Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 3 of 206
Found at i:690024 original size:16 final size:17
Alignment explanation
Indices: 689998--690030 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
689988 TTGCTTATTT
689998 AATGTTATGAAATGTTA
1 AATGTTATGAAATGTTA
690015 AATGTT-TGAAATGTTA
1 AATGTTATGAAATGTTA
690031 TCGTAATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (17 bp):
AATGTTATGAAATGTTA
Found at i:692749 original size:57 final size:57
Alignment explanation
Indices: 692680--692790 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
692670 TCGGACATAA
*
692680 CGAGTTTTGGGGATGCCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTGCTT
1 CGAGTTCTGGGGATGCCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTGCTT
*
692737 CGAGTTCTGGGGATGTCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTG
1 CGAGTTCTGGGGATGCCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTG
692791 AGAGCAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (57 bp):
CGAGTTCTGGGGATGCCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTGCTT
Found at i:693755 original size:5 final size:5
Alignment explanation
Indices: 693754--693798 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
693744 GTATATATTA
693754 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
693799 AATAAAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:693887 original size:26 final size:27
Alignment explanation
Indices: 693850--693900 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
693840 GAAGCAACAC
693850 GAAAACAGGGAA-GAAAGGAAAGAAAAA
1 GAAAACAGGGAAGGAAA-GAAAGAAAAA
693877 GAAAA-AGGGAAGGAAAGAAAGAAA
1 GAAAACAGGGAAGGAAAGAAAGAAA
693901 GAAAATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (27 bp):
GAAAACAGGGAAGGAAAGAAAGAAAAA
Found at i:694835 original size:22 final size:22
Alignment explanation
Indices: 694773--694837 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
694763 CTCTGATTAC
* * *
694773 TAGCACGTTAGTGCTCTCCGTT
1 TAGCACTTTAGTGCTCTCTGTA
*
694795 TAGCACATTT-TTGCTCTCTGTA
1 TAGCAC-TTTAGTGCTCTCTGTA
694817 TAGCACTTTAGTGCTCTCTGT
1 TAGCACTTTAGTGCTCTCTGT
694838 TCATTAGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.08
22 31 0.86
23 2 0.06
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCTCTGTA
Found at i:700454 original size:12 final size:12
Alignment explanation
Indices: 700437--700461 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
700427 TGATAATACA
700437 ATAATAATAATG
1 ATAATAATAATG
700449 ATAATAATAATG
1 ATAATAATAATG
700461 A
1 A
700462 ATAAAAAAGA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:701922 original size:9 final size:9
Alignment explanation
Indices: 701908--701944 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
701898 TATAGTTTGA
701908 TATTCGAAT
1 TATTCGAAT
701917 TATTCGAAT
1 TATTCGAAT
*
701926 TATTCGAGT
1 TATTCGAAT
701935 TATTCGAAT
1 TATTCGAAT
701944 T
1 T
701945 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:710867 original size:30 final size:27
Alignment explanation
Indices: 710814--711050 Score: 209
Period size: 27 Copynumber: 8.8 Consensus size: 27
710804 CCGCTGTCGT
710814 TGGGTGAATTACCATAACCACCACTGC
1 TGGGTGAATTACCATAACCACCACTGC
** **
710841 TGGGTGAATTACCATAACTGCCACCAC
1 TGGGTGAATTACCATAACCACCACTGC
* * *
710868 TAGGTGAATTACCTTAACCACC-GTCGC
1 TGGGTGAATTACCATAACCACCACT-GC
*
710895 TGGGTGAATTACCATAAGCACCA-T--
1 TGGGTGAATTACCATAACCACCACTGC
* *
710919 TGGGTGAATAACCATAACCACTACCACCGC
1 TGGGTGAATTACCATAA-C-C-ACCACTGC
*
710949 TGGGTGAATAACCATAACCACCACCACTGC
1 TGGGTGAATTACCAT-A--ACCACCACTGC
* **
710979 TAGGTGAATTACCATAACCACCACCAC
1 TGGGTGAATTACCATAACCACCACTGC
* *
711006 TGGGTGAATTACCATAAGCA-C-C-GT
1 TGGGTGAATTACCATAACCACCACTGC
*
711030 TGGGTGAATAACCATAACCAC
1 TGGGTGAATTACCATAACCAC
711051 TACCACCGCT
Statistics
Matches: 170, Mismatches: 28, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
24 34 0.20
25 1 0.01
26 2 0.01
27 93 0.55
29 1 0.01
30 35 0.21
31 2 0.01
32 1 0.01
33 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (27 bp):
TGGGTGAATTACCATAACCACCACTGC
Found at i:710877 original size:54 final size:53
Alignment explanation
Indices: 710816--711050 Score: 244
Period size: 54 Copynumber: 4.4 Consensus size: 53
710806 GCTGTCGTTG
*
710816 GGTGAATTACCATAACCACCACTGCTGGGTGAATTACCATAACTGCCACCACTA
1 GGTGAATTACCATAACCACCACCGCTGGGTGAATTACCATAAC-GCCACCACTA
* ** * *
710870 GGTGAATTACCTTAACCACCGTCGCTGGGTGAATTACCATAA-G-CACCATTG
1 GGTGAATTACCATAACCACCACCGCTGGGTGAATTACCATAACGCCACCACTA
* * *
710921 GGTGAATAACCATAACCACTACCACCGCTGGGTGAATAACCATAACCACCACCACTGCTA
1 GGTGAATTACCATAA-C-C-ACCACCGCTGGGTGAATTACCATAA-CGCCACCA---CTA
* ** *
710981 GGTGAATTACCATAACCACCACCACTGGGTGAATTACCATAA-G-CACCGTTG
1 GGTGAATTACCATAACCACCACCGCTGGGTGAATTACCATAACGCCACCACTA
*
711032 GGTGAATAACCATAACCAC
1 GGTGAATTACCATAACCAC
711051 TACCACCGCT
Statistics
Matches: 150, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
51 38 0.25
52 2 0.01
53 1 0.01
54 64 0.43
57 28 0.19
58 1 0.01
59 1 0.01
60 15 0.10
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (53 bp):
GGTGAATTACCATAACCACCACCGCTGGGTGAATTACCATAACGCCACCACTA
Found at i:710975 original size:36 final size:30
Alignment explanation
Indices: 710921--711027 Score: 139
Period size: 30 Copynumber: 3.7 Consensus size: 30
710911 AGCACCATTG
* * *
710921 GGTGAATAACCATAACCACTACCACCGCTG
1 GGTGAATAACCATAACCACCACCACTGCTA
710951 GGTGAATAACCATAACCACCACCACTGCTA
1 GGTGAATAACCATAACCACCACCACTGCTA
*
710981 GGTGAATTACCATAACCACCACCACTG---
1 GGTGAATAACCATAACCACCACCACTGCTA
* *
711008 GGTGAATTACCATAAGCACC
1 GGTGAATAACCATAACCACC
711028 GTTGGGTGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 19 0.26
30 53 0.74
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.18
Consensus pattern (30 bp):
GGTGAATAACCATAACCACCACCACTGCTA
Found at i:711010 original size:111 final size:108
Alignment explanation
Indices: 710813--711061 Score: 360
Period size: 111 Copynumber: 2.3 Consensus size: 108
710803 ACCGCTGTCG
* * * **
710813 TTGGGTGAATTACCATAA-C-C-ACCACTGCTGGGTGAATTACCATAACTGCCACCACTAGGTGA
1 TTGGGTGAATAACCATAACCACTACCACCGCTGGGTGAATAACCATAACCACCACCACTAGGTGA
* ** *
710875 ATTACCTTAACCACCGTCGCTGGGTGAATTACCATAAGCACCA
66 ATTACCATAACCACCACCACTGGGTGAATTACCATAAGCACCA
710918 TTGGGTGAATAACCATAACCACTACCACCGCTGGGTGAATAACCATAACCACCACCACTGCTAGG
1 TTGGGTGAATAACCATAACCACTACCACCGCTGGGTGAATAACCATAACCACCACCA---CTAGG
*
710983 TGAATTACCATAACCACCACCACTGGGTGAATTACCATAAGCACCG
63 TGAATTACCATAACCACCACCACTGGGTGAATTACCATAAGCACCA
711029 TTGGGTGAATAACCATAACCACTACCACCGCTG
1 TTGGGTGAATAACCATAACCACTACCACCGCTG
711062 AGTGTGATGG
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
105 17 0.13
106 1 0.01
107 1 0.01
108 30 0.23
111 79 0.62
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (108 bp):
TTGGGTGAATAACCATAACCACTACCACCGCTGGGTGAATAACCATAACCACCACCACTAGGTGA
ATTACCATAACCACCACCACTGGGTGAATTACCATAAGCACCA
Found at i:712086 original size:12 final size:12
Alignment explanation
Indices: 712065--712187 Score: 68
Period size: 12 Copynumber: 9.8 Consensus size: 12
712055 AAAAACGAAA
*
712065 TGATTAAAAACT
1 TGATGAAAAACT
* *
712077 TGATGGAAAATT
1 TGATGAAAAACT
*
712089 TTATGAAAAGACT
1 TGATGAAAA-ACT
712102 TGATGAAAAACT
1 TGATGAAAAACT
* *
712114 TTA-AAAAGAACT
1 TGATGAAA-AACT
* *
712126 TGCTGCAAAACT
1 TGATGAAAAACT
**
712138 TGACAAAAAACT
1 TGATGAAAAACT
*
712150 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
712165 TGATAAAAGAACT
1 TGATGAAA-AACT
*
712178 AGATGAAAAA
1 TGATGAAAAA
712188 TTCTTGAAGA
Statistics
Matches: 82, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
11 3 0.04
12 46 0.56
13 23 0.28
14 1 0.01
15 9 0.11
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:712126 original size:24 final size:25
Alignment explanation
Indices: 712065--712187 Score: 92
Period size: 25 Copynumber: 4.9 Consensus size: 25
712055 AAAAACGAAA
* * *
712065 TGATTAAA-AACTTGATGGAAAATT
1 TGATAAAAGAACTTGATGAAAAACT
*
712089 TTATGAAAAG-ACTTGATGAAAAACT
1 TGAT-AAAAGAACTTGATGAAAAACT
* * *
712114 TTA-AAAAGAACTTGCTGCAAAACT
1 TGATAAAAGAACTTGATGAAAAACT
* *
712138 TGACAAAA-AACTTGGTAATTAAAAACT
1 TGATAAAAGAACTT-G--ATGAAAAACT
*
712165 TGATAAAAGAACTAGATGAAAAA
1 TGATAAAAGAACTTGATGAAAAA
712188 TTCTTGAAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
23 5 0.06
24 23 0.29
25 31 0.40
27 15 0.19
28 4 0.05
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (25 bp):
TGATAAAAGAACTTGATGAAAAACT
Found at i:712642 original size:78 final size:80
Alignment explanation
Indices: 712547--712760 Score: 254
Period size: 78 Copynumber: 2.6 Consensus size: 80
712537 ATTTAATCAG
* * * * *
712547 GGTGAATAACCATAACCACTGCCGTCGCTAGGTGAATAACCATAACCACCGCCGCCGTTGGGCG-
1 GGTGAATAACTATAACCACCGCCGCCGCTAGGTGAATAACCATAACCACCGCCGCCGCTAGGCGA
712611 A-AAC-ACCACCGCT
66 ATAACAACCACCGCT
* * ** *
712624 AGGTGAATAACTATAACCACCGCCGCCTCTAGGTGAATAACTATAACCACTACCGCCGCTAGGTG
1 -GGTGAATAACTATAACCACCGCCGCCGCTAGGTGAATAACCATAACCACCGCCGCCGCTAGGCG
712689 AATAACTATAACCACCGCT
65 AATAAC---AACCACCGCT
* *
712708 GGATGAATAACTATAACCACCGCTGCCGCTGGGTGAATAACCATAACCACCGC
1 GG-TGAATAACTATAACCACCGCCGCCGCTAGGTGAATAACCATAACCACCGC
712761 TGGGTGAATA
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 54 0.48
79 1 0.01
80 3 0.03
83 2 0.02
84 53 0.47
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (80 bp):
GGTGAATAACTATAACCACCGCCGCCGCTAGGTGAATAACCATAACCACCGCCGCCGCTAGGCGA
ATAACAACCACCGCT
Found at i:712658 original size:30 final size:27
Alignment explanation
Indices: 712622--712808 Score: 154
Period size: 30 Copynumber: 6.7 Consensus size: 27
712612 AACACCACCG
712622 CTAGGTGAATAACTATAACCACCGCCGCC
1 CTAGGTGAATAACTATAACCA-C-CCGCC
712651 TCTAGGTGAATAACTATAACCACTACCGCC
1 -CTAGGTGAATAACTATAACCAC--CCGCC
712681 GCTAGGTGAATAACTATAACCA-CCG--
1 -CTAGGTGAATAACTATAACCACCCGCC
712706 CT-GGATGAATAACTATAACCACCGCTGCC
1 CTAGG-TGAATAACTATAACCACC-C-GCC
* *
712735 GCTGGGTGAATAACCATAACCA-CCG--
1 -CTAGGTGAATAACTATAACCACCCGCC
* * *
712760 CTGGGTGAATAACTATAACCATTACCACC
1 CTAGGTGAATAACTATAACCA--CCCGCC
*
712789 TCTAGGTGAATAACCATAAC
1 -CTAGGTGAATAACTATAAC
712809 TAAACCTCTA
Statistics
Matches: 135, Mismatches: 7, Indels: 30
0.78 0.04 0.17
Matches are distributed among these distances:
23 2 0.01
24 38 0.28
25 1 0.01
26 1 0.01
27 7 0.05
28 1 0.01
29 2 0.01
30 81 0.60
31 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (27 bp):
CTAGGTGAATAACTATAACCACCCGCC
Found at i:712715 original size:54 final size:53
Alignment explanation
Indices: 712655--712808 Score: 218
Period size: 54 Copynumber: 2.9 Consensus size: 53
712645 GCCGCCTCTA
*
712655 GGTGAATAACTATAACCACTACCGCCGCTAGGTGAATAACTATAACCACCGCT
1 GGTGAATAACTATAACCACTACCGCCGCTAGGTGAATAACCATAACCACCGCT
** * *
712708 GGATGAATAACTATAACCACCGCTGCCGCTGGGTGAATAACCATAACCACCGCT
1 GG-TGAATAACTATAACCACTACCGCCGCTAGGTGAATAACCATAACCACCGCT
* * *
712762 GGGTGAATAACTATAACCATTACCACCTCTAGGTGAATAACCATAAC
1 -GGTGAATAACTATAACCACTACCGCCGCTAGGTGAATAACCATAAC
712809 TAAACCTCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.02
54 83 0.95
55 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (53 bp):
GGTGAATAACTATAACCACTACCGCCGCTAGGTGAATAACCATAACCACCGCT
Found at i:715237 original size:59 final size:59
Alignment explanation
Indices: 715165--715282 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
715155 GTCCAACATT
715165 CCAGAAAAGTTTATACAATAGATGTTTCAATTTCATGTTATTTTTTTCATATGGTTTCA
1 CCAGAAAAGTTTATACAATAGATGTTTCAATTTCATGTTATTTTTTTCATATGGTTTCA
715224 CCAGAAAAGTTTATACAATAGATGTTTCAATTTCATGTTATTTTTTTCATATGGTTTCA
1 CCAGAAAAGTTTATACAATAGATGTTTCAATTTCATGTTATTTTTTTCATATGGTTTCA
715283 TGCGATACAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (59 bp):
CCAGAAAAGTTTATACAATAGATGTTTCAATTTCATGTTATTTTTTTCATATGGTTTCA
Found at i:719049 original size:24 final size:24
Alignment explanation
Indices: 719022--719089 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
719012 AATTAAATAA
719022 ATAATTATAAAATATTTTATAATT
1 ATAATTATAAAATATTTTATAATT
* *
719046 ATAATTACAAAGTAATTTTATAATT
1 ATAATTATAAAAT-ATTTTATAATT
719071 AT-A-T-TAAAATATTTTATAA
1 ATAATTATAAAATATTTTATAA
719090 ATCAGTTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 9 0.23
22 4 0.10
23 1 0.03
24 12 0.31
25 13 0.33
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
ATAATTATAAAATATTTTATAATT
Found at i:720000 original size:17 final size:17
Alignment explanation
Indices: 719973--720018 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
719963 CCGATATAAT
* * *
719973 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
719990 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
720007 AAATATTTTTAA
1 AAATATTTTTAA
720019 AATTCTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:720016 original size:11 final size:11
Alignment explanation
Indices: 720002--720100 Score: 51
Period size: 11 Copynumber: 9.9 Consensus size: 11
719992 ATTTTTTTAA
720002 TTTTAAAATAT
1 TTTTAAAATAT
*
720013 TTTTAAAATTCT
1 TTTTAAAA-TAT
**
720025 TTTTTTAA-A-
1 TTTTAAAATAT
*
720034 -TTTAAAATAC
1 TTTTAAAATAT
720044 TTTTAAAATATT
1 TTTTAAAATA-T
*
720056 TTTTTAAAT-T
1 TTTTAAAATAT
720066 TTTT---A-A-
1 TTTTAAAATAT
720072 TTTTAAAAT-T
1 TTTTAAAATAT
720082 TTTT-AAA-AT
1 TTTTAAAATAT
720091 TTTTAAAATA
1 TTTTAAAATA
720101 AATTTTTTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 28
0.65 0.08 0.27
Matches are distributed among these distances:
6 4 0.06
7 1 0.02
8 5 0.08
9 10 0.15
10 12 0.18
11 18 0.27
12 16 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:720058 original size:30 final size:31
Alignment explanation
Indices: 719992--720066 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
719982 TATTTTTTAA
* *
719992 ATTTTTTTAATTTTAAAATATTTTTAAAATT
1 ATTTTTTTAAATTTAAAATACTTTTAAAATT
*
720023 CTTTTTTTAAATTTAAAATACTTTTAAAA-T
1 ATTTTTTTAAATTTAAAATACTTTTAAAATT
720053 ATTTTTTTAAATTT
1 ATTTTTTTAAATTT
720067 TTTAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 14 0.35
31 26 0.65
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTTTAAATTTAAAATACTTTTAAAATT
Found at i:720069 original size:9 final size:9
Alignment explanation
Indices: 720055--720097 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
720045 TTTAAAATAT
720055 TTTTTTAAA
1 TTTTTTAAA
720064 TTTTTT-AA
1 TTTTTTAAA
*
720072 -TTTTAAAA
1 TTTTTTAAA
720080 TTTTTTAAA
1 TTTTTTAAA
*
720089 ATTTTTAAA
1 TTTTTTAAA
720098 ATAAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 4 0.14
8 4 0.14
9 21 0.72
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:720080 original size:16 final size:16
Alignment explanation
Indices: 720056--720087 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
720046 TTAAAATATT
*
720056 TTTTTAAATTTTTTAA
1 TTTTAAAATTTTTTAA
720072 TTTTAAAATTTTTTAA
1 TTTTAAAATTTTTTAA
720088 AATTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAAATTTTTTAA
Found at i:720107 original size:38 final size:39
Alignment explanation
Indices: 720025--720108 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
720015 TTAAAATTCT
**
720025 TTTTTTAAATTTAAAATACTTTTAAAATATTTTTTTAAA
1 TTTTTTAAATTTAAAATACTTTTAAAATATTTTAATAAA
* *
720064 TTTTTTAATTTTAAAAT-TTTTTAAAAT-TTTTAAAATAAA
1 TTTTTTAAATTTAAAATACTTTTAAAATATTTT--AATAAA
720103 TTTTTT
1 TTTTTT
720109 GTATTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 4 0.10
38 9 0.23
39 26 0.67
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTTTTAAATTTAAAATACTTTTAAAATATTTTAATAAA
Found at i:720108 original size:25 final size:26
Alignment explanation
Indices: 720049--720108 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
720039 AATACTTTTA
* **
720049 AAATATTTTTTTAAATTTTTTAATTTT
1 AAAT-TTTTTTTAAAATTTTTAATAAT
*
720076 AAA-ATTTTTTAAAATTTTTAA-AAT
1 AAATTTTTTTTAAAATTTTTAATAAT
720100 AAATTTTTT
1 AAATTTTTT
720109 GTATTTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 4 0.15
25 20 0.74
27 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
AAATTTTTTTTAAAATTTTTAATAAT
Found at i:721881 original size:22 final size:22
Alignment explanation
Indices: 721856--721940 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 22
721846 ACCATTGCTT
* * *
721856 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
721878 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
**
721900 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
*
721922 TCACGTACTAAGCTCTCAT
1 TAACGTACTAAGCTCTCAT
721941 TTTGGCAGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Found at i:722429 original size:121 final size:121
Alignment explanation
Indices: 722136--722437 Score: 417
Period size: 121 Copynumber: 2.5 Consensus size: 121
722126 TTTAGCCCCC
* ** * *
722136 AAAATAATATCTGTTCTCGTGATTGTTTCAAAGTTTGTGCATTACTCCTCTTAATCCGAACGGAG
1 AAAATAGTATCTGTTCTCGTGATTG-TTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAG
* * *
722201 GGATTGCAGGGAGGCTTTGTAACCTGAAGTTTTGCATATTTTTCATTGTTGGTAGAAT
65 GGATTGCAGGAAGGCATTGTAACCCGAAG-TTTGCATATTTTTCATTGTTGGTAGAAT
* * *
722259 AAGATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTACTCCTCCTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
* *
722324 GATTGCAGGAAGGCATTGTAACCCGAAG-TTGCATTTTTTTCCGTTGTTGGTAGAAT
66 GATTGCAGGAAGGCATTGTAACCCGAAGTTTGCATATTTTT-CATTGTTGGTAGAAT
* * * *
722380 AAAATGGTATGTGTTCTCGTGATTGTTCAAAGGCTGTGCATTAATCCTCCTATTCCGA
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGA
722438 GCATAGAGGT
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
120 11 0.07
121 65 0.41
122 60 0.38
123 22 0.14
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (121 bp):
AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
GATTGCAGGAAGGCATTGTAACCCGAAGTTTGCATATTTTTCATTGTTGGTAGAAT
Found at i:722483 original size:121 final size:119
Alignment explanation
Indices: 722136--722483 Score: 356
Period size: 122 Copynumber: 2.9 Consensus size: 119
722126 TTTAGCCCCC
* * ** * * * *
722136 AAAATAATATCTGTTCTCGTGATTGTTTCAAAGTTTGTGCATTACTCCTCTTAATCCGAACGGAG
1 AAAATAGTATCTGTACTCGTGATTG-TTCAAAGGCTCTGCATTAATCCTCCTAATCCGAACAGAG
* * * **
722201 GGATTGCAGGGAGGCTTTGTAACCTGAAGTTTTGCATATTTTTCATTGTTGGTAGAAT
65 GGATTGCAGGAAGACATTGTAACCCAAAG--TTGCAT-TTTTTCATTGTTGGTAGAAT
* *
722259 AAGATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTACTCCTCCTAATCCGAACAGAGG
1 AAAATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTAATCCTCCTAATCCGAACAGAGG
* * *
722324 GATTGCAGGAAGGCATTGTAACCCGAAGTTGCATTTTTTTCCGTTGTTGGTAGAAT
66 GATTGCAGGAAGACATTGTAACCCAAAGTTGCA-TTTTTT-CATTGTTGGTAGAAT
* * * * * * *
722380 AAAATGGTATGTGTTCTCGTGATTGTTCAAAGGCTGTGCATTAATCCTCCTATTCCGAGCATAGA
1 AAAATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTAATCCTCCTAATCCGAACAGAG-
** * *
722445 GG-TTGTGGTGGAGACATTTTAACCCAAAGTTGCATTTTT
65 GGATTGCAG-GAAGACATTGTAACCCAAAGTTGCATTTTT
722484 GTTGTACATT
Statistics
Matches: 194, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
120 10 0.05
121 79 0.41
122 83 0.43
123 22 0.11
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (119 bp):
AAAATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTAATCCTCCTAATCCGAACAGAGG
GATTGCAGGAAGACATTGTAACCCAAAGTTGCATTTTTTCATTGTTGGTAGAAT
Found at i:724915 original size:22 final size:20
Alignment explanation
Indices: 724890--724932 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
724880 TTTATTTATA
*
724890 AATAGAATGTTAATCAATAATG
1 AATACAATG-TAATCAA-AATG
*
724912 AATACATTGTAATCAAAATG
1 AATACAATGTAATCAAAATG
724932 A
1 A
724933 TGGGATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (20 bp):
AATACAATGTAATCAAAATG
Found at i:750621 original size:16 final size:18
Alignment explanation
Indices: 750588--750634 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
750578 ACCGATTTAA
**
750588 AATAAATATATT-GTGAT
1 AATAAATATATTAAAGAT
750605 AA-AAAT-TATTAAAGAT
1 AATAAATATATTAAAGAT
750621 AATAAATATATTAA
1 AATAAATATATTAA
750635 TATATTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 6 0.24
18 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
AATAAATATATTAAAGAT
Found at i:754512 original size:20 final size:19
Alignment explanation
Indices: 754470--754512 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
754460 GTCCCTTTTC
*
754470 AAAACAAATAAATTATTAA
1 AAAACAAATAAATTAATAA
754489 AAAACAGAATAAA-TAATAA
1 AAAACA-AATAAATTAATAA
754508 TAAAA
1 -AAAA
754513 TCTCGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAACAAATAAATTAATAA
Found at i:756976 original size:360 final size:360
Alignment explanation
Indices: 756268--757092 Score: 1018
Period size: 360 Copynumber: 2.3 Consensus size: 360
756258 ATATTAAACC
* * * * * *
756268 AAAATTTAATGTTAAAAAGGCAAATTTTGAATTACAAATTTCTAGGAGGGGTCAAAAATGAAATT
1 AAAATTTAATGTTAAAATGGCAAAATCTGAATTACAAATTTTTAAGAGGGGCCAAAAATGAAATT
*
756333 TCACCATTTTATCCAAGGTGCCAAATCCAAAGCCTCTGGTCCCTTTGGAGTTTGGATTGGCCCTT
66 TCACCATTTTATCC-A-GTGCCAAATCCAAAGCCTCTGATCCC--T---GTTTGGATTGGCCCTT
* **** * * *
756398 TCTCTATCCTATTTTTTTTCCGACTATGAGATATGATCGGTCAAATTATGATCTTGGTCCTTCTT
124 TCTCCATCCTATTTTGGGACCGACTACGAGATATGATCAGTCAAATTACGATCTTGGTCCTTCTT
* * * * *
756463 ATTATACTTAAATTTGATATTTAGTCTTTATACTTTAAATTGATATTATTGGTTTTTCTTCTTTT
189 ATTATACTCAAATTTGATATTTAGTCTTTATACTTTAAATTGATATAATTGATTTTTCTACGTTT
* * ** * *
756528 ATAATATCATTTGTCGGTTCAAATCATTAACTATTTTGATTAAAATATTACGATAAATATTTTAT
254 ATAATATCATTGGTCAGTTCAAATCATTAACTATTCCGATTAAAACATTACGATAAATAATTTAT
* **
756593 TGGGAGTCGAGGTAAAAATATAAATTCAACTGGCTGAAGCTA
319 TGGGAGTCAAGGTAAAAATATAAATTCAACTGGCCAAAGCTA
*
756635 AAAATTTAGTGTT-AAATGGCAAAATCTGAATTACAAATTTTTAAGAGGGGCCAAAAATGAAATT
1 AAAATTTAATGTTAAAATGGCAAAATCTGAATTACAAATTTTTAAGAGGGGCCAAAAATGAAATT
* * *
756699 TCACCATTTTATCTC-GTACCAAATCCAAAGCTTCT-ATCCC-GTTTGGATTTGCCCTTTCTCCA
66 TCACCATTTTATC-CAGTGCCAAATCCAAAGCCTCTGATCCCTGTTTGGATTGGCCCTTTCTCCA
* * ** * *
756761 TCCTGTTTTGGGACATGGGGTACGAGATATGATCAGTCAAATTACGGTCTTGGTCCTTCTTATTG
130 TCCTATTTTGGGAC--CGACTACGAGATATGATCAGTCAAATTACGATCTTGGTCCTTCTTATTA
*
756826 TACTCAAATTTGATATTTAGTCTTTATACTTTAATTTGATATAATTTGATCTTTT-TACGTTTAT
193 TACTCAAATTTGATATTTAGTCTTTATACTTTAAATTGATATAA-TTGAT-TTTTCTACGTTTAT
** *
756890 AATATTGTTGGTTAGTTCAAATCATTAACTATTCCGATTAAAACATTACGATAAATAATTTATTG
256 AATATCATTGGTCAGTTCAAATCATTAACTATTCCGATTAAAACATTACGATAAATAATTTATTG
*
756955 GGAGTCAAGGTAAATATATAAATTCAACTGGCCAAAGCTA
321 GGAGTCAAGGTAAAAATATAAATTCAACTGGCCAAAGCTA
* *
756995 AAAATTTAATGTTAAAAAT-GCAAAA-CTTAAATTATAAATTTTT-AGAAGGGGCCAAAAATGAA
1 AAAATTTAATGTT-AAAATGGCAAAATC-TGAATTACAAATTTTTAAG-AGGGGCCAAAAATGAA
* *
757057 ATTTTACTATTTTATCCAGATGCCAAATCCAAAGCC
63 ATTTCACCATTTTATCCAG-TGCCAAATCCAAAGCC
757093 AGTAGCCCCT
Statistics
Matches: 396, Mismatches: 51, Indels: 27
0.84 0.11 0.06
Matches are distributed among these distances:
357 29 0.07
359 82 0.21
360 119 0.30
361 55 0.14
362 18 0.05
363 4 0.01
364 18 0.05
366 58 0.15
367 13 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (360 bp):
AAAATTTAATGTTAAAATGGCAAAATCTGAATTACAAATTTTTAAGAGGGGCCAAAAATGAAATT
TCACCATTTTATCCAGTGCCAAATCCAAAGCCTCTGATCCCTGTTTGGATTGGCCCTTTCTCCAT
CCTATTTTGGGACCGACTACGAGATATGATCAGTCAAATTACGATCTTGGTCCTTCTTATTATAC
TCAAATTTGATATTTAGTCTTTATACTTTAAATTGATATAATTGATTTTTCTACGTTTATAATAT
CATTGGTCAGTTCAAATCATTAACTATTCCGATTAAAACATTACGATAAATAATTTATTGGGAGT
CAAGGTAAAAATATAAATTCAACTGGCCAAAGCTA
Found at i:758106 original size:2 final size:2
Alignment explanation
Indices: 758099--758125 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
758089 TTTGATGTAT
758099 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
758126 TAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:774409 original size:16 final size:17
Alignment explanation
Indices: 774388--774420 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
774378 GACTAATATC
774388 AAAA-TTTATCCAAATT
1 AAAATTTTATCCAAATT
*
774404 AAAATTTTATTCAAATT
1 AAAATTTTATCCAAATT
774421 TTTTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTTTATCCAAATT
Found at i:784767 original size:22 final size:23
Alignment explanation
Indices: 784737--784782 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
784727 TGGCTGGCTT
* *
784737 GAAACTTTATGACTCAGAGTTGA
1 GAAACTTTAGGACTCAAAGTTGA
*
784760 GAAA-TTTAGGATTCAAAGTTGA
1 GAAACTTTAGGACTCAAAGTTGA
784782 G
1 G
784783 TTTGAGGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (23 bp):
GAAACTTTAGGACTCAAAGTTGA
Found at i:792414 original size:82 final size:82
Alignment explanation
Indices: 792301--792453 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 82
792291 TCATATATCG
* *
792301 ATTAGTTCTTGTTTAATCGATCAATCCAATTCGATTCCAACGACTATGAAAAATAGAACTTGAAG
1 ATTAGTTCTTGTTTAATCGATCAATACAATTCGATTCCAACGACTACGAAAAATAGAACTTGAAG
792366 AGTTATTCCACTCATTT
66 AGTTATTCCACTCATTT
* * * *
792383 ATTAGTTCTTGTTTAATTGATTAATATAATTCGATTCCAACGATTACGAAAAATAGAACTTGAAG
1 ATTAGTTCTTGTTTAATCGATCAATACAATTCGATTCCAACGACTACGAAAAATAGAACTTGAAG
792448 AGTTAT
66 AGTTAT
792454 GTCACTTGGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (82 bp):
ATTAGTTCTTGTTTAATCGATCAATACAATTCGATTCCAACGACTACGAAAAATAGAACTTGAAG
AGTTATTCCACTCATTT
Found at i:793595 original size:33 final size:33
Alignment explanation
Indices: 793538--793618 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
793528 TCAGTTGGTT
* * *
793538 CGAGCCATATTAGTTGGCCGGAGCCTATACGGC
1 CGAGCCAGATTAATCGGCCGGAGCCTATACGGC
* * * *
793571 CTAGCCAGATTAATCGGCCTGAGCCTATTCGGG
1 CGAGCCAGATTAATCGGCCGGAGCCTATACGGC
*
793604 CGAGCCAGGTTAATC
1 CGAGCCAGATTAATC
793619 AGCCAGGAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (33 bp):
CGAGCCAGATTAATCGGCCGGAGCCTATACGGC
Found at i:793853 original size:78 final size:78
Alignment explanation
Indices: 793755--793989 Score: 371
Period size: 78 Copynumber: 3.0 Consensus size: 78
793745 GTCGGGCAGA
* ** *
793755 GCCAACTAGTGTGACTCAGAAAACCAATTTAACTCGTCCTGATGAAGCTACTGAGTCAGAGGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
*
793820 CGGCATTCTGGAC
66 CGGCTTTCTGGAC
*
793833 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTATTGAGTCAGAGGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
793898 CGGCTTTCTGGAC
66 CGGCTTTCTGGAC
* * * * *
793911 ACCAACTAGTGTGACTCAGAAAACAAATTCGGCTCGTCCTAATCAAGCTACTGAGTCGGAAGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
793976 CGGCTTTCTGGAC
66 CGGCTTTCTGGAC
793989 G
1 G
793990 GCATGTCCGT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 144 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (78 bp):
GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
CGGCTTTCTGGAC
Found at i:796619 original size:31 final size:32
Alignment explanation
Indices: 796584--796652 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
796574 TGCAACATTT
*
796584 TTATTGAA-TTATTTAAAGGTTTTCA-TTTAAA
1 TTATTGAATTTATTTAAAGGTTAT-ATTTTAAA
* *
796615 TTATT-AATTTATTTGAAGGTTATATTTTAAG
1 TTATTGAATTTATTTAAAGGTTATATTTTAAA
796646 TTATTGA
1 TTATTGA
796653 GCTGTTAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.09
31 28 0.88
32 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (32 bp):
TTATTGAATTTATTTAAAGGTTATATTTTAAA
Found at i:797059 original size:40 final size:41
Alignment explanation
Indices: 797004--797088 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
796994 AAATATATAT
*
797004 ATATAGTACACTTAGA-TTGTATGCCTGTGATAAGTATCTC
1 ATATAGTACACTTAGATTTGTATGCCTGTGATAAATATCTC
*
797044 ATATAGTACACTTAGATTTGTATGCTTGTGATAAATATCTC
1 ATATAGTACACTTAGATTTGTATGCCTGTGATAAATATCTC
797085 ATAT
1 ATAT
797089 GGTAAGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 16 0.38
41 26 0.62
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (41 bp):
ATATAGTACACTTAGATTTGTATGCCTGTGATAAATATCTC
Found at i:804152 original size:24 final size:26
Alignment explanation
Indices: 804125--804175 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
804115 GAAATTTCTT
804125 TGATAGTA-TGATTTG-AT-TATTTTG
1 TGATAG-ACTGATTTGTATATATTTTG
*
804149 TGATTGACTGATTTGTATATATTTTG
1 TGATAGACTGATTTGTATATATTTTG
804175 T
1 T
804176 AAAATTACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 12 0.52
25 2 0.09
26 8 0.35
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.55
Consensus pattern (26 bp):
TGATAGACTGATTTGTATATATTTTG
Found at i:804764 original size:123 final size:123
Alignment explanation
Indices: 804604--804832 Score: 318
Period size: 123 Copynumber: 1.9 Consensus size: 123
804594 TTTGCCTCAT
* * * * *
804604 CTGGATTGTTGATGAAATTTGGGTTTGAAACTAAAAGCTTATTTGAGTTAGTAAGCGAAAGGTTC
1 CTGGATTGTTGACGAAATTCGGGTTTGAAACGAAAAGCTCATTCGAGTTAGTAAGCGAAAGGTTC
* *
804669 GAGTCC-TTTCCATTCGTGTTTTAGCTT-TGTTCATCTTGTTTTTCCTCATATGGATTGC
66 AAGTCCTTTTCCATT-GTGTTGTAG-TTCTGTTCATCTTGTTTTTCCTCATATGGATTGC
* **
804727 CTGGATTGTTGACGAAATTCGGGTTTGAAACGGAAAGCTCATTCGAGTTAGTAATTGAAAGGTTC
1 CTGGATTGTTGACGAAATTCGGGTTTGAAACGAAAAGCTCATTCGAGTTAGTAAGCGAAAGGTTC
**
804792 AAGTCCTTTTTGATTGTGTTGTAGTTCTGTTCATCTTGTTT
66 AAGTCCTTTTCCATTGTGTTGTAGTTCTGTTCATCTTGTTT
804833 AGATTGCCGT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
122 2 0.02
123 84 0.91
124 6 0.07
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.41
Consensus pattern (123 bp):
CTGGATTGTTGACGAAATTCGGGTTTGAAACGAAAAGCTCATTCGAGTTAGTAAGCGAAAGGTTC
AAGTCCTTTTCCATTGTGTTGTAGTTCTGTTCATCTTGTTTTTCCTCATATGGATTGC
Found at i:808601 original size:6 final size:6
Alignment explanation
Indices: 808595--808630 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
808585 TAGGAGTAGT
* *
808595 AGGAGT AGGAGT AGGAGC AGGAGC AGGAGC AGGAGC
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
808631 TGCTGAGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.50, T:0.06
Consensus pattern (6 bp):
AGGAGC
Found at i:809927 original size:21 final size:22
Alignment explanation
Indices: 809889--809937 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
809879 ACTCATTTTA
* * *
809889 CTTTTTAAAATT-TTTTTTATT
1 CTTTTAAAAATTAATTTTAATT
809910 CTTTTAAAAATTAATTTTAATT
1 CTTTTAAAAATTAATTTTAATT
*
809932 TTTTTA
1 CTTTTA
809938 GAAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTTTAAAAATTAATTTTAATT
Found at i:809934 original size:20 final size:19
Alignment explanation
Indices: 809883--809934 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
809873 TTGATCACTC
* *
809883 ATTTTACTTTTTAAAATTT
1 ATTTTAATTTTTAAAATTA
* *
809902 TTTTTATTCTTTTAAAAATTA
1 ATTTTAAT-TTTT-AAAATTA
809923 ATTTTAATTTTT
1 ATTTTAATTTTT
809935 TTAGAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 6 0.23
20 8 0.31
21 12 0.46
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTAATTTTTAAAATTA
Found at i:814291 original size:31 final size:31
Alignment explanation
Indices: 814256--814322 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
814246 AAAAACTCAG
814256 TGACTTAAATAAAAAAATTCAAATAGTTCAA
1 TGACTTAAATAAAAAAATTCAAATAGTTCAA
* ** *
814287 TGACTTAAATGAAAATTTTCAAATAGTTTAA
1 TGACTTAAATAAAAAAATTCAAATAGTTCAA
814318 TGACT
1 TGACT
814323 ATTTTATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (31 bp):
TGACTTAAATAAAAAAATTCAAATAGTTCAA
Found at i:819627 original size:2 final size:2
Alignment explanation
Indices: 819620--819680 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
819610 TCAGGTATTC
819620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
819662 AA AT AT AC AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT A
819681 ATACAATCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:822949 original size:123 final size:123
Alignment explanation
Indices: 822730--823100 Score: 679
Period size: 123 Copynumber: 3.0 Consensus size: 123
822720 TAACCTTTTA
*
822730 TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCCGGCCTA
1 TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCAGGCCTA
* *
822795 TGCCGAGAAAATTACTTGCCCACAATGCGGCGAGCTCAATCCAATTATAAAGAAATCG
66 TGCCGAGAAAATTACTTGCTCACAATGCGGCGAGGTCAATCCAATTATAAAGAAATCG
822853 TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCAGGCCTA
1 TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCAGGCCTA
*
822918 TGCCCAGAAAATTACTTGCTCACAATGCGGCGAGGTCAATCCAATTATAAAGAAATCG
66 TGCCGAGAAAATTACTTGCTCACAATGCGGCGAGGTCAATCCAATTATAAAGAAATCG
822976 TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCAGGCCTA
1 TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCAGGCCTA
* * *
823041 TGCCGAGAAATTTACTTGCTCACAATGCGGCGGGGTCAATCCAATTATAAAGAAACCG
66 TGCCGAGAAAATTACTTGCTCACAATGCGGCGAGGTCAATCCAATTATAAAGAAATCG
823099 TC
1 TC
823101 GCCGGCGACT
Statistics
Matches: 240, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 240 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (123 bp):
TCCGATGAAATGATAATCAAAATCGTGTGCATCCGTTGCCATCAAAAGCTAACGGCGCAGGCCTA
TGCCGAGAAAATTACTTGCTCACAATGCGGCGAGGTCAATCCAATTATAAAGAAATCG
Found at i:830806 original size:18 final size:18
Alignment explanation
Indices: 830783--830825 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
830773 GAATAGGTTT
830783 TTAATTAAACAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
830801 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
830819 TTAATTA
1 TTAATTA
830826 CACATTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:832784 original size:3 final size:3
Alignment explanation
Indices: 832778--832804 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
832768 TTTTTAAAAC
832778 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
832805 TTTTTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:835393 original size:6 final size:6
Alignment explanation
Indices: 835382--835426 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
835372 AGAGAGTATA
*
835382 TATATG TATATGTG TTTATG TATATG TATATG TATATG TATATG T
1 TATATG TATA--TG TATATG TATATG TATATG TATATG TATATG T
835427 GTTTTTCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 30 0.86
8 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (6 bp):
TATATG
Found at i:835734 original size:3 final size:3
Alignment explanation
Indices: 835726--835765 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
835716 ATTGTTTCTT
835726 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
835766 GTCTGTTTGT
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:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:842267 original size:89 final size:90
Alignment explanation
Indices: 842162--842328 Score: 225
Period size: 89 Copynumber: 1.8 Consensus size: 90
842152 AAACCCTAAA
842162 GTTAAGGCCCTAATATGGAAACAATTGACAAGTTC-AAGGACTAACTTT-GAC-AAAAAAAGTTC
1 GTTAAGGCCCTAATATGGAAACAATTGACAAGTTCGAAGG-CTAA-TTTAGACAAAAAAAAGTTC
*
842224 ATGCCTCAATGTGAGAACTATTGCCTT
64 AAGCCTCAATGTGAGAACTATTGCCTT
* * *
842251 GTTAAGGCCCCT-ATATGGGAACAATTGTCAAGTTCGGAGGCTAATTTAGACAAAAAAAAAAGTT
1 GTTAAGG-CCCTAATATGGAAACAATTGACAAGTTCGAAGGCTAATTTAGAC--AAAAAAAAGTT
842315 CAAGCCTCAATGTG
63 CAAGCCTCAATGTG
842329 TTTAGGTCCC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
88 3 0.04
89 35 0.51
90 7 0.10
92 23 0.34
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (90 bp):
GTTAAGGCCCTAATATGGAAACAATTGACAAGTTCGAAGGCTAATTTAGACAAAAAAAAGTTCAA
GCCTCAATGTGAGAACTATTGCCTT
Found at i:843592 original size:17 final size:18
Alignment explanation
Indices: 843570--843604 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
843560 GATTTAGGGT
843570 TTAAA-TTTTTTAATTAA
1 TTAAATTTTTTTAATTAA
843587 TTAAATTTTTTTAATTAA
1 TTAAATTTTTTTAATTAA
843605 AAATCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATTTTTTTAATTAA
Found at i:852480 original size:37 final size:37
Alignment explanation
Indices: 852409--852480 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
852399 TGTTGAGGCG
* * *
852409 TGTTATTGGTTGGATTAGCTCCCTGGAGCATTTGGCA
1 TGTTATTAGTTAGATTAGCTCCATGGAGCATTTGGCA
*
852446 TGTTATTAGTTAGATTAGCTCTCAT-GAGCGTTTGG
1 TGTTATTAGTTAGATTAGCTC-CATGGAGCATTTGG
852481 TGTGTTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.93
38 2 0.07
ACGTcount: A:0.18, C:0.14, G:0.28, T:0.40
Consensus pattern (37 bp):
TGTTATTAGTTAGATTAGCTCCATGGAGCATTTGGCA
Found at i:857917 original size:37 final size:37
Alignment explanation
Indices: 857849--857919 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
857839 ACATGATATT
*
857849 GGTTGGATTAGCTCCACGAAGCGTTTGGCGTGTTATC
1 GGTTGGATTAGCTCCACGAAGCGTTTAGCGTGTTATC
* *
857886 GGTTGGATTAGCTCTCATG-AGTGTTTAGCGTGTT
1 GGTTGGATTAGCTC-CACGAAGCGTTTAGCGTGTT
857920 TTGGTTTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 27 0.90
38 3 0.10
ACGTcount: A:0.15, C:0.15, G:0.32, T:0.37
Consensus pattern (37 bp):
GGTTGGATTAGCTCCACGAAGCGTTTAGCGTGTTATC
Found at i:862270 original size:54 final size:54
Alignment explanation
Indices: 862188--862298 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
862178 AGTGATTTTG
*
862188 GGACCACAAATTTCTGTCATGTCAACTCGTAACTATTACTTATAGAATATTTAC
1 GGACCACAAATTTCTGTCATGTCAACTCGTAACTATTACTTATAGAATATCTAC
862242 GGACCACAAATTTCTGTCATGTCAACTCGTAACTATTACTTATAGAATATCTAC
1 GGACCACAAATTTCTGTCATGTCAACTCGTAACTATTACTTATAGAATATCTAC
862296 GGA
1 GGA
862299 GTCATTTGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (54 bp):
GGACCACAAATTTCTGTCATGTCAACTCGTAACTATTACTTATAGAATATCTAC
Found at i:870286 original size:31 final size:32
Alignment explanation
Indices: 870248--870309 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
870238 GACTCATTTT
870248 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* *
870279 TATTTTAAAAATATTTTAAAATTTAAAAAAA
1 TATTTTAAAAATATTTAAAAAATTAAAAAAA
870310 ATTAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAAATTAAAAAAAG
Found at i:870288 original size:11 final size:11
Alignment explanation
Indices: 870248--870352 Score: 57
Period size: 10 Copynumber: 10.2 Consensus size: 11
870238 GACTCATTTT
870248 TATTTT-AAAA
1 TATTTTAAAAA
870258 -ATTTTAAAAA
1 TATTTTAAAAA
**
870268 -ATTAAAAAAA
1 TATTTTAAAAA
870278 GTATTTTAAAAA
1 -TATTTTAAAAA
870290 TATTTT--AAA
1 TATTTTAAAAA
870299 -A-TTTAAAAA
1 TATTTTAAAAA
* * *
870308 AAATTAAAAAA
1 TATTTTAAAAA
* *
870319 GTATGTAAAAAA
1 -TATTTTAAAAA
870331 TATTTT-AAAA
1 TATTTTAAAAA
*
870341 T-TTTAAAAAA
1 TATTTTAAAAA
870351 TA
1 TA
870353 AGGCCCGGGC
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
7 3 0.04
8 1 0.01
9 14 0.19
10 23 0.31
11 17 0.23
12 16 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:870308 original size:41 final size:40
Alignment explanation
Indices: 870248--870351 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 40
870238 GACTCATTTT
* *
870248 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTTTAAAAAATT-AAAAAAGTATGTAAAAAA
*
870290 TATTTTAAAATTTAAAAAAAATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTT-TAAAAAATTAAAAAAGTATGTAAAAAA
870331 TATTTTAAAATTTTAAAAAAT
1 TATTTTAAAATTTTAAAAAAT
870352 AAGGCCCGGG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 7 0.12
41 36 0.63
42 14 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (40 bp):
TATTTTAAAATTTTAAAAAATTAAAAAAGTATGTAAAAAA
Found at i:873179 original size:29 final size:29
Alignment explanation
Indices: 873107--873181 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
873097 TTTTTCATTT
*
873107 ATATCTAAATTTAGTTTCAATGTTGAATTAG
1 ATATTTAAATTT--TTTCAATGTTGAATTAG
** * *
873138 ATATTTAGGTTTTTTCAATGTTTAATTTG
1 ATATTTAAATTTTTTCAATGTTGAATTAG
*
873167 GTATTTAAATTTTTT
1 ATATTTAAATTTTTT
873182 TATCCCAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
29 27 0.75
31 9 0.25
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (29 bp):
ATATTTAAATTTTTTCAATGTTGAATTAG
Found at i:873337 original size:2 final size:2
Alignment explanation
Indices: 873330--873367 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
873320 GCTTTATAAG
873330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
873368 TTAGTTATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:883157 original size:20 final size:21
Alignment explanation
Indices: 883119--883157 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
883109 TCATATAAAA
**
883119 ATTAAGAAATATATTAAATAT
1 ATTAAGAAATATAAAAAATAT
883140 ATTAA-AAATATAAAAAAT
1 ATTAAGAAATATAAAAAAT
883158 TTGCTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTAAGAAATATAAAAAATAT
Found at i:887568 original size:255 final size:253
Alignment explanation
Indices: 887028--887582 Score: 577
Period size: 255 Copynumber: 2.2 Consensus size: 253
887018 TCCCCGGAAT
* * * ** * *
887028 TTCAAATCTTAAAAAATATAAAGAAACCATTCTGTCATACAAGGGATGATTGCAGGCAGCGGTAT
1 TTCAAATCTTATAAAATATAAAGAAACCTTTCTGTCATACAATGGCGGATTGCAAGCAGCGGCAT
* * * * * *
887093 CAAATACTACGATTAGCCATGAAATACTTCCGAATTTTGATAAATCAAACTACAATGTGATTCAA
66 CAAACACTACGATAAGCCATGAAACACTTCCAAATTTTGATAAATCAAACTAAAATATGATTCAA
* * * * *
887158 AGCCTAAACAATATAAAGGAAATCTTTCTTTCAGACGACGCATGATATGCAGGCAGCAGTATCAA
131 AGCCTAAACAATAGAAAGGAAATCTTTCTTCCAGACAACGCATGACATGCAGCCAGCAGTATCAA
** * * * * * *
887223 ACAGTATGATTAGCTATGAATCACTATTTGAATTTCGATAAATCTAACTGCAACATTA
196 ACACCATGATTAGCTATGAAACACTATCTGAATTTCGACAAATCAAACTACAACATGA
* * * *
887281 TTCAAAATC-TATGAAGTATAAAAGAGACCTTTCTGTCATACAATGGCGGATATGCAAGCAGTGG
1 TTC-AAATCTTATAAAATAT-AAAGAAACCTTTCTGTCATACAATGGCGGAT-TGCAAGCAGCGG
* * * *
887345 CATCAAACACTATGATAAGCTATGAAGCACTTCCAAATTTCT-ATGAATCAAACTAAAATATGAT
63 CATCAAACACTACGATAAGCCATGAAACACTTCCAAATTT-TGATAAATCAAACTAAAATATGAT
* ** *
887409 TCGAAA-TCTATAA-AATAGAAAGG-AATCTTTTCTGTCCTTA-AACGGATGACATGCAGCCAGC
127 TC-AAAGCCTA-AACAATAGAAAGGAAATC-TTTCT-TCCAGACAACGCATGACATGCAGCCAGC
* * *
887470 -GTTATCAAACACCATTATTAGCTATGAAACAC-CTCTGAATTTCGACAAATCAAACTACAATAT
188 AG-TATCAAACACCATGATTAGCTATGAAACACTATCTGAATTTCGACAAATCAAACTACAACAT
887533 GA
252 GA
*
887535 TTCAGAATCTTATAAAATATAAAGGAAACCTTTCTGTCATACAGTGGC
1 TTCA-AATCTTATAAAATATAAA-GAAACCTTTCTGTCATACAATGGC
887583 CAACATGCAG
Statistics
Matches: 245, Mismatches: 45, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
253 11 0.04
254 72 0.29
255 153 0.62
256 9 0.04
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (253 bp):
TTCAAATCTTATAAAATATAAAGAAACCTTTCTGTCATACAATGGCGGATTGCAAGCAGCGGCAT
CAAACACTACGATAAGCCATGAAACACTTCCAAATTTTGATAAATCAAACTAAAATATGATTCAA
AGCCTAAACAATAGAAAGGAAATCTTTCTTCCAGACAACGCATGACATGCAGCCAGCAGTATCAA
ACACCATGATTAGCTATGAAACACTATCTGAATTTCGACAAATCAAACTACAACATGA
Found at i:889758 original size:2 final size:2
Alignment explanation
Indices: 889751--889775 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
889741 AAATAAAGAG
889751 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
889776 TTGATACTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:890118 original size:11 final size:11
Alignment explanation
Indices: 890102--890127 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
890092 ATTTTTTTAA
890102 TTTTAAAATAC
1 TTTTAAAATAC
890113 TTTTAAAATAC
1 TTTTAAAATAC
890124 TTTT
1 TTTT
890128 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:890134 original size:49 final size:50
Alignment explanation
Indices: 890081--890208 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
890071 CCGAATATAA
* ** * ** *
890081 TAAATATTTTTATTTTTTTA-ATTTTAAAATACTTTTAAAATACTTTTTT
1 TAAATATTTTTAATTTTAAATATTTTAAAAAAAATTAAAAATACTTTTTT
*
890130 TAAATTTTTTTAATTTTAAATATTTTAAAAAAAATTAAAAATAC--TTTT
1 TAAATATTTTTAATTTTAAATATTTTAAAAAAAATTAAAAATACTTTTTT
* *
890178 T-AATTTTTTTAATTTTAAAATATTTTTAAAA
1 TAAATATTTTTAATTTT-AAATATTTTAAAAA
890209 TATTTTTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 15 0.22
48 18 0.26
49 16 0.24
50 19 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (50 bp):
TAAATATTTTTAATTTTAAATATTTTAAAAAAAATTAAAAATACTTTTTT
Found at i:890219 original size:13 final size:11
Alignment explanation
Indices: 890190--890215 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
890180 ATTTTTTTAA
890190 TTTTAAAATAT
1 TTTTAAAATAT
890201 TTTTAAAATAT
1 TTTTAAAATAT
890212 TTTT
1 TTTT
890216 TTAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:892729 original size:31 final size:31
Alignment explanation
Indices: 892675--892733 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
892665 ATTTTACAGA
* *
892675 AAGTGACCAAAATAGAGACGGTCTAAAACGT
1 AAGTGACCAAAACAGAAACGGTCTAAAACGT
* *
892706 AAGTGACTAAAACAGAAATGGTCTAAAA
1 AAGTGACCAAAACAGAAACGGTCTAAAA
892734 TAACTAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (31 bp):
AAGTGACCAAAACAGAAACGGTCTAAAACGT
Found at i:896161 original size:31 final size:31
Alignment explanation
Indices: 896123--896218 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
896113 TTTCCTTCTC
* *
896123 AACGAATCTGAGTCGACGTTGGATACAGATT
1 AACGAATCTGAGTCGATGTTAGATACAGATT
* * *
896154 AACGAATCCGAGTCGATGTTAAATACGGATT
1 AACGAATCTGAGTCGATGTTAGATACAGATT
* *
896185 AACGAATTTGAGTTGATGTTAGATACAGATT
1 AACGAATCTGAGTCGATGTTAGATACAGATT
896216 AAC
1 AAC
896219 ATAAAACATA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (31 bp):
AACGAATCTGAGTCGATGTTAGATACAGATT
Found at i:898388 original size:17 final size:19
Alignment explanation
Indices: 898363--898399 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
898353 AAACAATCAA
*
898363 TTAATATT-GGAGATAAAT
1 TTAATATTGGGAAATAAAT
898381 TTAA-ATTGGGAAATAAAT
1 TTAATATTGGGAAATAAAT
898399 T
1 T
898400 CGGATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATATTGGGAAATAAAT
Found at i:911499 original size:78 final size:78
Alignment explanation
Indices: 911370--911531 Score: 238
Period size: 78 Copynumber: 2.1 Consensus size: 78
911360 CCAGAGTGTG
911370 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGC
*
911435 TACTGAATCTGCC
66 TACAGAATCTGCC
** * *
911448 GATGGGCC-ACATTCT-AGCTTAGCTGATGAGATTGCAGTTTCTCCTGAATCAGAAGTAGAAGTT
1 GATGGGCCAAC-TTCTGA-CTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCT
*
911511 GCTACAGAATCTGTC
64 GCTACAGAATCTGCC
911526 GATGGG
1 GATGGG
911532 AGGAAGCGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 3 0.04
78 73 0.96
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGC
TACAGAATCTGCC
Found at i:913732 original size:78 final size:78
Alignment explanation
Indices: 913599--913753 Score: 240
Period size: 78 Copynumber: 2.0 Consensus size: 78
913589 CAGAGTGTGG
* *
913599 ATGGGCCAACATCTGACTTCGTTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAAAAGTTGCT
1 ATGGGCCAACATCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAAAAGTTGCT
913664 ACTGAATCTGTCA
66 ACTGAATCTGTCA
* * * *
913677 ATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCATAAGTAGAAGTTGC
1 ATGGGCCAACA-TCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAAAAGTTGC
913741 TACTGAATCTGTC
65 TACTGAATCTGTC
913754 GGTGGGAGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 3 0.04
78 67 0.96
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (78 bp):
ATGGGCCAACATCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAAAAGTTGCT
ACTGAATCTGTCA
Found at i:916115 original size:78 final size:78
Alignment explanation
Indices: 915978--916132 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
915968 CCAGAGTGTG
* *
915978 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCACCAGAATTAGAAATAGAACTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCACCAGAATCAGAAATAGAACTCGC
916043 TACTGAATCTGTC
66 TACTGAATCTGTC
* * * *
916056 GATGGGCC-ACATTCT-AGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGTC
1 GATGGGCCAAC-TTCTGA-CTTAGCTGATGAGATTGCAGCTTCACCAGAATCAGAAATAGAACTC
916119 GCTACTGAATCTGT
64 GCTACTGAATCTGT
916133 AGGCGGGAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 3 0.04
78 66 0.96
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCACCAGAATCAGAAATAGAACTCGC
TACTGAATCTGTC
Found at i:918497 original size:78 final size:78
Alignment explanation
Indices: 918364--918508 Score: 263
Period size: 78 Copynumber: 1.9 Consensus size: 78
918354 ATGGACCAAC
918364 TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGCTGCTACTGAATCTG
1 TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGCTGCTACTGAATCTG
918429 TCAATGGGCCACA
66 TCAATGGGCCACA
* * *
918442 TTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGTTGCTACTGAATCTG
1 TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGCTGCTACTGAATCTG
918507 TC
66 TC
918509 GGCGGGAGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (78 bp):
TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGCTGCTACTGAATCTG
TCAATGGGCCACA
Found at i:920856 original size:78 final size:78
Alignment explanation
Indices: 920727--920883 Score: 280
Period size: 78 Copynumber: 2.0 Consensus size: 78
920717 CCAGAGTGTG
920727 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
920792 TACTGAATCTGTC
66 TACTGAATCTGTC
* *
920805 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTG
920869 CTACTGAATCTGTC
65 CTACTGAATCTGTC
920883 G
1 G
920884 GGGGGAGGAA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 2 0.03
78 74 0.97
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TACTGAATCTGTC
Found at i:921433 original size:30 final size:29
Alignment explanation
Indices: 921395--921451 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
921385 TTCGATATTT
921395 AATCTAAATCATA-TCAA-TTCAACTCAAGC
1 AATCTAAAT-A-ACTCAACTTCAACTCAAGC
921424 AATCATAAATAACTCAACTTCAACTCAA
1 AATC-TAAATAACTCAACTTCAACTCAA
921452 TATAATGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 1 0.04
29 9 0.36
30 15 0.60
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.26
Consensus pattern (29 bp):
AATCTAAATAACTCAACTTCAACTCAAGC
Found at i:923236 original size:78 final size:78
Alignment explanation
Indices: 923086--923229 Score: 227
Period size: 78 Copynumber: 1.8 Consensus size: 78
923076 CTAGAGTGTG
* *
923086 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAAAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTCCTGACTTAGCTAATGAGATTGCAGCTTCTCCAAAATCAGAAGTAGAAGTTGC
923151 TATTGAATCTGTC
66 TATTGAATCTGTC
* * *
923164 GATGGGCC-ACATCCTGGCTTAGCTAATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGTTG
1 GATGGGCCAAC-TCCTGACTTAGCTAATGAGATTGCAGCTTCTCCAAAATCAGAAGTAGAAGTTG
923228 CT
65 CT
923230 TCTGAATTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 2 0.03
78 58 0.97
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTCCTGACTTAGCTAATGAGATTGCAGCTTCTCCAAAATCAGAAGTAGAAGTTGC
TATTGAATCTGTC
Found at i:924556 original size:24 final size:24
Alignment explanation
Indices: 924497--924560 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
924487 ATGTGCTTTT
924497 TTATTATATATTATTATTAAAACTA
1 TTATTA-ATATTATTATTAAAACTA
* ** *
924522 ATA-TAATTATTATTATTAGCATTA
1 TTATTAA-TATTATTATTAAAACTA
924546 TTATTAATATTATTA
1 TTATTAATATTATTA
924561 AATACCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 26 0.81
25 5 0.16
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTAATATTATTATTAAAACTA
Found at i:924766 original size:2 final size:2
Alignment explanation
Indices: 924761--924797 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
924751 TTTGTATAAG
924761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
924798 GCACATTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:925183 original size:15 final size:15
Alignment explanation
Indices: 925163--925193 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
925153 TTTTAATTCG
925163 TTTTTGCTCATATTA
1 TTTTTGCTCATATTA
*
925178 TTTTTGTTCATATTA
1 TTTTTGCTCATATTA
925193 T
1 T
925194 CATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGCTCATATTA
Found at i:925466 original size:109 final size:109
Alignment explanation
Indices: 925263--925559 Score: 438
Period size: 109 Copynumber: 2.8 Consensus size: 109
925253 ACGGCAATAC
* * * *
925263 TTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCAACC
1 TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTAAACC
* ** *
925328 AAATAGCTAAATATCCTTTTAAAATTTTCAAAATAAGACAATGT
66 AAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGACAATGT
*
925372 TTTGTGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTAAACC
1 TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTAAACC
* *
925437 AAATAGCCAAATATTCTTCCAAAAATTTCAAAATAAGGCAATGT
66 AAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGACAATGT
* * * *
925481 TTTGCGTTTGGAAATTCGAG-GAACGTGCTCTAATGTGCTAGGTTTCGA--TTTCTCGTTTAACC
1 TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTAAACC
925543 AAATAGCCAAATATCCT
66 AAATAGCCAAATATCCT
925560 CTTGAATTTT
Statistics
Matches: 171, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
106 29 0.17
108 25 0.15
109 117 0.68
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTAAACC
AAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGACAATGT
Found at i:928269 original size:78 final size:78
Alignment explanation
Indices: 928155--928299 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 78
928145 CAACTTCTGA
* *
928155 CTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAA-GTTGCTACTGAATCTGCCGAT
1 CTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGGTT-CTACAGAAGCTGCCGAT
928219 GGGCCACATTCTAG
65 GGGCCACATTCTAG
* * *
928233 CTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGGTTCTACAGAAGCTGTCGATG
1 CTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGGTTCTACAGAAGCTGCCGATG
928298 GG
66 GG
928300 AGGAAGCGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
78 58 0.95
79 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (78 bp):
CTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGGTTCTACAGAAGCTGCCGATG
GGCCACATTCTAG
Found at i:931286 original size:18 final size:18
Alignment explanation
Indices: 931265--931301 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
931255 ATTCTCAATC
931265 AATTATCAATTTATACAA
1 AATTATCAATTTATACAA
* *
931283 AATTTTCAATTTATTCAA
1 AATTATCAATTTATACAA
931301 A
1 A
931302 TTGATTGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATCAATTTATACAA
Found at i:935367 original size:23 final size:22
Alignment explanation
Indices: 935335--935381 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
935325 CTATGTTGCT
935335 TTGACACTGTTATTTATTGGCA
1 TTGACACTGTTATTTATTGGCA
935357 TTGACTACTGTTATTTATTGGCA
1 TTGAC-ACTGTTATTTATTGGCA
935380 TT
1 TT
935382 TACATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (22 bp):
TTGACACTGTTATTTATTGGCA
Found at i:935596 original size:19 final size:19
Alignment explanation
Indices: 935572--935609 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
935562 ACAAAAAGTC
935572 TACTTTGCTCTTTAATTAA
1 TACTTTGCTCTTTAATTAA
935591 TACTTTGCTCTTTAATTAA
1 TACTTTGCTCTTTAATTAA
935610 ATATAGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (19 bp):
TACTTTGCTCTTTAATTAA
Found at i:939245 original size:16 final size:16
Alignment explanation
Indices: 939221--939254 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
939211 ATCATTACTT
*
939221 AGTTTCGAATAAAGGG
1 AGTTCCGAATAAAGGG
939237 AGTTCCGAATAAAGGG
1 AGTTCCGAATAAAGGG
939253 AG
1 AG
939255 AATGCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (16 bp):
AGTTCCGAATAAAGGG
Found at i:963238 original size:182 final size:181
Alignment explanation
Indices: 962933--963272 Score: 520
Period size: 182 Copynumber: 1.9 Consensus size: 181
962923 TCTTTGTATA
* *
962933 TTAGATTAAAGAGCAAATTAATTTTCTGTTAAAAATTTTATCCATTAATACTGTTAAAAACTGGC
1 TTAGATTAAAGAGCAAATAAATTTTCTGTTAAAAATTTTATCCATTAATACGGTTAAAAACTGGC
* *
962998 ATGGCTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATACAG
66 ATGACTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATACAA
*
963063 GGACCAATTTTTGACAG-AAAATGGATGAATTTTTTAACAAAATAATCAAT
131 GGACCAATTTTTAACAGAAAAATGGATGAATTTTTTAACAAAATAATCAAT
** *
963113 TTAGATTAAAGAGCAAACTAATATTTTCTGTTAAAAATTTTATCTGTTTATACGGTTAAAAACTG
1 TTAGATTAAAGAGCAAA-TAA-ATTTTCTGTTAAAAATTTTATCCATTAATACGGTTAAAAACTG
* * * * * *
963178 GCATGACTAACAGAATAATTTAACAATGACACGTGGCGTGCCACATGTACCTCATGCAGACGTTC
64 GCATGACTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATAC
963243 AAGGACCAATTTTTAACAGCAAAAATGGAT
129 AAGGACCAATTTTTAACAG-AAAAATGGAT
963273 TTAACGTACA
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
180 17 0.12
181 2 0.01
182 114 0.80
184 9 0.06
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (181 bp):
TTAGATTAAAGAGCAAATAAATTTTCTGTTAAAAATTTTATCCATTAATACGGTTAAAAACTGGC
ATGACTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATACAA
GGACCAATTTTTAACAGAAAAATGGATGAATTTTTTAACAAAATAATCAAT
Found at i:966110 original size:51 final size:52
Alignment explanation
Indices: 966046--966148 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
966036 AGCAGCCGAC
*
966046 TGACTTGATTCCAAACTTCT-TCCAG-TAATTCCAACTTCTCTTC-TAGATTCAG
1 TGACTTGACTCCAAACTTCTCT-CAGAT-ATTCCAACTTCTCTTCTTA-ATTCAG
*
966098 TGACTTG-CTCCAAACTTCTCTCAGATATTCCAACTTCTTTTCTTAATTCAG
1 TGACTTGACTCCAAACTTCTCTCAGATATTCCAACTTCTCTTCTTAATTCAG
966149 CAGCCTGCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 35 0.76
52 11 0.24
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.40
Consensus pattern (52 bp):
TGACTTGACTCCAAACTTCTCTCAGATATTCCAACTTCTCTTCTTAATTCAG
Found at i:966158 original size:51 final size:51
Alignment explanation
Indices: 966055--966159 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
966045 CTGACTTGAT
* *
966055 TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGTGACTTGC
1 TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGAGACCTGC
*
966106 TCCAAACTTC-TCTCAG-ATATTCCAACTTCTTTTCTTA-ATTCAGCAG-CCTGC
1 TCCAAACTTCTTC-CAGTA-ATTCCAACTTCTCTTC-TAGATTCAG-AGACCTGC
966157 TCC
1 TCC
966160 GACCTCATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
50 3 0.06
51 41 0.87
52 3 0.06
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (51 bp):
TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGAGACCTGC
Found at i:973058 original size:19 final size:18
Alignment explanation
Indices: 973019--973060 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
973009 ATGTAAGTTC
973019 AAATGTTAAATGAGACGA
1 AAATGTTAAATGAGACGA
*
973037 AAAT-TTAAATTGAAGACTA
1 AAATGTTAAA-TG-AGACGA
973056 AAATG
1 AAATG
973061 ACTTTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (18 bp):
AAATGTTAAATGAGACGA
Found at i:974021 original size:26 final size:26
Alignment explanation
Indices: 973961--974024 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
973951 GTTGGCAATG
*
973961 CTTTTGAAAAGTGACGTGGAAAAGTG
1 CTTTTGAAAAGTGACGTGGAAAAGTA
* * *
973987 CTCTCGAAAAGTGACGTGTAAAAGTA
1 CTTTTGAAAAGTGACGTGGAAAAGTA
974013 CTTTTGAAAAGT
1 CTTTTGAAAAGT
974025 TTAGTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTTTGAAAAGTGACGTGGAAAAGTA
Found at i:974363 original size:19 final size:20
Alignment explanation
Indices: 974331--974368 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
974321 TTGTAATTAG
974331 TATTTTAAAAAAT-ATTTTT
1 TATTTTAAAAAATAATTTTT
**
974350 TATTTTAATTAATAATTTT
1 TATTTTAAAAAATAATTTT
974369 AACACATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTAAAAAATAATTTTT
Found at i:978203 original size:59 final size:59
Alignment explanation
Indices: 978132--978251 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
978122 ATCGAGGTTA
978132 TAATAGTCTTGAAGTTTTCACTATTCTTTTGCTTCTTAAGGCAAGGTATGCCCTCTTGG
1 TAATAGTCTTGAAGTTTTCACTATTCTTTTGCTTCTTAAGGCAAGGTATGCCCTCTTGG
978191 TAATAGTCTTGAAGTTTTCACTATTCTTTTGCTTCTTAAGGCAAGGTATGCCCTCTTGG
1 TAATAGTCTTGAAGTTTTCACTATTCTTTTGCTTCTTAAGGCAAGGTATGCCCTCTTGG
978250 TA
1 TA
978252 CATACTTAAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (59 bp):
TAATAGTCTTGAAGTTTTCACTATTCTTTTGCTTCTTAAGGCAAGGTATGCCCTCTTGG
Found at i:982089 original size:6 final size:6
Alignment explanation
Indices: 982078--982107 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
982068 ACTTTAAAGT
982078 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
982108 ACCCATAGTG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:989301 original size:31 final size:31
Alignment explanation
Indices: 989261--989321 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
989251 TGGACTGGAC
* *
989261 TAATTTCA-TTCTATTTAAATTATTATTTAAT
1 TAATATCATTTCTATTTAAATT-TAATTTAAT
*
989292 TAATATCATTTTTATTTAAATTTAATTTAA
1 TAATATCATTTCTATTTAAATTTAATTTAA
989322 AGATATGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (31 bp):
TAATATCATTTCTATTTAAATTTAATTTAAT
Found at i:993562 original size:118 final size:118
Alignment explanation
Indices: 993354--993590 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
993344 TCCGTTCAGA
993354 TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
1 TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
993419 AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
66 AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
* *
993472 TATTGCTAGGCAGAAGGGATTGAGAATATCATACTTCGAAAGGCTTTGCAAGCTTAGTCCATTCA
1 TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
*
993537 AGAATGATGATCCAATGTTCGTTGCACAGCTTAAGGACCGATCACTTTAGGGC
66 AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
993590 T
1 T
993591 GTAAATGAAC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (118 bp):
TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
Found at i:993761 original size:19 final size:17
Alignment explanation
Indices: 993737--993781 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
993727 GAGTGTTTAT
993737 ATTATTTATTTATAATATG
1 ATTATTTATTTAT-AT-TG
993756 ATTATTAATATTTATATTG
1 ATTATT--TATTTATATTG
993775 ATTATTT
1 ATTATTT
993782 TATATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
19 14 0.58
20 2 0.08
21 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTATTTATTTATATTG
Found at i:997309 original size:20 final size:21
Alignment explanation
Indices: 997259--997309 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
997249 ATACCTAAAA
997259 AAAAAC-AAATCTCAGATTTC
1 AAAAACAAAATCTCAGATTTC
997279 AAAAATCAAAATC-CA-ATTTC
1 AAAAA-CAAAATCTCAGATTTC
997299 AATAAACAAAA
1 AA-AAACAAAA
997310 GGGAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 17 0.61
21 6 0.21
22 5 0.18
ACGTcount: A:0.59, C:0.18, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAACAAAATCTCAGATTTC
Found at i:1001870 original size:19 final size:19
Alignment explanation
Indices: 1001838--1001897 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
1001828 ATTTTGTAAA
1001838 AAAATATAAAAATATATTAG
1 AAAATAT-AAAATATATTAG
* *
1001858 AAAATTTAAAATAT-TGTAA
1 AAAATATAAAATATAT-TAG
1001877 AAAATATAAAA-ATATTAG
1 AAAATATAAAATATATTAG
1001895 AAA
1 AAA
1001898 TTGTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.24
19 20 0.59
20 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATATAAAATATATTAG
Found at i:1001888 original size:27 final size:29
Alignment explanation
Indices: 1001844--1001909 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
1001834 TAAAAAAATA
1001844 TAAAAATATATTAGAAAAT-TTAAAATATTG
1 TAAAAA-ATATTAGAAAATATTAAAA-ATTG
*
1001874 TAAAAAATA-TA-AAAATATTAGAAATTG
1 TAAAAAATATTAGAAAATATTAAAAATTG
1001901 TAAAAAATA
1 TAAAAAATA
1001910 AATTTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 18 0.53
28 7 0.21
29 3 0.09
30 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (29 bp):
TAAAAAATATTAGAAAATATTAAAAATTG
Found at i:1001907 original size:20 final size:19
Alignment explanation
Indices: 1001865--1001933 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
1001855 TAGAAAATTT
* * *
1001865 AAAATATTGTAAAAAATATA
1 AAAATATTG-AAATAGTAAA
*
1001885 AAAATATTAGAAATTGTAAA
1 AAAATATT-GAAATAGTAAA
* *
1001905 AAATAAATTTAAATAGTAAA
1 AAA-ATATTGAAATAGTAAA
1001925 AAAATATTG
1 AAAATATTG
1001934 TATCCTAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
19 4 0.11
20 29 0.76
21 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATATTGAAATAGTAAA
Found at i:1002189 original size:3 final size:3
Alignment explanation
Indices: 1002181--1002220 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1002171 TAAATAAATT
1002181 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
1002221 GTTTGAATTT
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:1002753 original size:3 final size:3
Alignment explanation
Indices: 1002745--1002780 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1002735 AATTTTGATG
1002745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1002781 CCACACTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1008869 original size:10 final size:11
Alignment explanation
Indices: 1008840--1008874 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1008830 GTTTGATTTG
1008840 ATTAAATAAATT
1 ATTAAA-AAATT
1008852 ATTAAAAAATT
1 ATTAAAAAATT
*
1008863 ATAAAAAAATT
1 ATTAAAAAATT
1008874 A
1 A
1008875 ATTTAATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:1009961 original size:16 final size:16
Alignment explanation
Indices: 1009940--1009972 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1009930 TTAAACTTGA
*
1009940 TTAAGCTCAAATTTAT
1 TTAAGCTCAAACTTAT
1009956 TTAAGCTCAAACTTAT
1 TTAAGCTCAAACTTAT
1009972 T
1 T
1009973 CATATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (16 bp):
TTAAGCTCAAACTTAT
Found at i:1013201 original size:32 final size:32
Alignment explanation
Indices: 1013161--1013229 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
1013151 AATAAATAAA
*
1013161 AATAT-AA-ATTTATTAAATATTAAATTAAAAAT
1 AATATAAATATTTATTAAA-A-AAAATTAAAAAT
*
1013193 AATATAAATATTTTTTAAAAAAAATTAAAAAT
1 AATATAAATATTTATTAAAAAAAATTAAAAAT
1013225 AATAT
1 AATAT
1013230 GAGCGAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 21 0.64
33 3 0.09
34 9 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
AATATAAATATTTATTAAAAAAAATTAAAAAT
Found at i:1018177 original size:41 final size:41
Alignment explanation
Indices: 1018132--1018310 Score: 136
Period size: 41 Copynumber: 4.5 Consensus size: 41
1018122 ATCAAAGAAT
* **
1018132 AAATTAGTTCTATTAAAAATTTTATCAATTTCTACGGTTAA
1 AAATTAGTTCTATTAAAAATTATATCAATTTCTAATGTTAA
* *
1018173 AAATTAGTTCTA-TAAAAA--AAATCAATTTCTAATATTAA
1 AAATTAGTTCTATTAAAAATTATATCAATTTCTAATGTTAA
* * ** * * * * *
1018211 AAATTGGTTCTATTCATTATTATACGCTAGTTC-AAAG--AGC
1 AAATTAGTTCTATTAAAAATTATA-TCAATTTCTAATGTTA-A
* * *
1018251 AAATTAGTTCTATTAAAAATTTTATCAATTTCCACTGTTAA
1 AAATTAGTTCTATTAAAAATTATATCAATTTCTAATGTTAA
*
1018292 AAATTAGTTCTATAAAAAA
1 AAATTAGTTCTATTAAAAA
1018311 ATAGTTTAAT
Statistics
Matches: 102, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
38 26 0.25
39 9 0.09
40 27 0.26
41 34 0.33
42 6 0.06
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (41 bp):
AAATTAGTTCTATTAAAAATTATATCAATTTCTAATGTTAA
Found at i:1018211 original size:38 final size:39
Alignment explanation
Indices: 1018132--1018223 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 39
1018122 ATCAAAGAAT
** * *
1018132 AAATTAGTTCTATTAAAAATTTTATCAATTTCTACGGTTAA
1 AAATTAGTTCTA-TAAAAA-TAAATCAATTTCTAAGATTAA
*
1018173 AAATTAGTTCTATAAAAA-AAATCAATTTCTAATATTAA
1 AAATTAGTTCTATAAAAATAAATCAATTTCTAAGATTAA
*
1018211 AAATTGGTTCTAT
1 AAATTAGTTCTAT
1018224 TCATTATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.60
40 6 0.13
41 12 0.27
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (39 bp):
AAATTAGTTCTATAAAAATAAATCAATTTCTAAGATTAA
Found at i:1019873 original size:26 final size:26
Alignment explanation
Indices: 1019817--1019867 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1019807 ATATAAAAAA
* *
1019817 TATAATTATTTTAATTATAATTACAT
1 TATAATTATTTTAATTATAATCAAAT
1019843 TATAATTATTTTAATTA-AA-CAAAT
1 TATAATTATTTTAATTATAATCAAAT
1019867 T
1 T
1019868 TTATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 2 0.09
26 17 0.74
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
TATAATTATTTTAATTATAATCAAAT
Found at i:1024790 original size:32 final size:32
Alignment explanation
Indices: 1024751--1024821 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1024741 TATGGGTTAT
*
1024751 ACAACAAACACATATTTAAAACTCAAAACCCA
1 ACAACAAAAACATATTTAAAACTCAAAACCCA
1024783 ACAACAAAAACATATTTAAAACTCAAAACCCA
1 ACAACAAAAACATATTTAAAACTCAAAACCCA
1024815 ACAACAA
1 ACAACAA
1024822 TAATTAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (32 bp):
ACAACAAAAACATATTTAAAACTCAAAACCCA
Found at i:1026915 original size:21 final size:21
Alignment explanation
Indices: 1026876--1026915 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1026866 ATAACCGACA
*
1026876 TTAAATTTTAGAATGTTTAGT
1 TTAAATTTTAAAATGTTTAGT
1026897 TTAAATTTTTAAAAT-TTTA
1 TTAAA-TTTTAAAATGTTTA
1026916 AATATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
TTAAATTTTAAAATGTTTAGT
Found at i:1026923 original size:29 final size:29
Alignment explanation
Indices: 1026878--1026946 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
1026868 AACCGACATT
* * *
1026878 AAATTTTAGAATGTTTAGTTTAA-ATTTTTA
1 AAATTTTA-AATATTTA-ATTAATATTTTAA
1026908 AAATTTTAAATATTTAATTAATATTTTAA
1 AAATTTTAAATATTTAATTAATATTTTAA
1026937 AAATTTTAAA
1 AAATTTTAAA
1026947 GGGTTTGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 23 0.66
30 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
AAATTTTAAATATTTAATTAATATTTTAA
Found at i:1026933 original size:20 final size:20
Alignment explanation
Indices: 1026905--1026942 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1026895 GTTTAAATTT
*
1026905 TTAAAATTTTAAATATTTAA
1 TTAAAATTTTAAAAATTTAA
*
1026925 TTAATATTTTAAAAATTT
1 TTAAAATTTTAAAAATTT
1026943 TAAAGGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATTTTAAAAATTTAA
Found at i:1030757 original size:3 final size:3
Alignment explanation
Indices: 1030749--1030803 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
1030739 TATGTGATTC
1030749 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1030797 TAT TAT T
1 TAT TAT T
1030804 TTAGAAACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1032059 original size:10 final size:10
Alignment explanation
Indices: 1032030--1032059 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1032020 ACAATTTCTG
*
1032030 TTCTTTTTTC
1 TTCTTTTTTT
1032040 TTCTTTTTTT
1 TTCTTTTTTT
1032050 TTCTTTTTTT
1 TTCTTTTTTT
1032060 AATCTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:1036313 original size:14 final size:15
Alignment explanation
Indices: 1036296--1036326 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1036286 AAATACGTGG
1036296 ATGAAATA-ATAGAA
1 ATGAAATACATAGAA
1036310 ATGAAATACATAGAA
1 ATGAAATACATAGAA
1036325 AT
1 AT
1036327 TTGATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGAAATACATAGAA
Found at i:1054597 original size:13 final size:14
Alignment explanation
Indices: 1054568--1054602 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1054558 TTTGGTTATC
1054568 TTTG-TATTCGTAT
1 TTTGTTATTCGTAT
1054581 TTTGTTATTCGTAT
1 TTTGTTATTCGTAT
*
1054595 TTGGTTAT
1 TTTGTTAT
1054603 CCGTGTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.14, C:0.06, G:0.17, T:0.63
Consensus pattern (14 bp):
TTTGTTATTCGTAT
Found at i:1066857 original size:23 final size:23
Alignment explanation
Indices: 1066827--1066872 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1066817 AGTGTGATTT
* *
1066827 AATTTGAGAATTTGGACCATATC
1 AATTTGAGAATATAGACCATATC
1066850 AATTTGAGAATATAGACCATATC
1 AATTTGAGAATATAGACCATATC
1066873 TATAACTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (23 bp):
AATTTGAGAATATAGACCATATC
Found at i:1075778 original size:21 final size:21
Alignment explanation
Indices: 1075753--1075798 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1075743 AATGATAATT
*
1075753 TAAATATTAAAATAAAAAAAA
1 TAAATATCAAAATAAAAAAAA
* *
1075774 TAAATATCAAAATAGAAATAA
1 TAAATATCAAAATAAAAAAAA
1075795 TAAA
1 TAAA
1075799 ATTTAATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATATCAAAATAAAAAAAA
Done.