATTAATATCATA
11709618 CAAATATATTAATA
1 CAAATATATTAATA
11709632 ATTATTTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.21
18 17 0.44
19 13 0.33
20 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (19 bp):
CAAATATATTAATATCATA
Found at i:11709692 original size:19 final size:19
Alignment explanation
Indices: 11709668--11709728 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
11709658 ATTATGCACA
*
11709668 CAATAAATATAAAAACATG
1 CAATAAATATAAAATCATG
11709687 CAATAACATAT---ATCATG
1 CAATAA-ATATAAAATCATG
*
11709704 GAATAAATATAAAATCATG
1 CAATAAATATAAAATCATG
11709723 CAATAA
1 CAATAA
11709729 TAATAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.11
17 10 0.29
19 17 0.49
20 4 0.11
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (19 bp):
CAATAAATATAAAATCATG
Found at i:11709708 original size:17 final size:16
Alignment explanation
Indices: 11709683--11709763 Score: 53
Period size: 16 Copynumber: 5.0 Consensus size: 16
11709673 AATATAAAAA
11709683 CATGCAATAACATATAT
1 CATGCAATAA-ATATAT
*
11709700 CATGGAATAAATATAAAAT
1 CATGCAATAAATAT---AT
11709719 CATGCAAT-AATA-AT
1 CATGCAATAAATATAT
* * *
11709733 AAT-TAATAAATA-AC
1 CATGCAATAAATATAT
11709747 CATGCAAATAAATATAT
1 CATGC-AATAAATATAT
11709764 TAATAATCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
13 3 0.06
14 11 0.22
16 12 0.24
17 10 0.20
18 4 0.08
19 9 0.18
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.28
Consensus pattern (16 bp):
CATGCAATAAATATAT
Found at i:11709745 original size:36 final size:36
Alignment explanation
Indices: 11709669--11709745 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
11709659 TTATGCACAC
* * *
11709669 AATAAATATAAAAACATGCAATAACATATATCATGG
1 AATAAATATAAAAACATGCAATAAAATATATAATGA
*
11709705 AATAAATATAAAATCATGCAATAATAATA-ATTAAT-A
1 AATAAATATAAAAACATGCAATAA-AATATA-TAATGA
11709741 AATAA
1 AATAA
11709746 CCATGCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 29 0.83
37 6 0.17
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (36 bp):
AATAAATATAAAAACATGCAATAAAATATATAATGA
Found at i:11709839 original size:20 final size:20
Alignment explanation
Indices: 11709814--11709877 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
11709804 AATAGACATG
11709814 CAATTAAATATATAATCATA
1 CAATTAAATATATAATCATA
* * *
11709834 CAATTAACA-ATGTAA-AACA
1 CAATTAA-ATATATAATCATA
11709853 CGTAATTAAATATATAATCATA
1 C--AATTAAATATATAATCATA
11709875 CAA
1 CAA
11709878 ATAATAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
19 3 0.09
20 15 0.45
21 12 0.36
22 3 0.09
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (20 bp):
CAATTAAATATATAATCATA
Found at i:11709904 original size:41 final size:41
Alignment explanation
Indices: 11709809--11709906 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
11709799 AGGCAAATAG
* *
11709809 ACATGCAATTAAATATATAATCATACAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATACAAATAACAATATAAA
* * *
11709850 ACACGTAATTAAATATATAATCATACAAATAATAATATAAA
1 ACATGCAATTAAATATATAATCATACAAATAACAATATAAA
*
11709891 TA-ATGCAAATAAATAT
1 -ACATGCAATTAAATAT
11709907 GCAATTAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 47 0.98
42 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATACAAATAACAATATAAA
Found at i:11709905 original size:22 final size:22
Alignment explanation
Indices: 11709861--11709902 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11709851 CACGTAATTA
*
11709861 AATATATAATCATACAAATAAT
1 AATATATAATAATACAAATAAT
*
11709883 AATATA-AATAATGCAAATAA
1 AATATATAATAATACAAATAA
11709903 ATATGCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATATAATAATACAAATAAT
Found at i:11709913 original size:53 final size:53
Alignment explanation
Indices: 11709856--11709977 Score: 210
Period size: 53 Copynumber: 2.3 Consensus size: 53
11709846 TAAAACACGT
*
11709856 AATTAAATATATAATCA-TACAAATAATAATATAAATAATGCAAATAAATATGC
1 AATTAAATATATAAT-AGTACAAATAATAATATAAATAATGCAAATAAACATGC
*
11709909 AATTAAATATATAATAGTACAAATAATAATATAAATCATGCAAATAAACATGC
1 AATTAAATATATAATAGTACAAATAATAATATAAATAATGCAAATAAACATGC
11709962 AATTAAATATATAATA
1 AATTAAATATATAATA
11709978 ATAATAATCA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 1 0.02
53 65 0.98
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.30
Consensus pattern (53 bp):
AATTAAATATATAATAGTACAAATAATAATATAAATAATGCAAATAAACATGC
Found at i:11709991 original size:94 final size:94
Alignment explanation
Indices: 11709765--11709992 Score: 230
Period size: 94 Copynumber: 2.4 Consensus size: 94
11709755 TAAATATATT
* * * *
11709765 AATAATCATACAATC-AACAAATAA-ATTAATAATCAGGCAAATAGACATGCAATTAAATATATA
1 AATAAACATACAATCAAACAAATAATAATAATAATCATGCAAATAAACATGCAATTAAATATATA
* * *
11709828 ATCATACAATTAACAATGTAAAACACGTA
66 ATCATACAAATAACAATATAAAACACGCA
* * * * * *
11709857 ATTAAATATATAATCATACAAATAATAAT-ATAAATAATGCAAATAAATATGCAATTAAATATAT
1 AATAAACATACAATCAAACAAATAATAATAAT-AATCATGCAAATAAACATGCAATTAAATATAT
* * *
11709921 AAT-AGTACAAATAATAATATAAATCATGCA
65 AATCA-TACAAATAACAATATAAAACACGCA
* * * *
11709951 AATAAACATGCAATTAAATATATAATAATAATAATCATGCAA
1 AATAAACATACAATCAAACAAATAATAATAATAATCATGCAA
11709993 TCACACAAAT
Statistics
Matches: 106, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
92 11 0.10
93 11 0.10
94 82 0.77
95 2 0.02
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (94 bp):
AATAAACATACAATCAAACAAATAATAATAATAATCATGCAAATAAACATGCAATTAAATATATA
ATCATACAAATAACAATATAAAACACGCA
Found at i:11710027 original size:20 final size:20
Alignment explanation
Indices: 11710002--11710127 Score: 98
Period size: 20 Copynumber: 6.4 Consensus size: 20
11709992 ATCACACAAA
*
11710002 TAAATAAATTGATAATCATG
1 TAAATAAATTAATAATCATG
11710022 TAAATAAATTAATAATCATG
1 TAAATAAATTAATAATCATG
* * *
11710042 CAGATAAACTAATAATCATG
1 TAAATAAATTAATAATCATG
* * *
11710062 CAAACT-TATTAATAGTCATG
1 TAAA-TAAATTAATAATCATG
* *
11710082 CAAATAAGTTAATAA--AT-
1 TAAATAAATTAATAATCATG
* * *
11710099 TACACAAATATATTAATCATG
1 TAAATAAAT-TAATAATCATG
11710120 TAAATAAA
1 TAAATAAA
11710128 ATATTAGGCA
Statistics
Matches: 82, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
17 5 0.06
18 7 0.09
19 1 0.01
20 62 0.76
21 7 0.09
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (20 bp):
TAAATAAATTAATAATCATG
Found at i:11710095 original size:40 final size:40
Alignment explanation
Indices: 11710003--11710096 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
11709993 TCACACAAAT
* *
11710003 AAATAAATTGATAATCATGTAAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGCAAATAAATTAATAATCATGC
* * * *
11710043 AGATAAACTAATAATCATGCAAACT-TATTAATAGTCATGC
1 AAATAAATTAATAATCATGCAAA-TAAATTAATAATCATGC
*
11710083 AAATAAGTTAATAA
1 AAATAAATTAATAA
11710097 ATTACACAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (40 bp):
AAATAAATTAATAATCATGCAAATAAATTAATAATCATGC
Found at i:11710151 original size:32 final size:33
Alignment explanation
Indices: 11710103--11710165 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
11710093 ATAAATTACA
* *
11710103 CAAATATATTAATCATGTAAATAAAATATTAGG
1 CAAATAAATTAATCATGCAAATAAAATATTAGG
* *
11710136 CAAATAAATT-ATCATGCAATTATAATATTA
1 CAAATAAATTAATCATGCAAATAAAATATTA
11710166 ATCAGCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (33 bp):
CAAATAAATTAATCATGCAAATAAAATATTAGG
Found at i:11710195 original size:20 final size:20
Alignment explanation
Indices: 11710146--11710195 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
11710136 CAAATAAATT
*
11710146 ATCATGCAATTATAATATTA
1 ATCATGCAAATATAATATTA
11710166 ATCA-GCAAATATAATATTA
1 ATCATGCAAATATAATATTA
* *
11710185 GTTATGCAAAT
1 ATCATGCAAAT
11710196 TCATGCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (20 bp):
ATCATGCAAATATAATATTA
Found at i:11711321 original size:42 final size:43
Alignment explanation
Indices: 11711116--11711334 Score: 248
Period size: 43 Copynumber: 5.1 Consensus size: 43
11711106 TTTTTTTTGA
* * * *
11711116 AAAATGCTCCCCCATAACTGAAGCTTTAAAACATTTGAAAAAT
1 AAAATGCTCCCCCACAATTGAAGCTTTGAAACTTTTGAAAAAT
*
11711159 AAAATGCTCCCCCACAATTGAAGCTTTGGAACTTTTGAAAAAT
1 AAAATGCTCCCCCACAATTGAAGCTTTGAAACTTTTGAAAAAT
* * *
11711202 AAAATGTTCACCCACAATTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCCCACAATTGAAGCTTTGAAACTTTTGAAAAAT
* ** * * *
11711244 AAAATGCT-CCCTA-TTTCTGAGGCTTTTAGAGCTTTTG-AAAAT
1 AAAATGCTCCCCCACAAT-TGAAGCTTTGA-AACTTTTGAAAAAT
* *
11711286 AAAATGCTCCCCCACAATAGAAGCTTTGAAACTTTTGTAAAAT
1 AAAATGCTCCCCCACAATTGAAGCTTTGAAACTTTTGAAAAAT
11711329 AAAATG
1 AAAATG
11711335 ACATATTCTT
Statistics
Matches: 147, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 13 0.09
42 39 0.27
43 93 0.63
44 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCCACAATTGAAGCTTTGAAACTTTTGAAAAAT
Found at i:11718988 original size:16 final size:16
Alignment explanation
Indices: 11718967--11718999 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11718957 TTGATTTGTG
11718967 ACATAAACATTAAATC
1 ACATAAACATTAAATC
11718983 ACATAAACATTAAATC
1 ACATAAACATTAAATC
11718999 A
1 A
11719000 ACTACCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
ACATAAACATTAAATC
Found at i:11735539 original size:24 final size:24
Alignment explanation
Indices: 11735503--11735562 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
11735493 TTATAAACAT
* *
11735503 AATTGTTTA-TTTTGGATAGATAAA
1 AATTATTTATTTTTGAATA-ATAAA
* *
11735527 AATTATTTGTTTTTGAATAATTAA
1 AATTATTTATTTTTGAATAATAAA
11735551 AATTATTTATTT
1 AATTATTTATTT
11735563 GAACAAACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
AATTATTTATTTTTGAATAATAAA
Found at i:11737055 original size:19 final size:19
Alignment explanation
Indices: 11737031--11737071 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
11737021 CCACCCATAT
11737031 CCTGACAGCTACCAGCCAC
1 CCTGACAGCTACCAGCCAC
11737050 CCTGACAGCTACCAGCCAC
1 CCTGACAGCTACCAGCCAC
11737069 CCT
1 CCT
11737072 CCTTAACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.49, G:0.15, T:0.12
Consensus pattern (19 bp):
CCTGACAGCTACCAGCCAC
Found at i:11737258 original size:17 final size:16
Alignment explanation
Indices: 11737238--11737289 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
11737228 AATAATTTTA
11737238 AATTAAATATAAAAATT
1 AATTAAA-ATAAAAATT
11737255 AATTAAAAATAAAAA-T
1 AATT-AAAATAAAAATT
* *
11737271 AATTTAAATAAATATT
1 AATTAAAATAAAAATT
11737287 AAT
1 AAT
11737290 CATAGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 8 0.26
16 9 0.29
17 11 0.35
18 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAAATAAAAATT
Found at i:11737289 original size:16 final size:16
Alignment explanation
Indices: 11737238--11737289 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
11737228 AATAATTTTA
*
11737238 AATTAAATATAAAAATT
1 AATTAAAAAT-AAAATT
*
11737255 AATTAAAAATAAAAAT
1 AATTAAAAATAAAATT
*
11737271 AATT-TAAATAAATATT
1 AATTAAAAATAAA-ATT
11737287 AAT
1 AAT
11737290 CATAGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 7 0.23
16 14 0.47
17 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAAAATAAAATT
Found at i:11739251 original size:29 final size:30
Alignment explanation
Indices: 11739209--11739268 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
11739199 AATTAACATA
*
11739209 TTAATAATTTAGAT-ATCATATTAAAAATTT
1 TTAATAATTAAGATAAT-ATATTAAAAATTT
*
11739239 TTAA-AATTAAGATAATATATTAAATATTT
1 TTAATAATTAAGATAATATATTAAAAATTT
11739268 T
1 T
11739269 ACTATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
TTAATAATTAAGATAATATATTAAAAATTT
Found at i:11740463 original size:14 final size:14
Alignment explanation
Indices: 11740440--11740469 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11740430 AAATTAGAGA
*
11740440 ATATTTTATAAAAT
1 ATATTGTATAAAAT
11740454 ATATTGTATAAAAT
1 ATATTGTATAAAAT
11740468 AT
1 AT
11740470 TCTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATATTGTATAAAAT
Found at i:11741167 original size:14 final size:14
Alignment explanation
Indices: 11741138--11741180 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
11741128 ATTCAATTTA
*
11741138 TTATTTTTCAATAAT
1 TTATTTTTTAA-AAT
11741153 TTATTTTTTAAAAT
1 TTATTTTTTAAAAT
11741167 TTAATTTTTTAAAA
1 TT-ATTTTTTAAAA
11741181 AGTTTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTTTAAAAT
Found at i:11741334 original size:18 final size:18
Alignment explanation
Indices: 11741276--11741335 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
11741266 TAAAATTTTC
*
11741276 TATATTTTTTATTATTTA
1 TATATTTTTTAATATTTA
*
11741294 TGAT-TTTTTTAGA-A-ATA
1 T-ATATTTTTTA-ATATTTA
*
11741311 TTTATTTTTTAATATTTA
1 TATATTTTTTAATATTTA
11741329 TATATTT
1 TATATTT
11741336 GAATTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
16 2 0.06
17 11 0.34
18 17 0.53
19 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TATATTTTTTAATATTTA
Found at i:11741772 original size:23 final size:23
Alignment explanation
Indices: 11741746--11741834 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 23
11741736 AGAAAATTGA
11741746 TTAAAAATTAAAATATTGTTTTT
1 TTAAAAATTAAAATATTGTTTTT
* * *
11741769 TTAAAAAATATAAATA-TGATTTC
1 TTAAAAATTA-AAATATTGTTTTT
* * *
11741792 TAAAAAATTCAAAAAATATATTATTT
1 TTAAAAATT-AAAATAT-TGTT-TTT
11741818 TTAACAAAATTAAAATA
1 TT-A-AAAATTAAAATA
11741835 CTTAAAAATA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
23 25 0.52
24 6 0.12
25 2 0.04
26 3 0.06
27 6 0.12
28 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (23 bp):
TTAAAAATTAAAATATTGTTTTT
Found at i:11741827 original size:132 final size:131
Alignment explanation
Indices: 11741699--11741952 Score: 304
Period size: 132 Copynumber: 1.9 Consensus size: 131
11741689 TGAAAATTTG
* *
11741699 AAAATA-TAAAAA-AATAAACTTAATATTAAAAAAATCTAGAAAATTGATTAAAAATT-AAAATA
1 AAAATACTAAAAATAATAAACTTAATATT-AAAAAATATAGAAAATT--CTAAAAATTCAAAATA
* * *
11741761 TTGTTTTTTTAAAAAATATAAATATGA-TTTCTA-AAAAA-TTCAAAAAATATATTATTTTTAAC
63 TTGATTTTTTAAAAAATA-AAATATGATTTTCTATAAAAAGTAC-AAAAATATATAATTTTTAAC
11741823 AAAATT
126 AAAATT
* * * * *
11741829 AAAATACTTAAAAATATTAAATTTAGTATTTAAAAATATGGAAAATTCTAAAAATTCAAAATATT
1 AAAATAC-TAAAAATAATAAACTTAATATTAAAAAATATAGAAAATTCTAAAAATTCAAAATATT
* *
11741894 GATTTTTTAAAAATTAAAATATGATTTTTTATAAAAAGTACAAAAATATATAATTTTTA
65 GATTTTTTAAAAAATAAAATATGATTTTCTATAAAAAGTACAAAAATATATAATTTTTA
11741953 TAAGCAATTG
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
130 22 0.21
131 27 0.26
132 42 0.40
133 14 0.13
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (131 bp):
AAAATACTAAAAATAATAAACTTAATATTAAAAAATATAGAAAATTCTAAAAATTCAAAATATTG
ATTTTTTAAAAAATAAAATATGATTTTCTATAAAAAGTACAAAAATATATAATTTTTAACAAAAT
T
Found at i:11741912 original size:23 final size:23
Alignment explanation
Indices: 11741877--11741929 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
11741867 TGGAAAATTC
11741877 TAAAAATTCAAAATATTGATTTTT
1 TAAAAATTCAAAATA-TGATTTTT
11741901 TAAAAATT-AAAATATGATTTTT
1 TAAAAATTCAAAATATGATTTTT
11741923 TATAAAA
1 TA-AAAA
11741930 AGTACAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 10 0.36
23 10 0.36
24 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAAAATTCAAAATATGATTTTT
Found at i:11741923 original size:24 final size:24
Alignment explanation
Indices: 11741877--11741930 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
11741867 TGGAAAATTC
*
11741877 TAAAAATTCAAAATATTGATTTTT
1 TAAAAATTCAAAATATTGATTTTA
11741901 TAAAAATT-AAAATA-TGATTTTTTA
1 TAAAAATTCAAAATATTGA--TTTTA
11741925 TAAAAA
1 TAAAAA
11741931 GTACAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 3 0.11
23 6 0.22
24 18 0.67
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAAAATTCAAAATATTGATTTTA
Found at i:11750466 original size:14 final size:15
Alignment explanation
Indices: 11750447--11750476 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11750437 ATGTTATGCT
11750447 ATGCTTT-ATGTATG
1 ATGCTTTGATGTATG
11750461 ATGCTTTGATGTATG
1 ATGCTTTGATGTATG
11750476 A
1 A
11750477 ATGAAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (15 bp):
ATGCTTTGATGTATG
Found at i:11751806 original size:58 final size:57
Alignment explanation
Indices: 11751620--11751945 Score: 388
Period size: 58 Copynumber: 5.7 Consensus size: 57
11751610 TTTTGTGCAG
* * * * * **
11751620 GAAAAATTGATACTTTCAACTTTTTCCC-AAAATATCTTTCGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
**
11751676 GAAAAATTGATACTTTCAACTTTTCCTTAAAAACT-TTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTTTAA
* * * * *
11751733 GGAAAATTGACACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAATTTATTTTTAA
* * ** *
11751791 AAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CGTTTTAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
* * **
11751847 GAAAAATTGATATTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTTTAA
*
11751905 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
11751946 TTGGATTTTA
Statistics
Matches: 227, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
56 69 0.30
57 65 0.29
58 93 0.41
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
Found at i:11751868 original size:114 final size:113
Alignment explanation
Indices: 11751620--11751938 Score: 426
Period size: 114 Copynumber: 2.8 Consensus size: 113
11751610 TTTTGTGCAG
* * * *
11751620 GAAAAATTGATACTTTCAACTTTTTCCC-AAAATATCTTTCGAAACTTTAATTTCGAGAAAAATT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTAATTTCAAGAAAAATT
* ** *
11751684 GATACTTTCAACTTTTCCTTAAAAACTTTTTTTGAAAATTTATTTTTAA
66 GATACTTTCAACTTTTCCTCAAAAA-TCGTTTTAAAAATTTATTTTTAA
* * *
11751733 GGAAAATTGACACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAAAAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAACTTTAATTTCAAGAAAAAT
11751798 TGATACTTTCAACTTTTCCTCAAAAATCGTTTTAAAAATTTATTTTTAA
65 TGATACTTTCAACTTTTCCTCAAAAATCGTTTTAAAAATTTATTTTTAA
* * ** * * *
11751847 GAAAAATTGATATTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAACTTTAATTTCAAGAAAAAT
11751912 TGATACTTTCAACTTTTTCC-CAAAAAT
65 TGATACTTTCAAC-TTTTCCTCAAAAAT
11751939 ATTTTTTTTG
Statistics
Matches: 181, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
113 25 0.14
114 98 0.54
115 58 0.32
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (113 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTAATTTCAAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAATCGTTTTAAAAATTTATTTTTAA
Found at i:11751967 original size:114 final size:111
Alignment explanation
Indices: 11751622--11751967 Score: 329
Period size: 115 Copynumber: 3.0 Consensus size: 111
11751612 TTGTGCAGGA
* * * * * * *
11751622 AAAATTGATACTTTCAACTTTTTCCC-AAAATA-TCTTTCGAAACTTTAATTTCGAGAAAAATTG
1 AAAATTGACACTTTCAACTTTTCCCCAAAAACATTTTTTGGAAAATTTAATTTCAAGAAAAATTG
* * * *
11751685 ATACTTTCAACTTTTCCTTAAAAACTTTTTTTGAAAATTTATTTTTAAGG
66 ATACTTTCAACTTTTCC-CAAAAATTTTTTTTG--AATTT-TATTTAAAG
* * *
11751735 AAAATTGACACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAAAAAAAATTG
1 AAAATTGACACTTTCAACTTTTCCCCAAAAACATTTTTTGGAAAATTTAATTTCAAGAAAAATTG
** ** * *
11751800 ATACTTTCAACTTTTCCTCAAAAATCGTTTTAAAAATTTATTTTTAAG
66 ATACTTTCAACTTTTCC-CAAAAATTTTTTTTGAATTTTA-TTTAAAG
* * * * * *
11751848 AAAAATTGATATTTTCAACTTTTCCTCAAAAACCCTTTTTT-GAAAATTTATTTTTAAGAAAAAT
1 -AAAATTGACACTTTCAACTTTTCCCCAAAAA-CATTTTTTGGAAAATTTAATTTCAAGAAAAAT
*
11751912 TGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGATTTTATTTAAAG
64 TGATACTTTCAAC-TTTTCCC-AAAA-ATTTTTTTTGAATTTTATTTAAAG
11751963 AAAAT
1 AAAAT
11751968 AAAATAATAA
Statistics
Matches: 193, Mismatches: 32, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
112 1 0.01
113 33 0.17
114 72 0.37
115 76 0.39
116 11 0.06
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (111 bp):
AAAATTGACACTTTCAACTTTTCCCCAAAAACATTTTTTGGAAAATTTAATTTCAAGAAAAATTG
ATACTTTCAACTTTTCCCAAAAATTTTTTTTGAATTTTATTTAAAG
Found at i:11751999 original size:11 final size:10
Alignment explanation
Indices: 11751968--11752037 Score: 77
Period size: 11 Copynumber: 6.5 Consensus size: 10
11751958 TAAAGAAAAT
*
11751968 AAAATAATAA
1 AAAAAAATAA
*
11751978 AACAAAATAA
1 AAAAAAATAA
11751988 AAAAAAAGTAA
1 AAAAAAA-TAA
11751999 AACAAAAATAA
1 AA-AAAAATAA
11752010 AAATAAAATAA
1 AAA-AAAATAA
11752021 AGATAAAAATAA
1 A-A-AAAAATAA
11752033 AAAAA
1 AAAAA
11752038 TATTAAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
10 18 0.35
11 19 0.37
12 14 0.27
13 1 0.02
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:11752000 original size:6 final size:6
Alignment explanation
Indices: 11751963--11752035 Score: 66
Period size: 6 Copynumber: 12.7 Consensus size: 6
11751953 TTATTTAAAG
* *
11751963 AAAAT- AAAATA ATAAA-A CAAAATA AAAA-A AAAGT- AAAACA AAAATA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
*
11752009 AAAAT- AAAATA AAGATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
11752036 AATATTAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
5 17 0.31
6 33 0.60
7 5 0.09
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:11752011 original size:17 final size:17
Alignment explanation
Indices: 11751963--11752034 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
11751953 TTATTTAAAG
*
11751963 AAAAT-AAAATAATAAAAC
1 AAAATAAAAAT-A-AAAAT
*
11751981 AAAATAAAAA-AAAAGT
1 AAAATAAAAATAAAAAT
*
11751997 AAAACAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
*
11752014 AAAATAAAGATAAAAAT
1 AAAATAAAAATAAAAAT
11752031 AAAA
1 AAAA
11752035 AAATATTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
16 12 0.26
17 25 0.54
18 5 0.11
19 4 0.09
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:11752089 original size:17 final size:16
Alignment explanation
Indices: 11751958--11752087 Score: 63
Period size: 17 Copynumber: 7.9 Consensus size: 16
11751948 GGATTTTATT
*
11751958 TAAAGAAAATAAAATAA
1 TAAATAAAATAAAA-AA
*
11751975 TAAAACAAAATAAAAAA
1 T-AAATAAAATAAAAAA
*
11751992 -AAAGTAAAACAAAAATA
1 TAAA-TAAAATAAAAA-A
*
11752009 AAAATAAAATAAAGATAA
1 TAAATAAAATAAA-A-AA
* *
11752027 -AAATAAAA-AAATAT
1 TAAATAAAATAAAAAA
* **
11752041 TAAATAAACCTAATGTAA
1 TAAATAAA-ATAA-AAAA
11752059 T-AATAAAATAAATAAA
1 TAAATAAAATAAA-AAA
11752075 TAAAT-AAATAAAA
1 TAAATAAAATAAAA
11752088 TATATTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 26
0.70 0.09 0.20
Matches are distributed among these distances:
14 1 0.01
15 11 0.12
16 25 0.28
17 31 0.35
18 20 0.22
19 1 0.01
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAATAAAATAAAAAA
Found at i:11752383 original size:22 final size:20
Alignment explanation
Indices: 11752357--11752396 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11752347 AGCAGAACCT
11752357 TTCTTCTCTTCTCTCTCTTCCC
1 TTCTT-TCTTC-CTCTCTTCCC
11752379 TTCTTTCTTCCTCTCTTC
1 TTCTTTCTTCCTCTCTTC
11752397 TCTCTAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.57
Consensus pattern (20 bp):
TTCTTTCTTCCTCTCTTCCC
Found at i:11753053 original size:17 final size:18
Alignment explanation
Indices: 11753028--11753062 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11753018 TAACAGTAAT
11753028 AATAGATAAAT-AATAAA
1 AATAGATAAATAAATAAA
*
11753045 AATATATAAATAAATAAA
1 AATAGATAAATAAATAAA
11753063 TAAGGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAGATAAATAAATAAA
Found at i:11753121 original size:28 final size:28
Alignment explanation
Indices: 11753092--11753160 Score: 90
Period size: 26 Copynumber: 2.6 Consensus size: 28
11753082 AAAGAAATAT
*
11753092 ATATATAAAATAAAA-AT-AAAATAAAA
1 ATATAAAAAATAAAATATGAAAATAAAA
*
11753118 ATATAAAATATAAAATATGAAAATAAAA
1 ATATAAAAAATAAAATATGAAAATAAAA
*
11753146 ATA-AAAAAAGAAAAT
1 ATATAAAAAATAAAAT
11753161 GGGCTTACCC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.35
27 12 0.32
28 12 0.32
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (28 bp):
ATATAAAAAATAAAATATGAAAATAAAA
Found at i:11753127 original size:7 final size:7
Alignment explanation
Indices: 11753092--11753152 Score: 69
Period size: 6 Copynumber: 9.1 Consensus size: 7
11753082 AAAGAAATAT
11753092 ATATATAA
1 ATATA-AA
11753100 A-ATAAA
1 ATATAAA
11753106 A-ATAAA
1 ATATAAA
11753112 ATA-AAA
1 ATATAAA
11753118 ATATAAA
1 ATATAAA
11753125 ATATAAA
1 ATATAAA
11753132 ATATGAAA
1 ATAT-AAA
11753140 ATA-AAA
1 ATATAAA
11753146 ATA-AAA
1 ATATAAA
11753152 A
1 A
11753153 AAGAAAATGG
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
6 25 0.50
7 18 0.36
8 7 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
ATATAAA
Found at i:11753143 original size:13 final size:12
Alignment explanation
Indices: 11753094--11753151 Score: 66
Period size: 14 Copynumber: 4.7 Consensus size: 12
11753084 AGAAATATAT
11753094 ATATAAAATAAA
1 ATATAAAATAAA
11753106 A-ATAAAATAAAA
1 ATATAAAAT-AAA
11753118 ATATAAAATATAAA
1 ATAT-AAA-ATAAA
11753132 ATATGAAAATAAA
1 ATAT-AAAATAAA
11753145 A-ATAAAA
1 ATATAAAA
11753152 AAAGAAAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 11 0.27
12 7 0.17
13 8 0.20
14 13 0.32
15 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (12 bp):
ATATAAAATAAA
Found at i:11753153 original size:13 final size:13
Alignment explanation
Indices: 11753033--11753153 Score: 70
Period size: 13 Copynumber: 9.1 Consensus size: 13
11753023 GTAATAATAG
11753033 ATAAATAATAAAAA
1 ATAAA-AATAAAAA
*
11753047 TATATAAATAAATAA
1 -ATAAAAATAAA-AA
*
11753062 ATAAGGAA-AAAAA
1 ATAA-AAATAAAAA
* *
11753075 AGAAAGAA-AAGAA
1 ATAAA-AATAAAAA
* * *
11753088 ATATATATATAAA
1 ATAAAAATAAAAA
11753101 ATAAAAAT--AAA
1 ATAAAAATAAAAA
*
11753112 ATAAAAATATAAA
1 ATAAAAATAAAAA
*
11753125 ATATAAAATATGAAA
1 ATA-AAAATA-AAAA
11753140 ATAAAAATAAAAA
1 ATAAAAATAAAAA
11753153 A
1 A
11753154 AGAAAATGGG
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
11 11 0.13
12 1 0.01
13 33 0.40
14 24 0.29
15 14 0.17
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:11755710 original size:2 final size:2
Alignment explanation
Indices: 11755703--11755731 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11755693 TACAGAAAAT
11755703 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11755732 ACACGCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11756178 original size:32 final size:32
Alignment explanation
Indices: 11756142--11756216 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 32
11756132 AATTATAATC
11756142 ATAATTAAATATTTATTCA-TATAATC-AATTA-A
1 ATAATTAAATA-TTA--CATTATAATCAAATTACA
*
11756174 ATAATTAATTATTACATTATAATCAAATTACA
1 ATAATTAAATATTACATTATAATCAAATTACA
*
11756206 ATTATTAAATA
1 ATAATTAAATA
11756217 ATTAACTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.05
30 7 0.19
31 8 0.22
32 20 0.54
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (32 bp):
ATAATTAAATATTACATTATAATCAAATTACA
Found at i:11761095 original size:92 final size:91
Alignment explanation
Indices: 11760996--11761679 Score: 348
Period size: 93 Copynumber: 7.7 Consensus size: 91
11760986 AACATCAACG
* * * ** *
11760996 TTGTATTAAAAAAATACCACAAAAATTAATTCACAAATACTTTGTTTCAAATCTTAAAAAAGTTC
1 TTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTATGTTTCAAATCCTAAAAAACATA
*
11761061 ACATTTTGTTCATGAAAAACATTATTA
66 ACATTTTGTTCATGAAAAA-ATCATTA
* * ** **
11761088 TTGTATTAAAAAAATTCCACAAAAAAATAATTCATAAATA-T-TGCATTTCAAATCCTCTAAATG
1 TTGTATTAAAAAAATACCAC-AAAAAATAATTCACAAATACTATG--TTTCAAATCCTAAAAAAC
* * * * *
11761151 AAAACGTTTTGTTTATGAAAAATGTCATCA
63 ATAACATTTTGTTCATGAAAAA-ATCATTA
* * ** **
11761181 TTGTATTAAAAAAATATGGCA-AAAAAATAATTTACAAATACTAAATTTCAAATCCT-AGCAACT
1 TTGTATTAAAAAAATA--CCACAAAAAATAATTCACAAATACTATGTTTCAAATCCTAAAAAAC-
* *
11761244 ATAACATTTTGTTCATAAAAAAAATCATTG
63 ATAACATTTTGTTCAT-GAAAAAATCATTA
** * * * *
11761274 TTGTA-TAAAAAAATTTCACATAAAAATAATCCGCAAATACTATGTTTCAAATCCTAGAAATCAT
1 TTGTATTAAAAAAATACCACA-AAAAATAATTCACAAATACTATGTTTCAAATCCTAAAAAACAT
* *
11761338 AATATTTTGTTCATGAAAAAATCATTG
65 AACATTTTGTTCATGAAAAAATCATTA
* * * ** * ** *
11761365 TTGTATTAAAAAAAAACC-CAAAAAAT--CT-ACAAATACTATATTT--AATTGTAGAAATTATG
1 TTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTATGTTTCAAATCCTAAAAAACATA
** * * **
11761424 ATGTTTTGTTAATG-AAAAAT-GTCG
66 ACATTTTGTTCATGAAAAAATCATTA
* * * *
11761448 TTGTATTAAAAAAATTCCACAAAACAATAA-TCTACAAATACTGTATTTCAAAT-C-------GA
1 TTGTATTAAAAAAATACCACAAAA-AATAATTC-ACAAATACTATGTTTCAAATCCTAAAAAACA
* * *
11761504 T---GTTTTGTTCATGAAAAACATTATCA
64 TAACATTTTGTTCATGAAAAA-ATCATTA
* * * *
11761530 TTATATTAAAAAAATACCACAAAAAATAATCCATAGATA-T-TGCATTTCAAATCCT-AAAAACT
1 TTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTATG--TTTCAAATCCTAAAAAAC-
* * ** * **
11761592 ACAACATTTTGTTTATGAAAACGTAACCA
63 ATAACATTTTGTTCATGAAAAAATCATTA
* * * ***
11761621 TTGTATTAAAAATATTA-CA-AAAATATAATTCACAATTACTGCATTTCAAATCCTAAAAA
1 TTGTATTAAAAA-AATACCACAAAAAATAATTCACAAATACTATGTTTCAAATCCTAAAAA
11761680 CACAGTCTTT
Statistics
Matches: 457, Mismatches: 93, Indels: 85
0.72 0.15 0.13
Matches are distributed among these distances:
79 12 0.03
80 5 0.01
81 20 0.04
82 28 0.06
83 18 0.04
84 11 0.02
85 27 0.06
86 1 0.00
87 13 0.03
88 14 0.03
89 1 0.00
90 36 0.08
91 44 0.10
92 100 0.22
93 119 0.26
94 6 0.01
95 2 0.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (91 bp):
TTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTATGTTTCAAATCCTAAAAAACATA
ACATTTTGTTCATGAAAAAATCATTA
Found at i:11761257 original size:186 final size:180
Alignment explanation
Indices: 11760929--11761675 Score: 429
Period size: 185 Copynumber: 4.2 Consensus size: 180
11760919 AAAGTACCAT
* * *
11760929 AAAAAA-AATTCATAAATATTGCGTTTCAAATCCTAGAACAATGTTTTGTTTATGAGAAACATCA
1 AAAAAATAATTCATAAATATTGCATTTCAAATCCTAGAACAACGTTTTGTTTATGAAAAACATCA
* * *** * *
11760993 ACGTTGTATTAAAAAAATACCACAAAAATTAATTCACAAATACTTTGTTTCAAATCTTAAAAAAG
66 ACATTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTAAATTTCAAATCCTAAAAAAC
* * * *
11761058 TTCACATTTTGTTCATGAAAAACATTATTATTGTATTAAAAAAATTCCACA
131 TTAACATTTTGTTCATAAAAAAAATCATTATTGTA-TAAAAAAATTCCACA
11761109 AAAAAATAATTCATAAATATTGCATTTCAAATCCTCTAAATGAA-AACGTTTTGTTTATGAAAAA
1 AAAAAATAATTCATAAATATTGCATTTCAAAT-C-CT--A-GAACAACGTTTTGTTTATGAAAAA
** * * *
11761173 TGTCATCATTGTATTAAAAAAATATGGCA-AAAAAATAATTTACAAATACTAAATTTCAAATCCT
61 CATCAACATTGTATTAAAAAAATA--CCACAAAAAATAATTCACAAATACTAAATTTCAAATCCT
** * *
11761237 -AGCAACTATAACATTTTGTTCATAAAAAAAATCATTGTTGTATAAAAAAATTTCACA
124 AAAAAACT-TAACATTTTGTTCATAAAAAAAATCATTATTGTATAAAAAAATTCCACA
* * ** ** *
11761294 TAAAAATAATCCGCAAATACTATG--TTTCAAATCCTAGAAATCATAATATTTTGTTCATGAAAA
1 AAAAAATAATTCATAAATA-T-TGCATTTCAAATCCTAG-AA-C--AACGTTTTGTTTATGAAAA
*** * * * **
11761357 A-ATCATTGTTGTATTAAAAAAAAACC-CAAAAAAT--CT-ACAAATACTATATTT--AATTGT-
60 ACATCAACATTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTAAATTTCAAATCCTA
* ** ** * **
11761414 AGAAA-TTATGATGTTTTGTT-A-ATGAAAAAT-GTCGTTGTATTAAAAAAATTCCACA
125 AAAAACTTA--ACATTTTGTTCATAAAAAAAATCATTATTGTA-TAAAAAAATTCCACA
* * * * * * *
11761469 AAACAATAA-TCTACAAATACTGTATTTCAAAT-C--G----ATGTTTTGTTCATGAAAAACATT
1 AAAAAATAATTC-ATAAATATTGCATTTCAAATCCTAGAACAACGTTTTGTTTATGAAAAACATC
* * * * * * **
11761526 ATCATTATATTAAAAAAATACCACAAAAAATAATCCATAGATATTGCATTTCAAATCCT-AAAAA
65 AACATTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTAAATTTCAAATCCTAAAAAA
* * * ** * ** *
11761590 CTACAACATTTTGTTTAT-GAAAACGTAACCATTGTATTAAAAATATT--ACA
130 CT-TAACATTTTGTTCATAAAAAAAATCATTATTGTA-TAAAAAAATTCCACA
* * * *
11761640 AAAATATAATTCACAATTACTGCATTTCAAATCCTA
1 AAAAAATAATTCATAAATATTGCATTTCAAATCCTA
11761676 AAAACACAGT
Statistics
Matches: 445, Mismatches: 83, Indels: 84
0.73 0.14 0.14
Matches are distributed among these distances:
164 18 0.04
165 20 0.04
166 8 0.02
169 10 0.02
171 44 0.10
172 10 0.02
173 19 0.04
174 9 0.02
175 44 0.10
176 2 0.00
177 16 0.04
179 14 0.03
180 8 0.02
181 27 0.06
182 9 0.02
183 4 0.01
184 20 0.04
185 97 0.22
186 62 0.14
187 4 0.01
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (180 bp):
AAAAAATAATTCATAAATATTGCATTTCAAATCCTAGAACAACGTTTTGTTTATGAAAAACATCA
ACATTGTATTAAAAAAATACCACAAAAAATAATTCACAAATACTAAATTTCAAATCCTAAAAAAC
TTAACATTTTGTTCATAAAAAAAATCATTATTGTATAAAAAAATTCCACA
Found at i:11762065 original size:18 final size:18
Alignment explanation
Indices: 11762044--11762102 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
11762034 TGCTAATTTG
11762044 ATTTTTTTTGCCTTGTGA
1 ATTTTTTTTGCCTTGTGA
*
11762062 ATTTTTGTT-CACTTGTG-
1 ATTTTTTTTGC-CTTGTGA
* *
11762079 ATATTTTATGCCTTGTGA
1 ATTTTTTTTGCCTTGTGA
11762097 ATTTTT
1 ATTTTT
11762103 ATACCCTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.59
Consensus pattern (18 bp):
ATTTTTTTTGCCTTGTGA
Found at i:11762066 original size:17 final size:17
Alignment explanation
Indices: 11762046--11762102 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
11762036 CTAATTTGAT
11762046 TTTTTTTGCCTTGTGAA
1 TTTTTTTGCCTTGTGAA
11762063 TTTTTGTT-CACTTGTG-A
1 TTTTT-TTGC-CTTGTGAA
*
11762080 TATTTTATGCCTTGTGAA
1 T-TTTTTTGCCTTGTGAA
11762098 TTTTT
1 TTTTT
11762103 ATACCCTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.60
Consensus pattern (17 bp):
TTTTTTTGCCTTGTGAA
Found at i:11762112 original size:18 final size:17
Alignment explanation
Indices: 11762054--11762115 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
11762044 ATTTTTTTTG
*
11762054 CCTTGTGAATTTTTGTTC
1 CCTTGTGAATTTTT-ATC
* *
11762072 ACTTGTG-ATATTTTATG
1 CCTTGTGAAT-TTTTATC
11762089 CCTTGTGAATTTTTATAC
1 CCTTGTGAATTTTTAT-C
11762107 CCTTGTGAA
1 CCTTGTGAA
11762116 CAATGCCGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 15 0.42
18 21 0.58
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.50
Consensus pattern (17 bp):
CCTTGTGAATTTTTATC
Found at i:11762112 original size:35 final size:35
Alignment explanation
Indices: 11762016--11762114 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
11762006 TTTGTGAACA
* * * *
11762016 ATGCCTTGTGATTTTTTATGCTAATT-TGATTTTTT
1 ATGCCTTGTGAATTTTTATAC-ACTTGTGATATTTT
* * *
11762051 TTGCCTTGTGAATTTTTGTTCACTTGTGATATTTT
1 ATGCCTTGTGAATTTTTATACACTTGTGATATTTT
*
11762086 ATGCCTTGTGAATTTTTATACCCTTGTGA
1 ATGCCTTGTGAATTTTTATACACTTGTGA
11762115 ACAATGCCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 3 0.06
35 50 0.94
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (35 bp):
ATGCCTTGTGAATTTTTATACACTTGTGATATTTT
Found at i:11762148 original size:94 final size:96
Alignment explanation
Indices: 11762042--11762238 Score: 263
Period size: 94 Copynumber: 2.1 Consensus size: 96
11762032 TATGCTAATT
* * * **
11762042 TGATTTTTTTTGCCTTGTGAATTTTTGTTCACTTGTGATATTTTATGCCTTGTGAATTTTTA-TA
1 TGATTTTATTTGCCTTGCGAATTTTTATTCACTTGTGATATTTTATGCCTTGTGAATTCATACTA
*
11762106 CCCTTGTGAACAATGCCGAATAATGCAC-TG
66 CCCTTGTGAACAATGCCGAACAATGCACTTG
* * * *
11762136 TGATTTTATTTGCCTTGCGGATTTTTATTCTCTTGTGATTTTTTATGCCTTGTGAATTCATACTG
1 TGATTTTATTTGCCTTGCGAATTTTTATTCACTTGTGATATTTTATGCCTTGTGAATTCATACTA
* * *
11762201 CTCTTGTGAACAATGCCTAACAATGCCCTTG
66 CCCTTGTGAACAATGCCGAACAATGCACTTG
11762232 TGATTTT
1 TGATTTT
11762239 TTATTTTAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 54 0.61
95 25 0.28
96 9 0.10
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (96 bp):
TGATTTTATTTGCCTTGCGAATTTTTATTCACTTGTGATATTTTATGCCTTGTGAATTCATACTA
CCCTTGTGAACAATGCCGAACAATGCACTTG
Found at i:11762187 original size:17 final size:17
Alignment explanation
Indices: 11762134--11762190 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
11762124 AATAATGCAC
11762134 TGTGATTTTATT-TGCCT
1 TGTGATTTT-TTATGCCT
* *
11762151 TGCGGA-TTTTTATTCTCT
1 TG-TGATTTTTTATGC-CT
11762169 TGTGATTTTTTATGCCT
1 TGTGATTTTTTATGCCT
11762186 TGTGA
1 TGTGA
11762191 ATTCATACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 2 0.06
17 16 0.50
18 14 0.44
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (17 bp):
TGTGATTTTTTATGCCT
Found at i:11762842 original size:10 final size:10
Alignment explanation
Indices: 11762827--11762871 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
11762817 CATAACTGAA
11762827 TTAACTAACT
1 TTAACTAACT
11762837 TTAACTAACT
1 TTAACTAACT
*
11762847 TTAACT-ACC
1 TTAACTAACT
11762856 TTAACTAACT
1 TTAACTAACT
11762866 TTAACT
1 TTAACT
11762872 TCCAACTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAACTAACT
Found at i:11762859 original size:19 final size:20
Alignment explanation
Indices: 11762827--11762871 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
11762817 CATAACTGAA
*
11762827 TTAACTAACTTTAACTAACT
1 TTAACTAACCTTAACTAACT
11762847 TTAACT-ACCTTAACTAACT
1 TTAACTAACCTTAACTAACT
11762866 TTAACT
1 TTAACT
11762872 TCCAACTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAACTAACCTTAACTAACT
Found at i:11764484 original size:20 final size:20
Alignment explanation
Indices: 11764459--11764497 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11764449 AAATTAATTC
11764459 CTTTTTCCTCTCTTTTTTTG
1 CTTTTTCCTCTCTTTTTTTG
* *
11764479 CTTTTTCTTTTCTTTTTTT
1 CTTTTTCCTCTCTTTTTTT
11764498 TTAAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (20 bp):
CTTTTTCCTCTCTTTTTTTG
Found at i:11766602 original size:21 final size:21
Alignment explanation
Indices: 11766552--11766610 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
11766542 ATGCATTAAC
* *
11766552 ATAATAAAATGATGAATGCTTG
1 ATAATATAAT-ATGAATGCATG
*
11766574 A-GATATAATATGAATGCATG
1 ATAATATAATATGAATGCATG
11766594 ATAATATAATATGAATG
1 ATAATATAATATGAATG
11766611 ACAGTGAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 11 0.34
21 20 0.62
22 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.32
Consensus pattern (21 bp):
ATAATATAATATGAATGCATG
Found at i:11766704 original size:18 final size:18
Alignment explanation
Indices: 11766681--11766734 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
11766671 AAATCCATAA
11766681 TTGGTTTTAGGGTTTAGG
1 TTGGTTTTAGGGTTTAGG
* *
11766699 TTGGTTTGA-GGTCTAGG
1 TTGGTTTTAGGGTTTAGG
11766716 TTAGGTTTTTAGGGTTTAG
1 TT-GG-TTTTAGGGTTTAG
11766735 AGTTTATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 4 0.14
20 6 0.21
ACGTcount: A:0.13, C:0.02, G:0.37, T:0.48
Consensus pattern (18 bp):
TTGGTTTTAGGGTTTAGG
Found at i:11769699 original size:14 final size:14
Alignment explanation
Indices: 11769667--11769706 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
11769657 CAAAAAAAAA
11769667 TTTTTC-TTTTTT-
1 TTTTTCTTTTTTTC
*
11769679 TTCTTCTTTTTTTC
1 TTTTTCTTTTTTTC
11769693 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
11769707 CTTGCATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 13 0.54
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:11772401 original size:37 final size:36
Alignment explanation
Indices: 11772343--11772481 Score: 120
Period size: 37 Copynumber: 3.8 Consensus size: 36
11772333 TGACACTACC
* * *
11772343 ATTAAAATGTGTATGAAATGGATCGCATATACTATCA
1 ATTAAAATGTGCATGAGATGGAT-GCATATACTATCT
* * *
11772380 ATTAAGATGTGCATGAGATGGAGTGCATGTATTATCT
1 ATTAAAATGTGCATGAGATGGA-TGCATATACTATCT
* *
11772417 ATTAAAATGTGCATGAGATAGAAAAG-ATATACTATCT
1 ATTAAAATGTGCATGAGAT-G-GATGCATATACTATCT
* *
11772454 A-CAAAGATATGCATGAGATGGAATGCAT
1 ATTAAA-ATGTGCATGAGATGG-ATGCAT
11772482 GTATGTCTAT
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
36 6 0.07
37 71 0.88
38 3 0.04
39 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (36 bp):
ATTAAAATGTGCATGAGATGGATGCATATACTATCT
Found at i:11774278 original size:21 final size:20
Alignment explanation
Indices: 11774224--11774280 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 20
11774214 AATAGTTAAG
11774224 AATTAATTCCTTTCTTTTAAAA
1 AATTAATT--TTTCTTTTAAAA
*
11774246 AACTTAAATTTT-TTTTAAAGCA
1 AA-TTAATTTTTCTTTTAAA--A
11774268 AATTAATTTTTCT
1 AATTAATTTTTCT
11774281 CCTTTGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 6 0.21
23 5 0.17
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
AATTAATTTTTCTTTTAAAA
Found at i:11774802 original size:13 final size:13
Alignment explanation
Indices: 11774784--11774897 Score: 85
Period size: 12 Copynumber: 8.9 Consensus size: 13
11774774 TTCGATTTAG
11774784 GGTTTAAGGTTTT
1 GGTTTAAGGTTTT
*
11774797 GGTTTAGGGTTTT
1 GGTTTAAGGTTTT
11774810 GGTTTAAGG-TTT
1 GGTTTAAGGTTTT
* *
11774822 GATTT-AGGGTTT
1 GGTTTAAGGTTTT
11774834 GGTTT-AGGTTTT
1 GGTTTAAGGTTTT
** *
11774846 GGGTTTTAATATTTAG
1 -GG-TTTAAGGTTT-T
* *
11774862 GGTTT-AGATTTA
1 GGTTTAAGGTTTT
*
11774874 GGTTTAAGG-TTA
1 GGTTTAAGGTTTT
11774886 GGTTTAAGGTTT
1 GGTTTAAGGTTT
11774898 AGGGTTTGGG
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
11 3 0.04
12 37 0.45
13 31 0.37
14 6 0.07
15 6 0.07
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.51
Consensus pattern (13 bp):
GGTTTAAGGTTTT
Found at i:11774970 original size:19 final size:19
Alignment explanation
Indices: 11774927--11774993 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
11774917 TTAGCTTAGC
* * *
11774927 TAGGTTTTAAGGTTTGGACT
1 TAGGGTTTAAAGTTTGG-TT
11774947 TAGGGTTTAAAGTTTGGTT
1 TAGGGTTTAAAGTTTGGTT
* * *
11774966 TAGGGTGTAGGAG-TTAGTT
1 TAGGGTTTA-AAGTTTGGTT
11774985 TAGGGTTTA
1 TAGGGTTTA
11774994 GGTTTTGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.43
Consensus pattern (19 bp):
TAGGGTTTAAAGTTTGGTT
Found at i:11779271 original size:19 final size:18
Alignment explanation
Indices: 11779233--11779271 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11779223 CTAATAACTC
*
11779233 AACTAAAAAAAATAAAAG
1 AACTAAAAAAAAGAAAAG
*
11779251 AACTAAAAAAAGAGAAGAG
1 AACTAAAAAAA-AGAAAAG
11779270 AA
1 AA
11779272 AAGAGGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.08
Consensus pattern (18 bp):
AACTAAAAAAAAGAAAAG
Found at i:11789175 original size:6 final size:6
Alignment explanation
Indices: 11789164--11789199 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
11789154 ATGAAGGGAA
11789164 AAAAAT AAAAAT AAAAGA- AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT
11789200 GAAATGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.04
6 26 0.93
7 1 0.04
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:11789186 original size:18 final size:18
Alignment explanation
Indices: 11789163--11789197 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11789153 AATGAAGGGA
11789163 AAAAAATAAAAATAAAAG
1 AAAAAATAAAAATAAAAG
11789181 AAAAAATAAAAATAAAA
1 AAAAAATAAAAATAAAA
11789198 ATGAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (18 bp):
AAAAAATAAAAATAAAAG
Found at i:11789469 original size:11 final size:12
Alignment explanation
Indices: 11789449--11789474 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11789439 AAAATGAGAG
11789449 AAAAGAAAAAAA
1 AAAAGAAAAAAA
11789461 AAAAGAAAAAAA
1 AAAAGAAAAAAA
11789473 AA
1 AA
11789475 GCAATTAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:11790031 original size:51 final size:48
Alignment explanation
Indices: 11789942--11790052 Score: 115
Period size: 51 Copynumber: 2.3 Consensus size: 48
11789932 TGAGATAAGA
* *
11789942 TTATTTT--TAAAGTTGTAAAGCCTATGGTTATAAAAGTTTTCTTTTCAAT
1 TTATTTTCATAAAGTTGTAAAGCCTATAGTTATAAAAG-TTT-TTGT-AAT
*
11789991 TTATTTTCATAAAGTTGTGAAA-CCTTTAGTTA-AAAGAGTTTTTGTAAT
1 TTATTTTCATAAAGTTGT-AAAGCCTATAGTTATAAA-AGTTTTTGTAAT
11790039 TTATTTTCA-AAAGT
1 TTATTTTCATAAAGT
11790053 CATATTGATT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
47 5 0.09
48 12 0.22
49 10 0.18
50 6 0.11
51 19 0.35
52 3 0.05
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (48 bp):
TTATTTTCATAAAGTTGTAAAGCCTATAGTTATAAAAGTTTTTGTAAT
Found at i:11790268 original size:18 final size:16
Alignment explanation
Indices: 11790237--11790281 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
11790227 TCAAAATTGT
11790237 TTAAAAAAGCAACAAAAA
1 TTAAAAAA--AACAAAAA
11790255 CCTTAAAAAAAACAAAAA
1 --TTAAAAAAAACAAAAA
11790273 TTAAAAAAA
1 TTAAAAAAA
11790282 GAAACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.36
18 8 0.32
20 8 0.32
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.13
Consensus pattern (16 bp):
TTAAAAAAAACAAAAA
Found at i:11790280 original size:15 final size:14
Alignment explanation
Indices: 11790260--11790327 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
11790250 AAAAACCTTA
11790260 AAAAAAACAAAAATT
1 AAAAAAACAAAAA-T
*
11790275 AAAAAAAGAAACATAT
1 AAAAAAACAAA-A-AT
11790291 AAAAAAATGCAAAAA-
1 AAAAAAA--CAAAAAT
* *
11790306 AAAAAAAGAAAAAG
1 AAAAAAACAAAAAT
11790320 AAAAAAAC
1 AAAAAAAC
11790328 TTTAAAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 5 0.11
14 7 0.16
15 17 0.39
16 10 0.23
17 2 0.05
18 3 0.07
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.07
Consensus pattern (14 bp):
AAAAAAACAAAAAT
Found at i:11790326 original size:31 final size:30
Alignment explanation
Indices: 11790259--11790326 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 30
11790249 CAAAAACCTT
*
11790259 AAAAAAAACAAAAATTAAAAAAAGAAACATATA
1 AAAAAAAACAAAAA-TAAAAAAAGAAA-A-AGA
**
11790292 AAAAAATGCAAAAA-AAAAAAAGAAAAAGA
1 AAAAAAAACAAAAATAAAAAAAGAAAAAGA
11790321 AAAAAA
1 AAAAAA
11790327 CTTTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 1 0.03
31 11 0.34
33 12 0.38
ACGTcount: A:0.82, C:0.04, G:0.06, T:0.07
Consensus pattern (30 bp):
AAAAAAAACAAAAATAAAAAAAGAAAAAGA
Found at i:11790356 original size:18 final size:17
Alignment explanation
Indices: 11790314--11790347 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
11790304 AAAAAAAAAG
11790314 AAAAAGAAAAAAACTTTA
1 AAAAAG-AAAAAACTTTA
11790332 AAAAAGAAAAAACTTT
1 AAAAAGAAAAAACTTT
11790348 TGCAAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAAGAAAAAACTTTA
Found at i:11790482 original size:19 final size:19
Alignment explanation
Indices: 11790443--11790482 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11790433 AAGTAACTTT
*
11790443 AAATATTTAATTTTATCTA
1 AAATATTTAAATTTATCTA
11790462 AAATAATTTAAATTTAT-TA
1 AAAT-ATTTAAATTTATCTA
11790481 AA
1 AA
11790483 TTTTTATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTAAATTTATCTA
Found at i:11800581 original size:29 final size:29
Alignment explanation
Indices: 11800533--11800592 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
11800523 GAATTATAGT
* *
11800533 AAAATATTCAATATGGTACTTAAACTTTA
1 AAAATATTCAATATGATACTTAAACTATA
* *
11800562 AAAATATTTAATGTGATACTTAAACTATA
1 AAAATATTCAATATGATACTTAAACTATA
11800591 AA
1 AA
11800593 TTTATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAATATTCAATATGATACTTAAACTATA
Found at i:11802198 original size:29 final size:28
Alignment explanation
Indices: 11802141--11802198 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
11802131 ATATCATAAA
**
11802141 TTATTTTAAAATTATAAGTACTATTTTT
1 TTATTTTAAAATTATAAGTACTACATTT
* *
11802169 TTATTATTATAATTATAATTACTACATTT
1 TTATT-TTAAAATTATAAGTACTACATTT
11802198 T
1 T
11802199 ATAATAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (28 bp):
TTATTTTAAAATTATAAGTACTACATTT
Found at i:11805366 original size:23 final size:21
Alignment explanation
Indices: 11805324--11805386 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
11805314 TCATCTAAAC
11805324 TCATATTCCCTTTCTAAAAAT
1 TCATATTCCCTTTCTAAAAAT
11805345 TCATATTCCCGTTCTCTAAAAAT
1 TCATATTCCC-TT-TCTAAAAAT
* * * *
11805368 TTATTTTCTCTCTCTAAAA
1 TCATATTCCCTTTCTAAAA
11805387 CCAAACTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.47
22 3 0.08
23 16 0.44
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (21 bp):
TCATATTCCCTTTCTAAAAAT
Found at i:11809400 original size:13 final size:13
Alignment explanation
Indices: 11809382--11809406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11809372 AAAAATGGAG
11809382 TAATATTTTTTAC
1 TAATATTTTTTAC
11809395 TAATATTTTTTA
1 TAATATTTTTTA
11809407 AATTTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TAATATTTTTTAC
Done.