Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 122 of 295
Found at i:41892849 original size:19 final size:19
Alignment explanation
Indices: 41892825--41892874 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
41892815 TTTTTTTATA
41892825 AATTTTATAACTTTATATC
1 AATTTTATAACTTTATATC
*
41892844 AATTTTA-ATACTTTTTATC
1 AATTTTATA-ACTTTATATC
41892863 -ATTTT-TAACTTT
1 AATTTTATAACTTT
41892875 TTCAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 16 0.57
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTTATAACTTTATATC
Found at i:41892988 original size:21 final size:20
Alignment explanation
Indices: 41892958--41893048 Score: 63
Period size: 20 Copynumber: 4.8 Consensus size: 20
41892948 TTTTATCAAT
*
41892958 TTTATAATTTTTGTAATTTA
1 TTTATAATTTTTATAATTTA
41892978 TTTATATATTTTTATAA-TT-
1 TTTATA-ATTTTTATAATTTA
**
41892997 TTTATAAATTAATATCAA-TT-
1 TTTAT-AATTTTTAT-AATTTA
41893017 TTTAT-ATTTTT-TAA--TA
1 TTTATAATTTTTATAATTTA
41893033 TTTAATAATTTTTATA
1 TTT-ATAATTTTTATA
41893049 TTTCTAGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.02
16 5 0.08
17 3 0.05
18 10 0.17
19 13 0.22
20 18 0.31
21 9 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTATAATTTTTATAATTTA
Found at i:41893017 original size:29 final size:27
Alignment explanation
Indices: 41892957--41893048 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 27
41892947 GTTTTATCAA
* *
41892957 TTTTATAATTTTTGTAATTTATTTATATAT
1 TTTTATAATTTTT-TAAATTA-ATATA-AT
41892987 TTTTATAATTTTTATAAATTAATATCAAT
1 TTTTATAATTTTT-TAAATTAATAT-AAT
*
41893016 TTTTAT-ATTTTTTAATATTTA-ATAAT
1 TTTTATAATTTTTTAA-ATTAATATAAT
41893042 TTTTATA
1 TTTTATA
41893049 TTTCTAGATA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
26 9 0.16
27 5 0.09
28 10 0.18
29 11 0.20
30 20 0.36
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTTATAATTTTTTAAATTAATATAAT
Found at i:41893051 original size:8 final size:9
Alignment explanation
Indices: 41892948--41893048 Score: 82
Period size: 9 Copynumber: 10.8 Consensus size: 9
41892938 CATAATTATG
41892948 TTTTATCAA-
1 TTTTAT-AAT
41892957 TTTTATAAT
1 TTTTATAAT
*
41892966 TTTTGTAATT
1 TTTTATAA-T
41892976 TATTTATATAT
1 T-TTTATA-AT
41892987 TTTTATAAT
1 TTTTATAAT
41892996 TTTTATAAAT
1 TTTTAT-AAT
**
41893006 TAATATCAAT
1 TTTTAT-AAT
41893016 TTTTAT-AT
1 TTTTATAAT
41893024 TTTT-TAAT
1 TTTTATAAT
*
41893032 ATTTAATAAT
1 -TTTTATAAT
41893042 TTTTATA
1 TTTTATA
41893049 TTTCTAGATA
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
7 1 0.01
8 10 0.13
9 30 0.40
10 26 0.35
11 7 0.09
12 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:41893074 original size:10 final size:10
Alignment explanation
Indices: 41892957--41893074 Score: 56
Period size: 10 Copynumber: 12.2 Consensus size: 10
41892947 GTTTTATCAA
41892957 TTTTATAA-T
1 TTTTATAATT
*
41892966 TTTTGTAATT
1 TTTTATAATT
41892976 TATTTAT-ATAT
1 T-TTTATAAT-T
41892987 TTTTATAA-T
1 TTTTATAATT
*
41892996 TTTTATAAAT
1 TTTTATAATT
**
41893006 TAATATCAA-T
1 TTTTAT-AATT
41893016 TTTTAT-A-T
1 TTTTATAATT
*
41893024 TTTT-TAATA
1 TTTTATAATT
*
41893033 TTTAATAA-T
1 TTTTATAATT
41893042 TTTTAT-ATT
1 TTTTATAATT
**
41893051 TCTAGATAAATT
1 T-TTTAT-AATT
41893063 TTTTATAATT
1 TTTTATAATT
41893073 TT
1 TT
41893075 ATGAAAAATA
Statistics
Matches: 82, Mismatches: 14, Indels: 25
0.68 0.12 0.21
Matches are distributed among these distances:
7 1 0.01
8 8 0.10
9 26 0.32
10 31 0.38
11 12 0.15
12 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:41893083 original size:22 final size:21
Alignment explanation
Indices: 41893041--41893083 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
41893031 TATTTAATAA
*
41893041 TTTTTATATTTCTAGATAAAT
1 TTTTTATATTTCTAGAAAAAT
41893062 TTTTTATAATTT-TATGAAAAAT
1 TTTTTAT-ATTTCTA-GAAAAAT
41893084 ATTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTATATTTCTAGAAAAAT
Found at i:41899430 original size:10 final size:10
Alignment explanation
Indices: 41899386--41899424 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
41899376 ATTTAATTTT
41899386 TTAAAAATTA
1 TTAAAAATTA
*
41899396 TTAAAAACTA
1 TTAAAAATTA
*
41899406 TAAAAAATTA
1 TTAAAAATTA
41899416 TTAAAAATT
1 TTAAAAATT
41899425 TGTAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:41899678 original size:10 final size:10
Alignment explanation
Indices: 41899661--41899738 Score: 70
Period size: 10 Copynumber: 7.8 Consensus size: 10
41899651 CAATTTTTAA
41899661 ATAA-TTTTT
1 ATAATTTTTT
*
41899670 ATAATTTTTA
1 ATAATTTTTT
41899680 ATAATTTTTT
1 ATAATTTTTT
*
41899690 GA-AATTTTTAA
1 -ATAATTTTT-T
**
41899701 ATAATGGTTT
1 ATAATTTTTT
*
41899711 ATAATTTTTA
1 ATAATTTTTT
*
41899721 ATAAATTTTT
1 ATAATTTTTT
41899731 ATAATTTT
1 ATAATTTT
41899739 AAAATATTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
9 4 0.08
10 43 0.81
11 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:41899705 original size:31 final size:29
Alignment explanation
Indices: 41899663--41899735 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
41899653 ATTTTTAAAT
*
41899663 AATTTTTATAAT-TTTTAATAATTTTTTGA
1 AATTTTTATAATGGTTT-ATAATTTTTTGA
41899692 AATTTTTAAATAATGGTTTATAATTTTTAAT-A
1 AATTTTT--ATAATGGTTTATAATTTTT--TGA
41899724 AATTTTTATAAT
1 AATTTTTATAAT
41899736 TTTAAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 7 0.18
30 5 0.13
31 14 0.37
32 11 0.29
33 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (29 bp):
AATTTTTATAATGGTTTATAATTTTTTGA
Found at i:41899721 original size:41 final size:40
Alignment explanation
Indices: 41899652--41899744 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
41899642 CTAAATTCAC
* *
41899652 AATTTTTAAATAATTTTTATAATTTTTAATAATTTTTTGA-
1 AATTTTTAAATAATGTTTATAATTTTTAATAAATTTTT-AT
41899692 AATTTTTAAATAATGGTTTATAATTTTTAATAAATTTTTAT
1 AATTTTTAAATAAT-GTTTATAATTTTTAATAAATTTTTAT
*
41899733 AATTTTAAAATA
1 AATTTTTAAATA
41899745 TTTTAAACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
40 15 0.31
41 33 0.69
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (40 bp):
AATTTTTAAATAATGTTTATAATTTTTAATAAATTTTTAT
Found at i:41899761 original size:61 final size:60
Alignment explanation
Indices: 41899652--41899765 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 60
41899642 CTAAATTCAC
*
41899652 AATTTTTAAATAATTTTTATAATTTTTAATAATTTTTTGAAATTTTTAAATAATGGTTTAT
1 AATTTTTAAATAATTTTTATAATTTTTAATAATATTTTGAAATTTTT-AATAATGGTTTAT
41899713 AATTTTT-AATAAATTTTTATAA-TTTTAA-AATATTTT-AAACTATATTTAATAAT
1 AATTTTTAAAT-AATTTTTATAATTTTTAATAATATTTTGAAA-T-T-TTTAATAAT
41899766 TATTTACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
58 3 0.06
59 8 0.17
60 16 0.33
61 21 0.44
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (60 bp):
AATTTTTAAATAATTTTTATAATTTTTAATAATATTTTGAAATTTTTAATAATGGTTTAT
Found at i:41899765 original size:50 final size:49
Alignment explanation
Indices: 41899660--41899866 Score: 128
Period size: 50 Copynumber: 4.2 Consensus size: 49
41899650 ACAATTTTTA
*
41899660 AATAATTTTT-AT-AATTTTTAATAATTTTTTGAAAT-TTTTAAATA-ATGGTT
1 AATAATTTTTAATAAATTTTT-ATAA--TTTTAAAATATTTTAAATATAT--TT
*
41899710 TATAATTTTTAATAAATTTTTATAATTTTAAAATATTTTAAACTATATTT
1 AATAATTTTTAATAAATTTTTATAATTTTAAAATATTTTAAA-TATATTT
* * * * * *
41899760 AATAATTATTTACTATA-TTTAATATTTTTAAAAAAATTT-AATAT-TTT
1 AATAATT-TTTAATAAATTTTTATAATTTTAAAATATTTTAAATATATTT
** ** *
41899807 AATAATTTGCAAT---TTTTCTATAATTTTTAAATATATTTTTTATGATTTTT
1 AATAATTTTTAATAAATTTT-TATAA-TTTTAAA-ATATTTTAAAT-ATATTT
41899857 AATAATTTTT
1 AATAATTTTT
41899867 TTTATAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 10 0.08
47 15 0.12
48 5 0.04
49 12 0.10
50 53 0.42
51 15 0.12
52 9 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (49 bp):
AATAATTTTTAATAAATTTTTATAATTTTAAAATATTTTAAATATATTT
Found at i:41899854 original size:22 final size:22
Alignment explanation
Indices: 41899818--41899878 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
41899808 ATAATTTGCA
41899818 ATTTTTCTATAATTTTTAA-ATAT
1 ATTTTT-TATAATTTTTAATA-AT
*
41899841 ATTTTTTATGATTTTTAATAAT
1 ATTTTTTATAATTTTTAATAAT
*
41899863 TTTTTTTATAATTTTT
1 ATTTTTTATAATTTTT
41899879 TTTGGTCTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTTATAATTTTTAATAAT
Found at i:41899856 original size:10 final size:10
Alignment explanation
Indices: 41899817--41899879 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
41899807 AATAATTTGC
41899817 AATTTTTCTAT
1 AATTTTT-TAT
*
41899828 AATTTTTAAAT
1 AATTTTT-TAT
41899839 ATATTTTTTAT
1 A-ATTTTTTAT
* *
41899850 GATTTTTAAT
1 AATTTTTTAT
41899860 AATTTTTTTTAT
1 AA--TTTTTTAT
41899872 AATTTTTT
1 AATTTTTT
41899880 TTGGTCTGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 15 0.36
11 12 0.29
12 15 0.36
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:41899866 original size:20 final size:20
Alignment explanation
Indices: 41899652--41899878 Score: 143
Period size: 20 Copynumber: 11.3 Consensus size: 20
41899642 CTAAATTCAC
41899652 AATTTTTAAATAA-TTTTTAT
1 AATTTTT-AATAATTTTTTAT
41899672 AATTTTTAATAATTTTTTGA-
1 AATTTTTAATAATTTTTT-AT
**
41899692 AATTTTTAAATAATGGTTTAT
1 AATTTTT-AATAATTTTTTAT
*
41899713 AATTTTTAATAAATTTTTAT
1 AATTTTTAATAATTTTTTAT
*
41899733 AA-TTTTAA-AATATTTTA-
1 AATTTTTAATAATTTTTTAT
*
41899750 AACTATATTTAATAATTATTTACT
1 AA-T-T-TTTAATAATTTTTTA-T
* * *
41899774 -ATATTTAAT-ATTTTTAAA
1 AATTTTTAATAATTTTTTAT
** *
41899792 AAAATTTAAT-A-TTTTAAT
1 AATTTTTAATAATTTTTTAT
** *
41899810 AATTTGCAAT--TTTTCTAT
1 AATTTTTAATAATTTTTTAT
41899828 AATTTTTAAATATATTTTTTAT
1 AATTTTT-AATA-ATTTTTTAT
*
41899850 GATTTTTAATAATTTTTTTTAT
1 AATTTTTAATAA--TTTTTTAT
41899872 AATTTTT
1 AATTTTT
41899879 TTTGGTCTGG
Statistics
Matches: 162, Mismatches: 26, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.01
18 29 0.18
19 29 0.18
20 40 0.25
21 26 0.16
22 35 0.22
23 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAATAATTTTTTAT
Found at i:41899873 original size:12 final size:12
Alignment explanation
Indices: 41899852--41899881 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41899842 TTTTTTATGA
*
41899852 TTTTTAATAATT
1 TTTTTTATAATT
41899864 TTTTTTATAATT
1 TTTTTTATAATT
41899876 TTTTTT
1 TTTTTT
41899882 GGTCTGGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:41899880 original size:11 final size:11
Alignment explanation
Indices: 41899817--41899880 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
41899807 AATAATTTGC
*
41899817 AATTTTTCTAT
1 AATTTTTTTAT
**
41899828 AATTTTTAAAT
1 AATTTTTTTAT
41899839 -ATATTTTTTAT
1 AAT-TTTTTTAT
* *
41899850 GA-TTTTTAAT
1 AATTTTTTTAT
41899860 AATTTTTTTTAT
1 AA-TTTTTTTAT
41899872 AATTTTTTT
1 AATTTTTTT
41899881 TGGTCTGGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
10 10 0.24
11 22 0.52
12 10 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:41900893 original size:13 final size:13
Alignment explanation
Indices: 41900884--41900908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41900874 CATAAAAGAC
41900884 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
41900897 CAAAAAAAAAAA
1 CAAAAAAAAAAA
41900909 GATGTAATTT
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:41907051 original size:42 final size:42
Alignment explanation
Indices: 41906963--41907070 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 42
41906953 TGGTGTCGAT
* * * *
41906963 GCCATGTCCCAAACATGGTCTTACACGAGACCTCACACCGAT
1 GCCATGTCCCAAACATAGTCTTACACGAAACCTCACACCAAC
* * * *
41907005 GCCATGTCCCAGACATAGTCTTACACGAAATCTCATATCAAC
1 GCCATGTCCCAAACATAGTCTTACACGAAACCTCACACCAAC
* * *
41907047 GCCATATCCCAAATATGGTCTTAC
1 GCCATGTCCCAAACATAGTCTTAC
41907071 TTGAAATCAC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (42 bp):
GCCATGTCCCAAACATAGTCTTACACGAAACCTCACACCAAC
Found at i:41907130 original size:48 final size:49
Alignment explanation
Indices: 41907047--41907195 Score: 133
Period size: 48 Copynumber: 3.1 Consensus size: 49
41907037 TCATATCAAC
* * ** * * *
41907047 GCCATATCCCAAATATGGTCTTAC-TTGAAATCACATACCGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
*
41907095 GCCATATCCCAGATATGGTCTTACACTGGCA-CACATATCAACGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
* * * * * ** *
41907143 GCCATGTCCTAGACAGGGTCTTACACTGGC-TCTCATGTCAAAGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
41907191 GCCAT
1 GCCAT
41907196 GTATTAGACA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
48 81 0.96
49 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
Found at i:41907196 original size:48 final size:48
Alignment explanation
Indices: 41907092--41907263 Score: 191
Period size: 48 Copynumber: 3.6 Consensus size: 48
41907082 TACCGATGCT
* * * * *
41907092 GATGCCATATCCCAGATATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAAAGCC
* * *
41907140 GATGCCATGTCCTAGACAGGGTCTTACACTGGCTCTCATGTCAAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAAAGCC
*** * * * *
41907188 GATGCCATGTATTAGACATAGTCTTACACTGGCTTTCATATCGGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-AAAGCC
*
41907237 GATGCCATGTCCCAGGCATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
41907264 CCAGGATCTC
Statistics
Matches: 102, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 76 0.75
49 26 0.25
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAAAGCC
Found at i:41907694 original size:44 final size:44
Alignment explanation
Indices: 41907634--41907718 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
41907624 AAATTAAAAA
41907634 TTTACCCTTAAAGTTTCACAAAATTACGAAATTGCCCCTAGAAT
1 TTTACCCTTAAAGTTTCACAAAATTACGAAATTGCCCCTAGAAT
* *
41907678 TTTATCCTTAAAGTTTCACAAAATTACGAAATTGCCTCTAG
1 TTTACCCTTAAAGTTTCACAAAATTACGAAATTGCCCCTAG
41907719 GCTCGTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (44 bp):
TTTACCCTTAAAGTTTCACAAAATTACGAAATTGCCCCTAGAAT
Found at i:41915424 original size:46 final size:46
Alignment explanation
Indices: 41915382--41915504 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 46
41915372 CATCTCGTAA
41915382 CCGATGCATGTCCCAAACATGTCTTACACTA-C-CTTACGTCTCGAGG
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCAC-T-CGTCTCGAGG
* * * *
41915428 CCGATGCATGTCTCAGACATGTCTTACACTAGCACTCGTCTAGATG
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCGAGG
41915474 CCGATGCAATGTCCCAAACATAGTCTTACAC
1 CCGATGC-ATGTCCCAAACAT-GTCTTACAC
41915505 CAACTCTCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 44 0.66
47 13 0.19
48 10 0.15
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCGAGG
Found at i:41917424 original size:42 final size:42
Alignment explanation
Indices: 41917365--41917478 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
41917355 CATGTTGGTG
41917365 TCGATGCCATGTCCCAGACATAGTCTTACAC-AAGACCTCACA
1 TCGATGCCATGTCCCAGACATAGTCTTACACGAA-ACCTCACA
* *
41917407 TCGATGCCATGTCCCAGACATAGTCTTACACGAAATCTCATA
1 TCGATGCCATGTCCCAGACATAGTCTTACACGAAACCTCACA
* * * * *
41917449 TCAACGCCATATCCCAGATATGGTCTTACA
1 TCGATGCCATGTCCCAGACATAGTCTTACA
41917479 TCAAATCACA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 62 0.97
43 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.25
Consensus pattern (42 bp):
TCGATGCCATGTCCCAGACATAGTCTTACACGAAACCTCACA
Found at i:41917537 original size:48 final size:49
Alignment explanation
Indices: 41917454--41917672 Score: 189
Period size: 48 Copynumber: 4.5 Consensus size: 49
41917444 TCATATCAAC
* * ** * *
41917454 GCCATATCCCAGATATGGTCTTACATC--AAATCACATACCGATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATCTGGCA-CACATACCAACGCCGAT
* * *
41917502 GCCATATCCCAGATATGGTCTTAC-TCTGGCACACATATCAACGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATCTGGCACACATACCAACGCCGAT
* * * **
41917550 GCCATGTCCTAGACATGGTCTTACAT-TGGCTCTCATGTCAACGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATCTGGCACACATACCAACGCCGAT
* * * * *
41917598 GCCATGTCCTAGACATGGTCTTACA-CTGGCTCTCAT-CTCGAATGTCGAT
1 GCCATGTCCCAGACATGGTCTTACATCTGGCACACATAC-C-AACGCCGAT
*
41917647 GCCATGTCCCAGACATGGTTTTACAT
1 GCCATGTCCCAGACATGGTCTTACAT
41917673 GGGATCTCAT
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.01
48 114 0.77
49 32 0.22
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACATCTGGCACACATACCAACGCCGAT
Found at i:41917600 original size:96 final size:97
Alignment explanation
Indices: 41917496--41917682 Score: 250
Period size: 97 Copynumber: 1.9 Consensus size: 97
41917486 ACATACCGAT
* * *
41917496 GCCGATGCCATATCCCAGATATGGTCTTACTCTGGCACACATATC-AACGCCGATGCCATGTCCT
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACACATATCGAACGCCGATGCCATGTCCC
* *
41917560 AGACATGGTCTTACATTGGCTCTCATGTCAAC
66 AGACATGGTCTTACATGGGATCTCATGTCAAC
* * * * * * *
41917592 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTCGAATGTCGATGCCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACACATATCGAACGCCGATGCCATGTCCC
*
41917657 AGACATGGTTTTACATGGGATCTCAT
66 AGACATGGTCTTACATGGGATCTCAT
41917683 TAATCGAGGT
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
96 38 0.49
97 39 0.51
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACACATATCGAACGCCGATGCCATGTCCC
AGACATGGTCTTACATGGGATCTCATGTCAAC
Found at i:41917682 original size:49 final size:47
Alignment explanation
Indices: 41917496--41917674 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 47
41917486 ACATACCGAT
* * * * * * *
41917496 GCCGATGCCATATCCCAGATATGGTCTTACTCTGGCACACATATCAAC
1 GCCGATGCCATGTCCTAGACATGGTCTTAC-ATGGCTCTCATCTCAAC
*
41917544 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATGTCAAC
1 GCCGATGCCATGTCCTAGACATGGTCTTACA-TGGCTCTCATCTCAAC
*
41917592 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTCGAAT
1 GCCGATGCCATGTCCTAGACATGGTCTTACA-TGGCTCTCATCTC-AAC
* * *
41917641 GTCGATGCCATGTCCCAGACATGGTTTTACATGG
1 GCCGATGCCATGTCCTAGACATGGTCTTACATGG
41917675 GATCTCATTA
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
48 86 0.74
49 30 0.26
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACATGGCTCTCATCTCAAC
Found at i:41919952 original size:20 final size:20
Alignment explanation
Indices: 41919927--41919998 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
41919917 GAGACATTGC
*
41919927 ACACGCCCCTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
41919947 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
41919967 ACACGCCCGTGTACTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
41919987 ACACACCCGTGT
1 ACACGCCCGTGT
41919999 CCCCTACTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.24
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:41932008 original size:46 final size:45
Alignment explanation
Indices: 41931958--41932129 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
41931948 TGAGCATCCA
*
41931958 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
41932004 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* * * *
41932051 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
41932097 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41932130 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:41932110 original size:93 final size:93
Alignment explanation
Indices: 41931951--41932121 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
41931941 GGATGGTTGA
* * * *
41931951 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
41932016 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
41932044 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
41932109 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41932122 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:41940708 original size:48 final size:48
Alignment explanation
Indices: 41940626--41940758 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
41940616 TAGGTTTATG
* * * * *
41940626 TGTGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATATGGGACATGGCATTGACATCAATA
**
41940674 TGTGATCCCATGTAAGACCATATATGGGGTATGGCATTGACATCAATA
1 TGTGATCCCATGTAAGACCATATATGGGACATGGCATTGACATCAATA
* ** * * *
41940722 TATGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATATATGGGACATGGCAT
41940759 CGATATGGGC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATATGGGACATGGCATTGACATCAATA
Found at i:41944060 original size:13 final size:13
Alignment explanation
Indices: 41944042--41944066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41944032 TAATTGATTA
41944042 ATTTATTATTATG
1 ATTTATTATTATG
41944055 ATTTATTATTAT
1 ATTTATTATTAT
41944067 TAAATTTATA
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTTATTATTATG
Found at i:41944063 original size:16 final size:16
Alignment explanation
Indices: 41944044--41944085 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
41944034 ATTGATTAAT
41944044 TTATTATTATGATTTA
1 TTATTATTATGATTTA
*
41944060 TTATTATTA-AATTTA
1 TTATTATTATGATTTA
41944075 -TATTA-TATGAT
1 TTATTATTATGAT
41944086 GAATAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 7 0.30
15 5 0.22
16 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (16 bp):
TTATTATTATGATTTA
Found at i:41944368 original size:11 final size:12
Alignment explanation
Indices: 41944338--41944371 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
41944328 GTATGTTTAC
41944338 TTATTATATAAG
1 TTATTATATAAG
41944350 TATATTAT-TAAG
1 T-TATTATATAAG
41944362 TTATTATATA
1 TTATTATATA
41944372 TATAGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:41944990 original size:6 final size:6
Alignment explanation
Indices: 41944979--41945003 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41944969 CTCCGTACTA
41944979 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
41945004 CCAGATTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:41944994 original size:57 final size:58
Alignment explanation
Indices: 41944933--41945062 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 58
41944923 AAGTATCATC
* * * * *
41944933 TTACTATTACTGTTCCGGATTTGTTCCGAAGAGGTACTC-CGTACTATACTGTTACTG
1 TTACTATTACTGTTCCAGATTCGTTCCGAAGAGGTACTCGCGTACCATACTGCTACTA
* * *
41944990 TTACTGTTACTGTTCCAGATTCGTTCCGATGAGGTACTCTGTGTACCATACTGCTACTA
1 TTACTATTACTGTTCCAGATTCGTTCCGAAGAGGTACTC-GCGTACCATACTGCTACTA
41945049 TTACTATTACTGTT
1 TTACTATTACTGTT
41945063 ACCGTTACTG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 35 0.56
59 27 0.44
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (58 bp):
TTACTATTACTGTTCCAGATTCGTTCCGAAGAGGTACTCGCGTACCATACTGCTACTA
Found at i:41945222 original size:18 final size:18
Alignment explanation
Indices: 41945196--41945300 Score: 88
Period size: 18 Copynumber: 5.8 Consensus size: 18
41945186 CTGAAAATTA
*
41945196 ACTGCTACTGAATAATCG
1 ACTGTTACTGAATAATCG
*
41945214 ACTGTTACTAAATCAAT-G
1 ACTGTTACTGAAT-AATCG
*
41945232 ACTGTTACTAAATAA-CTG
1 ACTGTTACTGAATAATC-G
** * *
41945250 ACTACTATTGAATAATTG
1 ACTGTTACTGAATAATCG
* * *
41945268 ACTGATATTGAATAAACG
1 ACTGTTACTGAATAATCG
41945286 ACTGTTACTGAATAA
1 ACTGTTACTGAATAA
41945301 CTGATTATTA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.03
18 65 0.93
19 3 0.04
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (18 bp):
ACTGTTACTGAATAATCG
Found at i:41945298 original size:36 final size:36
Alignment explanation
Indices: 41945184--41945300 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 36
41945174 TAAATAAAGG
* * *
41945184 TACTGAA-AATTAACTGCTACTGAATAATCGACTGT
1 TACTGAATAATTGACTGATACTGAATAAACGACTGT
* * * **
41945219 TACTAAATCAA-TGACTGTTACTAAAT-AACTGACTAC
1 TACTGAAT-AATTGACTGATACTGAATAAAC-GACTGT
* *
41945255 TATTGAATAATTGACTGATATTGAATAAACGACTGT
1 TACTGAATAATTGACTGATACTGAATAAACGACTGT
41945291 TACTGAATAA
1 TACTGAATAA
41945301 CTGATTATTA
Statistics
Matches: 62, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
35 10 0.16
36 47 0.76
37 5 0.08
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (36 bp):
TACTGAATAATTGACTGATACTGAATAAACGACTGT
Found at i:41946421 original size:32 final size:32
Alignment explanation
Indices: 41946380--41946444 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
41946370 ACAGAGACAG
41946380 TAGGGAAAATTTTTGAATTGATTAATAATTAT
1 TAGGGAAAATTTTTGAATTGATTAATAATTAT
41946412 TAGGGAAAATTTTTGAATTGATTAATAATTAT
1 TAGGGAAAATTTTTGAATTGATTAATAATTAT
41946444 T
1 T
41946445 TCTATATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (32 bp):
TAGGGAAAATTTTTGAATTGATTAATAATTAT
Found at i:41947632 original size:44 final size:44
Alignment explanation
Indices: 41947583--41947670 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
41947573 AAATTTTAAA
* * *
41947583 AATAGAAGCTGTGGTAATTATAAATTTAAAAATAATTATAATTT
1 AATAGAAGCTGTGATAATTACAAATTTAAAAATAATTAAAATTT
* *
41947627 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTAAAATTT
1 AATAGAAGCTGTGATAATTACAAATTTAAAAATAATTAAAATTT
41947671 CCTTTCAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (44 bp):
AATAGAAGCTGTGATAATTACAAATTTAAAAATAATTAAAATTT
Found at i:41948014 original size:44 final size:44
Alignment explanation
Indices: 41947964--41948051 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
41947954 TTTCATTTAA
* * *
41947964 AATAGAAGCTGTGATAATTATAAATTTAAAAATAATTATAATTT
1 AATAGAAGCTGCGATAATTACAAATTTAAAAATAATTAAAATTT
* *
41948008 AATAGAAGTTGCGATAATTACACATTTAAAAATAATTAAAATTT
1 AATAGAAGCTGCGATAATTACAAATTTAAAAATAATTAAAATTT
41948052 CCTTTCAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (44 bp):
AATAGAAGCTGCGATAATTACAAATTTAAAAATAATTAAAATTT
Found at i:41948458 original size:20 final size:22
Alignment explanation
Indices: 41948420--41948462 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
41948410 TTTTATTATA
41948420 ATATTTGAATTGATAATTTAAT
1 ATATTTGAATTGATAATTTAAT
*
41948442 ATATTTTAATT-AT-ATTTAAT
1 ATATTTGAATTGATAATTTAAT
41948462 A
1 A
41948463 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTTGAATTGATAATTTAAT
Found at i:41950384 original size:22 final size:22
Alignment explanation
Indices: 41950350--41950391 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41950340 ACCACATAGG
*
41950350 TATTTATATAGATATAAATATA
1 TATTTATAAAGATATAAATATA
*
41950372 TATTTGTAAAGATATAAATA
1 TATTTATAAAGATATAAATA
41950392 GGTAGATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (22 bp):
TATTTATAAAGATATAAATATA
Found at i:41951195 original size:39 final size:39
Alignment explanation
Indices: 41951152--41951328 Score: 257
Period size: 39 Copynumber: 4.5 Consensus size: 39
41951142 GTGTGAGATA
* * * *
41951152 TATATCTGGGCTAATTCCCGAAGGCGTTTGTGGTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
41951191 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* *
41951230 TATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* *
41951269 TATATCCAGGCTAAGTCCCGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
41951307 TATATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
41951329 CAGACTTAAT
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.17
39 96 0.77
40 8 0.06
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
Found at i:41951269 original size:78 final size:77
Alignment explanation
Indices: 41951122--41951328 Score: 256
Period size: 78 Copynumber: 2.6 Consensus size: 77
41951112 ATTTTAACCT
* * * * * * * *
41951122 GGCTAAGACCCGCAGGCCTTGTG-TGAG-ATATATATCTGGGCTAATTCCCGAAGGCGTTTGTGG
1 GGCTAAGTCCCGAAGGCTTTGTGCTG-GTAT-TATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
41951185 TGGTGTTATATCCG
64 TGGTGTTATATCCA
* *
41951199 GGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCT
1 GGCTAAGTCCCGAAGGC-TTTGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT
41951264 GGTGTTATATCCA
65 GGTGTTATATCCA
41951277 GGCTAAGTCCCGAAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 GGCTAAGTCCCGAAGGCTTTGTGCTGGTATTATATCCGGGC-T-AAGTCCCG
41951329 CAGACTTAAT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 38 0.34
78 64 0.57
79 10 0.09
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (77 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
GTGTTATATCCA
Found at i:41957796 original size:39 final size:39
Alignment explanation
Indices: 41957751--41957928 Score: 266
Period size: 39 Copynumber: 4.5 Consensus size: 39
41957741 GTGTGAGATA
* * ** *
41957751 TATATCCGGGCTAATTCCCGAAGGCGTTTTTGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
41957790 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41957829 TATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
41957868 TATATCCCGGCTAAGTCCCGAAGGCATTCGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
41957907 TATATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
41957929 CATGCTTTGT
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 118 0.93
40 1 0.01
41 8 0.06
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:41959658 original size:22 final size:25
Alignment explanation
Indices: 41959617--41959661 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
41959607 TTGGCTAGAA
41959617 AATTCTTGAATACATCTTTAAAAAT
1 AATTCTTGAATACATCTTTAAAAAT
41959642 AATT-TTGAAT-CAT-TTTAAAA
1 AATTCTTGAATACATCTTTAAAA
41959662 CCATTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 6 0.30
25 4 0.20
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (25 bp):
AATTCTTGAATACATCTTTAAAAAT
Found at i:41970929 original size:15 final size:15
Alignment explanation
Indices: 41970893--41970929 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
41970883 TATGTCTTTA
*
41970893 CAATCAAAGGTTGTG
1 CAATCAGAGGTTGTG
41970908 CAATCAGAGGTTGTG
1 CAATCAGAGGTTGTG
41970923 CAATCAG
1 CAATCAG
41970930 TTGGAAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (15 bp):
CAATCAGAGGTTGTG
Found at i:41972426 original size:29 final size:29
Alignment explanation
Indices: 41972393--41972451 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
41972383 GAAACACGAC
41972393 AATGGTTGATTTCAGTGGTATTAGTCGGT
1 AATGGTTGATTTCAGTGGTATTAGTCGGT
*
41972422 AATGGTTGATTTCAGTGGTATTGGTCGGT
1 AATGGTTGATTTCAGTGGTATTAGTCGGT
41972451 A
1 A
41972452 TGCACAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.07, G:0.32, T:0.41
Consensus pattern (29 bp):
AATGGTTGATTTCAGTGGTATTAGTCGGT
Found at i:41973258 original size:18 final size:18
Alignment explanation
Indices: 41973236--41973285 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
41973226 TAAAATAGTA
41973236 AAAAAATATTTAAA-TGAT
1 AAAAAATATTTAAACTG-T
* **
41973254 TAAAAATATAAAAACTGT
1 AAAAAATATTTAAACTGT
41973272 AAAAAATATTTAAA
1 AAAAAATATTTAAA
41973286 AAATTATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (18 bp):
AAAAAATATTTAAACTGT
Found at i:41973318 original size:18 final size:20
Alignment explanation
Indices: 41973275--41973382 Score: 91
Period size: 20 Copynumber: 5.6 Consensus size: 20
41973265 AAACTGTAAA
41973275 AAATATT-TAAAAAATTATT
1 AAATATTGTAAAAAATTATT
*
41973294 AAATATTGTTAAAAATT-TT
1 AAATATTGTAAAAAATTATT
*
41973313 -AATATTGTAAAAAATTAAT
1 AAATATTGTAAAAAATTATT
* ** *
41973332 AAAAATAATAAAACATTATT
1 AAATATTGTAAAAAATTATT
* *
41973352 CAAAAATT-TTAAAAATT-TT
1 -AAATATTGTAAAAAATTATT
*
41973371 AAAAATTGTAAA
1 AAATATTGTAAA
41973383 TAACTAACAA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
18 22 0.31
19 15 0.21
20 29 0.40
21 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATTGTAAAAAATTATT
Found at i:41973326 original size:67 final size:67
Alignment explanation
Indices: 41973176--41973383 Score: 171
Period size: 67 Copynumber: 3.1 Consensus size: 67
41973166 ACCAGACCAA
* * * * * *
41973176 TAAATTATAAATAAA-TATTAAAAATCATAAAAATATATTTAGAAAATTATTAAAATAGTAAAAA
1 TAAATGATAAA-AAATTAATAAAAATAATAAAAA-ATATTTAAAAAATTATTAAAATTGT-TAAA
41973240 AATATT
63 AAT-TT
* *
41973246 TAAATGATTAAAAA-T-ATAAAAACT-GTAAAAAATATTTAAAAAATTATTAAATATTGTTAAAA
1 TAAATGATAAAAAATTAATAAAAA-TAATAAAAAATATTTAAAAAATTATTAAA-ATTGTTAAAA
41973308 ATTT
64 ATTT
* *
41973312 TAATATTG-TAAAAAATTAATAAAAATAATAAAACAT-TATTCAAAAATT-TTAAAAATT-TTAA
1 TAA-A-TGATAAAAAATTAATAAAAATAATAAAAAATAT-TTAAAAAATTATT-AAAATTGTTAA
*
41973373 AAATTG
62 AAATTT
41973379 TAAAT
1 TAAAT
41973384 AACTAACAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
65 1 0.01
66 6 0.05
67 44 0.38
68 26 0.22
69 31 0.26
70 9 0.08
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (67 bp):
TAAATGATAAAAAATTAATAAAAATAATAAAAAATATTTAAAAAATTATTAAAATTGTTAAAAAT
TT
Found at i:41973330 original size:16 final size:18
Alignment explanation
Indices: 41973284--41973332 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
41973274 AAAATATTTA
41973284 AAAAATTATTAAATATTGTT
1 AAAAA-TATT-AATATTGTT
*
41973304 AAAAATTTTAATATTG-T
1 AAAAATATTAATATTGTT
41973321 AAAAA-ATTAATA
1 AAAAATATTAATA
41973333 AAAATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 6 0.22
18 7 0.26
19 3 0.11
20 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
AAAAATATTAATATTGTT
Found at i:41973335 original size:49 final size:49
Alignment explanation
Indices: 41973269--41973363 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 49
41973259 ATATAAAAAC
* * * * *
41973269 TGTAAAAAATATTTAAAAAATTATTAAATATTGTT-AAAAATTTTAATAT
1 TGTAAAAAATATAT-AAAAATAATAAAACATTATTCAAAAATTTTAATAT
41973318 TGTAAAAAAT-TAATAAAAATAATAAAACATTATTCAAAAATTTTAA
1 TGTAAAAAATAT-ATAAAAATAATAAAACATTATTCAAAAATTTTAA
41973364 AAATTTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 17 0.44
49 22 0.56
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (49 bp):
TGTAAAAAATATATAAAAATAATAAAACATTATTCAAAAATTTTAATAT
Found at i:41973382 original size:9 final size:9
Alignment explanation
Indices: 41973273--41973382 Score: 69
Period size: 10 Copynumber: 11.3 Consensus size: 9
41973263 AAAAACTGTA
41973273 AAAAATATTT
1 AAAAAT-TTT
41973283 AAAAAATTATT
1 -AAAAATT-TT
*
41973294 AAATATTGTT
1 AAAAATT-TT
41973304 AAAAATTTT
1 AAAAATTTT
* *
41973313 -AATATTGTA
1 AAAAATT-TT
*
41973322 AAAAATTAAT
1 AAAAATT-TT
**
41973332 AAAAATAAT
1 AAAAATTTT
41973341 AAAACATTATT
1 AAAA-ATT-TT
41973352 CAAAAATTTT
1 -AAAAATTTT
41973362 AAAAATTTT
1 AAAAATTTT
*
41973371 AAAAATTGT
1 AAAAATTTT
41973380 AAA
1 AAA
41973383 TAACTAACAA
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
8 5 0.06
9 29 0.36
10 30 0.38
11 12 0.15
12 4 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:41973620 original size:20 final size:19
Alignment explanation
Indices: 41973595--41973737 Score: 80
Period size: 20 Copynumber: 7.3 Consensus size: 19
41973585 ACCGGTTCAC
41973595 AATTTTTAAATAATTTTACA
1 AATTTTT-AATAATTTTACA
* *
41973615 AA-TTTTAATAATTACTAGA
1 AATTTTTAATAATT-TTACA
*
41973634 AATTTTTAATAATTTTTTATA
1 AATTTTTAATAA--TTTTACA
*
41973655 AA-TTTTAATATTTTCTAC-
1 AATTTTTAATAATTT-TACA
* * *
41973673 GA-TTTTAAAATATTTTAAA
1 AATTTTTAATA-ATTTTACA
41973692 CAATTTTTAATAATTATTTA-A
1 -AATTTTTAATAA-T-TTTACA
* **
41973713 AATATTTAATTTTTTTACA
1 AATTTTTAATAATTTTACA
41973732 AATTTT
1 AATTTT
41973738 ACTATATTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
18 24 0.25
19 21 0.22
20 30 0.32
21 14 0.15
22 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (19 bp):
AATTTTTAATAATTTTACA
Found at i:41973647 original size:10 final size:10
Alignment explanation
Indices: 41973595--41973756 Score: 69
Period size: 10 Copynumber: 16.5 Consensus size: 10
41973585 ACCGGTTCAC
41973595 AATTTTTAAAT
1 AATTTTT-AAT
41973606 AA-TTTTACA-
1 AATTTTTA-AT
41973615 AA-TTTTAAT
1 AATTTTTAAT
**
41973624 AATTACTAGA-
1 AATTTTTA-AT
41973634 AATTTTTAAT
1 AATTTTTAAT
*
41973644 AATTTTTTAT
1 AATTTTTAAT
*
41973654 AAATTTTAAT
1 AATTTTTAAT
*
41973664 -ATTTTCT-AC
1 AATTTT-TAAT
*
41973673 GA-TTTTAA-
1 AATTTTTAAT
*
41973681 AATATTTTAAAC
1 AAT-TTTT-AAT
41973693 AATTTTTAAT
1 AATTTTTAAT
41973703 AATTATTTAA-
1 AATT-TTTAAT
*
41973713 AATATTTAAT
1 AATTTTTAAT
*
41973723 -TTTTTTACA-
1 AATTTTTA-AT
*
41973732 AA-TTTTACT
1 AATTTTTAAT
41973741 ATATTTTTAAT
1 A-ATTTTTAAT
41973752 AATTT
1 AATTT
41973757 AAATTTTTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 39
0.67 0.10 0.23
Matches are distributed among these distances:
8 3 0.03
9 36 0.31
10 52 0.45
11 21 0.18
12 3 0.03
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:41973678 original size:39 final size:38
Alignment explanation
Indices: 41973595--41973738 Score: 100
Period size: 40 Copynumber: 3.7 Consensus size: 38
41973585 ACCGGTTCAC
*
41973595 AATTTTTAAATAA-TTTTACAAATTTTAATAATTACTAG
1 AATTTTT-AATAATTTTTAAAAATTTTAATAATTACTAG
* * *
41973633 AAATTTTTAATAATTTTTTATAAATTTTAATATTTTCTACG
1 -AATTTTTAATAA-TTTTTAAAAATTTTAATAATTACTA-G
* *
41973674 -A-TTTTAA-AATATTTTAAACAATTTTTAATAATTATTTAA
1 AATTTTTAATAAT-TTTTAAA-AA-TTTTAATAATTA-CTAG
* * *
41973713 AATATTTAAT-TTTTTTACAAATTTTA
1 AATTTTTAATAATTTTTAAAAATTTTA
41973739 CTATATTTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 21
0.72 0.09 0.18
Matches are distributed among these distances:
36 1 0.01
37 8 0.10
38 18 0.21
39 20 0.24
40 30 0.36
41 7 0.08
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (38 bp):
AATTTTTAATAATTTTTAAAAATTTTAATAATTACTAG
Found at i:41973737 original size:59 final size:59
Alignment explanation
Indices: 41973608--41973756 Score: 153
Period size: 59 Copynumber: 2.5 Consensus size: 59
41973598 TTTTAAATAA
** * *
41973608 TTTTACAAATTTTAATAAT-TACTAGAAATTTTTAATAATTTTTTATAAATTTTAATATT
1 TTTTACAAATTTTAA-AATATTTTAAAAATTTTTAATAATTATTTATAAATTTTAATATT
* *
41973667 TTCTAC-GATTTTAAAATATTTTAAACAATTTTTAATAATTATTTA-AAATATTTAAT-TT
1 TTTTACAAATTTTAAAATATTTTAAA-AATTTTTAATAATTATTTATAAAT-TTTAATATT
** *
41973725 TTTTACAAATTTTACTATATTTTTAATAATTT
1 TTTTACAAATTTTAAAATA-TTTTAAAAATTT
41973757 AAATTTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
57 3 0.04
58 22 0.30
59 43 0.58
60 6 0.08
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (59 bp):
TTTTACAAATTTTAAAATATTTTAAAAATTTTTAATAATTATTTATAAATTTTAATATT
Found at i:41973750 original size:38 final size:38
Alignment explanation
Indices: 41973599--41973766 Score: 96
Period size: 38 Copynumber: 4.3 Consensus size: 38
41973589 GTTCACAATT
** *
41973599 TTTAAATAATTTTACAAATTTTAATAATTA-CTAGA-AA
1 TTTAAATTTTTTTACAAATTTTAATAATTATTTA-ATAA
* * ** *
41973636 TTTTTAATAATTTTTTATAAATTTTAAT-ATT-TTCTACGAT
1 --TTTAA-ATTTTTTTACAAATTTTAATAATTATT-TAATAA
** *
41973676 TTTAAAATATTTTAAACAATTTTTAATAATTATTTAA-AA
1 TTT-AAAT-TTTTTTACAAATTTTAATAATTATTTAATAA
* *
41973715 TATTTAATTTTTTTACAAATTTTACTATATT-TTTAATAA
1 T-TTAAATTTTTTTACAAATTTTAATA-ATTATTTAATAA
41973754 TTTAAATTTTTTT
1 TTTAAATTTTTTT
41973767 TAAATTCTTG
Statistics
Matches: 98, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
38 35 0.36
39 35 0.36
40 26 0.27
41 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (38 bp):
TTTAAATTTTTTTACAAATTTTAATAATTATTTAATAA
Found at i:41973772 original size:37 final size:38
Alignment explanation
Indices: 41973716--41973790 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
41973706 TATTTAAAAT
41973716 ATTTAATTTTTTTACAAATT-TTAC-TATATTTTTAATA
1 ATTTAATTTTTTTACAAATTCTTACATAT-TTTTTAATA
* *
41973753 ATTTAAATTTTTTT-TAAATTCTTGCATATTTTTTAATA
1 ATTT-AATTTTTTTACAAATTCTTACATATTTTTTAATA
41973791 TTATTATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 9 0.27
38 21 0.64
39 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (38 bp):
ATTTAATTTTTTTACAAATTCTTACATATTTTTTAATA
Found at i:41975451 original size:15 final size:15
Alignment explanation
Indices: 41975426--41975462 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
41975416 CAAAGGCATA
41975426 AAAAGAAAATAAAAAT
1 AAAA-AAAATAAAAAT
*
41975442 AAAAAAAATAAAAGT
1 AAAAAAAATAAAAAT
41975457 AAAAAA
1 AAAAAA
41975463 GGCACAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:41978850 original size:10 final size:10
Alignment explanation
Indices: 41978835--41978860 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
41978825 GTTCGAGTAT
41978835 TGATCTCTCA
1 TGATCTCTCA
41978845 TGATCTCTCA
1 TGATCTCTCA
41978855 TGATCT
1 TGATCT
41978861 GCTCGTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (10 bp):
TGATCTCTCA
Found at i:41983641 original size:30 final size:30
Alignment explanation
Indices: 41983605--41983662 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
41983595 ACCCCACACT
41983605 CGTGCCCTACACCGAGATGGATTACAAACC
1 CGTGCCCTACACCGAGATGGATTACAAACC
41983635 CGTGCCCTACACCGAGATGGATTACAAA
1 CGTGCCCTACACCGAGATGGATTACAAA
41983663 GCATTACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (30 bp):
CGTGCCCTACACCGAGATGGATTACAAACC
Found at i:41985427 original size:46 final size:46
Alignment explanation
Indices: 41985349--41985459 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 46
41985339 GAGGCTGATT
* * * *
41985349 CATGTCCCAAACATGGCTTATACTAGCTCTCGTC-TCAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCAT--ATGGCCGATG
* * *
41985395 CATGTCCCAGACATGTCTTACACTGGCACTCGTGATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCATATGGCCGATG
*
41985441 CATGTGCCAGACATGTCTT
1 CATGTCCCAGACATGTCTT
41985460 GCATTGGCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.02
46 53 0.96
47 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCATATGGCCGATG
Found at i:41986748 original size:44 final size:44
Alignment explanation
Indices: 41986677--41987397 Score: 518
Period size: 44 Copynumber: 16.2 Consensus size: 44
41986667 AAGCTGTTAC
* *
41986677 AGATAAGATTTGCTATCTTCAATCTGCTTCACTGCAACTTTAGGG
1 AGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * *
41986722 AGATAAGATTTGTAACTTCAATCTGCTCTACTACAACATCAGAG
1 AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * *
41986766 AGATAAGATTTGATATCTTCAATCTACTCTACTGCAACTACAGAG
1 AGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * *
41986811 AGATACGATTTGCTATCTTCAATCTTCTCCACCGCAATTTCAGGG
1 AGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * **
41986856 AGATAAGATTAGTGGAT-TT-AATCTACTCCACTGCAATTTTAGCA
1 AGATAAGATT--TGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* ** ** *
41986900 AGATAAAATCAGTGGCTTCAATCTGTTCCACTGCAACTTCAGGG
1 AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* ** * * *
41986944 -GTATAGGATTTGTGGCTTCAATCTACTCCACTGTAACTTTAGGG
1 AG-ATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * **
41986988 AGATTAGACTTGTATCTTTAATTTGTTCCACTGCAACTTCAAAG
1 AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * * *
41987032 AAATAAGATTCGCTATCTTCAATTTTCTCCACTGCAGCTTCAAGA
1 AGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * *
41987077 AGATAAGATTCACGT-TCTTCAATCTACTCCACTACATCTTTATGG
1 AGATAAGATT--TGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* ** * * ** * * *
41987122 AGGTAAGACCTGTAACTTCAACCTTTTCCACTGTAACTTCTGAG
1 AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * * *
41987166 AGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAG
1 AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
*
41987210 AGATAAAATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGG
1 AGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * *
41987255 AGATGAGATTTGTAACTTCAACCTACTCCACTGCAACTTTAGGG
1 AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * **
41987299 AGATAATG-TTTAT-TGCTTTAATTTGCTCTACTCCAACTTCAAAG
1 AGATAA-GATTTGTAT-CTTCAATCTGCTCCACTGCAACTTCAGGG
* *
41987343 AGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAAGG
1 AGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGG
41987388 AGATAAGATT
1 AGATAAGATT
41987398 CGCCATGATG
Statistics
Matches: 522, Mismatches: 137, Indels: 34
0.75 0.20 0.05
Matches are distributed among these distances:
42 1 0.00
43 6 0.01
44 280 0.54
45 227 0.43
46 4 0.01
47 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
AGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
Found at i:41987230 original size:89 final size:89
Alignment explanation
Indices: 41986677--41987393 Score: 274
Period size: 89 Copynumber: 8.1 Consensus size: 89
41986667 AAGCTGTTAC
* * * * * *
41986677 AGATAAGATTTGCTATCTTCAATCTGCTTCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCA
1 AGATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCA
* * * * *
41986742 ATCTGCTCTACTACAACATCAGAG
66 ACCTACTCCACTGCAACTTCAGAG
* * * * * * * * *
41986766 AGATAAGATTTGATATCTTCAATCTACTCTACTGCAACTACAGAGAGATACGATTTGCTATCTTC
1 AGATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATAACTTC
* * * * *
41986831 AATCTTCTCCACCGCAATTTCAGGG
65 AACCTACTCCACTGCAACTTCAGAG
* * * * * * * * **
41986856 AGATAAGATTAGTG-GAT-TT-AATCTACTCCACTGCAATTTTAGCA-AGATAA-AATCAGTGGC
1 AGATAAAATT--TGCTATCTTCAACCTGCTCCACTGCAACTTCAG-AGAGATAAGATTTA-TAAC
* **
41986916 TTCAATCTGTTCCACTGCAACTTCAG-G
62 TTCAACCTACTCCACTGCAACTTCAGAG
* ** ** * * * * * * * * * *
41986943 GGTATAGGATTTG-TGGCTTCAATCTACTCCACTGTAACTTTAGGGAGATTAGACTTGTATCTTT
1 AG-ATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTC
** ** *
41987007 AATTTGTTCCACTGCAACTTCAAAG
65 AACCTACTCCACTGCAACTTCAGAG
* * * ** * * * *
41987032 AAATAAGATTCGCTATCTTCAATTTTCTCCACTGCAGCTTCA-AGAAGATAAGATTCACGT-TCT
1 AGATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTA--TAACT
* * * *
41987095 TCAATCTACTCCACTACATCTTTATG-G
63 TCAACCTACTCCACTGCAACTTCA-GAG
* * ** * ** * * * * *
41987122 AGGTAAGACCTG-TAACTTCAACCTTTTCCACTGTAACTTCTGAGAGATAAGGTTTATAGCTTTA
1 AGATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCA
* *
41987186 ATCTACTCTACTGCAACTTCAGAG
66 ACCTACTCCACTGCAACTTCAGAG
* * * *
41987210 AGATAAAATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTCA
1 AGATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCA
* *
41987275 ACCTACTCCACTGCAACTTTAGGG
66 ACCTACTCCACTGCAACTTCAGAG
** * * ** * * * * *
41987299 AGATAATGTTT-AT-TGCTTTAATTTGCTCTACTCCAACTTCAAAGAGATAAGATTTGCTATCTT
1 AGATAAAATTTGCTAT-CTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATAACTT
** *
41987362 CAATTTGCTCCACTGCAACTTCA-AGG
64 CAACCTACTCCACTGCAACTTCAGA-G
41987388 AGATAA
1 AGATAA
41987394 GATTCGCCAT
Statistics
Matches: 475, Mismatches: 130, Indels: 46
0.73 0.20 0.07
Matches are distributed among these distances:
86 2 0.00
87 7 0.01
88 157 0.33
89 237 0.50
90 67 0.14
91 3 0.01
92 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (89 bp):
AGATAAAATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCA
ACCTACTCCACTGCAACTTCAGAG
Found at i:41987269 original size:133 final size:133
Alignment explanation
Indices: 41986677--41987397 Score: 589
Period size: 133 Copynumber: 5.4 Consensus size: 133
41986667 AAGCTGTTAC
* *
41986677 AGATAAGATTTGCTATCTTCAATCTGCTTCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCA
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCA
* * * * * * * *
41986742 ATCTGCTCTACTACAACATCAGAGAGATAAGATTTGATATCTTCAATCTACTCTACTGCAACTAC
66 ACCTACTCCACTGCAACTTCTGAGAGATAAGATTT-ATAGCTTCAATCTACTCTACTGCAACTTC
41986807 AGAG
130 AGAG
* * * * * * *
41986811 AGATACGATTTGCTATCTTCAATCTTCTCCACCGCAATTTCAGGGAGATAAGATTAGTGGA-TTT
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AACTTC
* * * * * ** *
41986875 AATCTACTCCACTGCAA-TT-TTAGCAAGATAA-AATCAGTGGCTTCAATCTGTTCCACTGCAAC
65 AACCTACTCCACTGCAACTTCTGAG--AGATAAGATTTA-TAGCTTCAATCTACTCTACTGCAAC
41986937 TTCAG-G
127 TTCAGAG
* * ** * * * * * * *
41986943 GGTATAGGATTTG-TGGCTTCAATCTACTCCACTGTAACTTTAGGGAGATTAGACTTGTATCTTT
1 AG-ATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTC
** ** ** * ** * * * * *
41987007 AATTTGTTCCACTGCAACTTCAAAGAAATAAGATTCGCTATCTTCAATTTTCTCCACTGCAGCTT
65 AACCTACTCCACTGCAACTTCTGAGAGATAAGATT-TATAGCTTCAATCTACTCTACTGCAACTT
41987072 CA-AG
129 CAGAG
** * * * * * * **
41987076 AAGATAAGATTCACGT-TCTTCAATCTACTCCACTACATCTTTATGGAGGTAAGACCTGTAACTT
1 -AGATAAGATTTGC-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
** * * *
41987140 CAACCTTTTCCACTGTAACTTCTGAGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTT
64 CAACCTACTCCACTGCAACTTCTGAGAGATAAGATTTATAGCTTCAATCTACTCTACTGCAACTT
41987205 CAGAG
129 CAGAG
* *
41987210 AGATAAAATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTCA
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCA
* * * * * *
41987275 ACCTACTCCACTGCAACTT-TAGGGAGATAATG-TTTATTGCTTTAATTTGCTCTACTCCAACTT
66 ACCTACTCCACTGCAACTTCT-GAGAGATAA-GATTTATAGCTTCAATCTACTCTACTGCAACTT
*
41987338 CAAAG
129 CAGAG
* *
41987343 AGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAAGGAGATAAGATT
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
41987398 CGCCATGATG
Statistics
Matches: 462, Mismatches: 107, Indels: 37
0.76 0.18 0.06
Matches are distributed among these distances:
132 64 0.14
133 251 0.54
134 145 0.31
135 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (133 bp):
AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCA
ACCTACTCCACTGCAACTTCTGAGAGATAAGATTTATAGCTTCAATCTACTCTACTGCAACTTCA
GAG
Found at i:41993305 original size:4 final size:4
Alignment explanation
Indices: 41993296--41993327 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
41993286 AATTTAATGG
*
41993296 AATA AATA AATA AATA AATA AGTA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA
41993328 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:42000311 original size:22 final size:24
Alignment explanation
Indices: 42000286--42000329 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
42000276 TTTTAATAAT
*
42000286 TTTTATA-AATTT-TAAATATTAA
1 TTTTATACAATTTAAAAATATTAA
*
42000308 TTTTTTACAATTTAAAAATATT
1 TTTTATACAATTTAAAAATATT
42000330 TTTAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 5 0.28
24 7 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTATACAATTTAAAAATATTAA
Found at i:42000312 original size:23 final size:24
Alignment explanation
Indices: 42000282--42000329 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
42000272 ATTTTTTTAA
*
42000282 TAATTTTTATA-AATTT-TAAATAT
1 TAATTTTT-TACAATTTAAAAATAT
42000305 TAATTTTTTACAATTTAAAAATAT
1 TAATTTTTTACAATTTAAAAATAT
42000329 T
1 T
42000330 TTTAACAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 2 0.09
23 13 0.59
24 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTTTTTACAATTTAAAAATAT
Found at i:42000909 original size:43 final size:43
Alignment explanation
Indices: 42000859--42000947 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
42000849 CTCGAGGTTT
*
42000859 AGGATTTATACTAGTAGCTTAATTGAATGAAATAAAGGGTCAA
1 AGGATTTATACTAGTAGCTTAATTGAATGAAATAAAAGGTCAA
42000902 AGGATTTATACTAGTAGCTTAATTGAATGAAATAAAAGGTCAA
1 AGGATTTATACTAGTAGCTTAATTGAATGAAATAAAAGGTCAA
42000945 AGG
1 AGG
42000948 CGGATACAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (43 bp):
AGGATTTATACTAGTAGCTTAATTGAATGAAATAAAAGGTCAA
Found at i:42002158 original size:87 final size:87
Alignment explanation
Indices: 42002045--42002223 Score: 322
Period size: 87 Copynumber: 2.1 Consensus size: 87
42002035 ATTTATTACA
* *
42002045 AGCAGTAAAGTCTCTGTTGCAAAGGTTATTGTGATTGTTCATGACACTATACTCAACCAAGTTAT
1 AGCAGTAAAGTCTCTGTGGCAAAGGTTATTGTGATTGTTCATGACACCATACTCAACCAAGTTAT
42002110 GATTTGCACCCAAGGAAGAGCC
66 GATTTGCACCCAAGGAAGAGCC
* *
42002132 AGCAGTAAAGTCTCTGTGGCAAAGGTTATTGTGATTGTTCATGACACCATACTTAGCCAAGTTAT
1 AGCAGTAAAGTCTCTGTGGCAAAGGTTATTGTGATTGTTCATGACACCATACTCAACCAAGTTAT
42002197 GATTTGCACCCAAGGAAGAGCC
66 GATTTGCACCCAAGGAAGAGCC
42002219 AGCAG
1 AGCAG
42002224 CAGAATTAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
AGCAGTAAAGTCTCTGTGGCAAAGGTTATTGTGATTGTTCATGACACCATACTCAACCAAGTTAT
GATTTGCACCCAAGGAAGAGCC
Found at i:42004720 original size:15 final size:15
Alignment explanation
Indices: 42004702--42004731 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42004692 AAATTTTAAT
*
42004702 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
42004717 TTTTTATAATTTATA
1 TTTTTATAATTTATA
42004732 AATGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:42010602 original size:5 final size:5
Alignment explanation
Indices: 42010592--42010623 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
42010582 CAATTTGTGA
42010592 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
42010624 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:42010617 original size:9 final size:9
Alignment explanation
Indices: 42010593--42010623 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
42010583 AATTTGTGAA
42010593 AAATAAAAT
1 AAATAAAAT
42010602 AAAATAAAAT
1 -AAATAAAAT
42010612 AAATAAAAT
1 AAATAAAAT
42010621 AAA
1 AAA
42010624 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:42011891 original size:25 final size:25
Alignment explanation
Indices: 42011857--42011904 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
42011847 AATTGTCAAT
42011857 TCATTTATATGCATGACCTTTATAC
1 TCATTTATATGCATGACCTTTATAC
42011882 TCATTTATATGCATGACCTTTAT
1 TCATTTATATGCATGACCTTTAT
42011905 TTTTTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (25 bp):
TCATTTATATGCATGACCTTTATAC
Found at i:42013568 original size:35 final size:35
Alignment explanation
Indices: 42013522--42013591 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
42013512 GGCCCAAACA
*
42013522 AAACGAATCAAACACAAAAAGTAGAAATAGTTTTC
1 AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
42013557 AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
1 AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
42013592 TTTTCTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.54, C:0.16, G:0.10, T:0.20
Consensus pattern (35 bp):
AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
Found at i:42015444 original size:24 final size:25
Alignment explanation
Indices: 42015411--42015465 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
42015401 AATATTTATA
* * *
42015411 TTTTAATT-AATTTGGTCTTTATTT
1 TTTTAATTAAATTTAGTCATTAATT
*
42015435 TTTTAGTTAAATTTAGTCATTAATT
1 TTTTAATTAAATTTAGTCATTAATT
42015460 TTTTAA
1 TTTTAA
42015466 AAAGAGTCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (25 bp):
TTTTAATTAAATTTAGTCATTAATT
Found at i:42024101 original size:30 final size:29
Alignment explanation
Indices: 42024067--42024133 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 29
42024057 ACCCTTTTAC
* *
42024067 AGATTTTATAGTTTTGCCACTGGTTTTTCT
1 AGATTTTATAGTTCTGCCACT-GTTTTTCA
42024097 AGATTTTATAGTTCTGCCACTGTTTTTCA
1 AGATTTTATAGTTCTGCCACTGTTTTTCA
*
42024126 AAATTTTA
1 AGATTTTA
42024134 CAATTTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (29 bp):
AGATTTTATAGTTCTGCCACTGTTTTTCA
Found at i:42034251 original size:18 final size:19
Alignment explanation
Indices: 42034227--42034263 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42034217 AAAGAATTAT
*
42034227 AAAAAATAATAAATTTTAG
1 AAAAATTAATAAATTTTAG
*
42034246 AAAAATTATTAAATTTTA
1 AAAAATTAATAAATTTTA
42034264 ATAAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATTAATAAATTTTAG
Found at i:42034276 original size:19 final size:19
Alignment explanation
Indices: 42034236--42034277 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
42034226 TAAAAAATAA
42034236 TAAATTTTAGAAAAATTAT
1 TAAATTTTAGAAAAATTAT
*
42034255 TAAATTTTAATAAAAATT-T
1 TAAATTTT-AGAAAAATTAT
42034274 TAAA
1 TAAA
42034278 AAATTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAATTTTAGAAAAATTAT
Found at i:42034293 original size:10 final size:10
Alignment explanation
Indices: 42034202--42034300 Score: 55
Period size: 10 Copynumber: 10.3 Consensus size: 10
42034192 GCCCTTGCTC
42034202 TTATTAAAAA
1 TTATTAAAAA
**
42034212 TTAGAAAAGAA
1 TTATTAAA-AA
42034223 TTA-TAAAAA
1 TTATTAAAAA
* * **
42034232 ATAATAAATT
1 TTATTAAAAA
*
42034242 TTA-GAAAAA
1 TTATTAAAAA
**
42034251 TTATTAAATT
1 TTATTAAAAA
*
42034261 TTAATAAAAA
1 TTATTAAAAA
42034271 TT-TTAAAAA
1 TTATTAAAAA
*
42034280 --ATTAAAAT
1 TTATTAAAAA
42034288 TTATTAAAAA
1 TTATTAAAAA
42034298 TTA
1 TTA
42034301 GAATTTTCTT
Statistics
Matches: 64, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
8 6 0.09
9 16 0.25
10 37 0.58
11 5 0.08
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:42034295 original size:27 final size:30
Alignment explanation
Indices: 42034231--42034299 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 30
42034221 AATTATAAAA
42034231 AATAATAAATTTTAGAAAAATTATTAAATTTT
1 AATAA-AAATTTTAGAAAAATTA-TAAATTTT
42034263 AATAAAAATTTTA-AAAAATTA-AAA-TTT
1 AATAAAAATTTTAGAAAAATTATAAATTTT
*
42034290 ATTAAAAATT
1 AATAAAAATT
42034300 AGAATTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 12 0.33
28 3 0.08
30 8 0.22
31 8 0.22
32 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (30 bp):
AATAAAAATTTTAGAAAAATTATAAATTTT
Found at i:42034296 original size:17 final size:16
Alignment explanation
Indices: 42034221--42034307 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 16
42034211 ATTAGAAAAG
* *
42034221 AATTATAAAAAATAATA
1 AATTTTAAAAAATTA-A
42034238 AATTTTAGAAAAATTATTA
1 AATTTTA-AAAAATTA--A
*
42034257 AATTTT----AATAAA
1 AATTTTAAAAAATTAA
42034269 AATTTTAAAAAATTAA
1 AATTTTAAAAAATTAA
* *
42034285 AATTTATTAAAAATTAG
1 AATTT-TAAAAAATTAA
42034302 AATTTT
1 AATTTT
42034308 CTTTTATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
12 7 0.12
14 4 0.07
16 11 0.19
17 20 0.35
18 7 0.12
19 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTTAAAAAATTAA
Found at i:42034582 original size:28 final size:26
Alignment explanation
Indices: 42034551--42034686 Score: 93
Period size: 25 Copynumber: 5.1 Consensus size: 26
42034541 ATTTTGTATA
42034551 ATTTTCTTATGACTTTATAAAATTTTAT
1 ATTTT-TTATGA-TTTATAAAATTTTAT
* *
42034579 ATTTTTTTAT-ATTTCTATATATTTTAT
1 A-TTTTTTATGATTTATA-AAATTTTAT
*
42034606 AATTTTTTACGATTTTTATAAAATTTTAT
1 -ATTTTTTATGA--TTTATAAAATTTTAT
* * * *
42034635 ATTTTTTACGATTT-TTATATTTTCT
1 ATTTTTTATGATTTATAAAATTTTAT
*
42034660 AATTTTTAAT-ATTT-TAAAATTTT-T
1 -ATTTTTTATGATTTATAAAATTTTAT
42034684 ATT
1 ATT
42034687 AAAATTTAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 19 0.21
26 15 0.17
27 16 0.18
28 18 0.20
29 12 0.13
30 5 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTTTTATGATTTATAAAATTTTAT
Found at i:42034612 original size:9 final size:9
Alignment explanation
Indices: 42034573--42034748 Score: 82
Period size: 9 Copynumber: 19.6 Consensus size: 9
42034563 CTTTATAAAA
42034573 TTTTAT-AT
1 TTTTATAAT
*
42034581 TTTTTTATAT
1 TTTTATA-AT
*
42034591 TTCTAT-AT
1 TTTTATAAT
42034599 ATTTTATAAT
1 -TTTTATAAT
42034609 TTTT-TACGAT
1 TTTTATA--AT
*
42034619 TTTTATAAAA
1 TTTTAT-AAT
*
42034629 TTTTATATT
1 TTTTATAAT
**
42034638 TTTTACGAT
1 TTTTATAAT
42034647 TTTTAT-A-
1 TTTTATAAT
*
42034654 TTTTCTAA-
1 TTTTATAAT
42034662 TTTT-TAAT
1 TTTTATAAT
*
42034670 ATTTTAAAAT
1 -TTTTATAAT
*
42034680 TTTTATTAAAA
1 TTTTA-T-AAT
*
42034691 TTTAATAAT
1 TTTTATAAT
* *
42034700 ATTTATAAC
1 TTTTATAAT
*
42034709 TTTTATTGA-
1 TTTTA-TAAT
42034718 TTTTA-AAT
1 TTTTATAAT
42034726 TTTTATAAT
1 TTTTATAAT
*
42034735 TTTTTTAAT
1 TTTTATAAT
42034744 TTTTA
1 TTTTA
42034749 ATAAAAACGG
Statistics
Matches: 126, Mismatches: 25, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
7 9 0.07
8 20 0.16
9 62 0.49
10 27 0.21
11 7 0.06
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:42034626 original size:56 final size:53
Alignment explanation
Indices: 42034526--42034666 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 53
42034516 TTTTACGAAA
* *
42034526 TTTATATTTCTTTAAATTTTGTATAATTTTCTTATGACTTTATAAAATTTTATATTTT
1 TTTATATTTC-TTATA-TTT-TATAATTTT-TTACGACTTTATAAAATTTTATA-TTT
*
42034584 TTTATATTTCTATATATTTTATAATTTTTTACGATTTTTATAAAATTTTATATTT
1 TTTATATTTCT-TATATTTTATAATTTTTTACGA-CTTTATAAAATTTTATATTT
* *
42034639 TTTACGATTT-TTATATTTTCTAATTTTT
1 TTTA-TATTTCTTATATTTTATAATTTTT
42034667 AATATTTTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
54 16 0.21
55 13 0.17
56 29 0.39
57 4 0.05
58 13 0.17
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (53 bp):
TTTATATTTCTTATATTTTATAATTTTTTACGACTTTATAAAATTTTATATTT
Found at i:42034650 original size:18 final size:16
Alignment explanation
Indices: 42034629--42034685 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
42034619 TTTTATAAAA
*
42034629 TTTTATATTTTTTACGAT
1 TTTTATATTTTCTA--AT
42034647 TTTTATATTTTCTAAT
1 TTTTATATTTTCTAAT
**
42034663 TTTTAATATTTTAAAAT
1 TTTT-ATATTTTCTAAT
42034680 TTTTAT
1 TTTTAT
42034686 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.23
17 14 0.40
18 13 0.37
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTCTAAT
Found at i:42042559 original size:18 final size:18
Alignment explanation
Indices: 42042538--42042572 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
42042528 AATTAATATT
42042538 GGAAATAAATTTAAATTG
1 GGAAATAAATTTAAATTG
42042556 GGAAATAAATTTAAATT
1 GGAAATAAATTTAAATT
42042573 TTTGTAAACA
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:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (18 bp):
GGAAATAAATTTAAATTG
Found at i:42044155 original size:4 final size:4
Alignment explanation
Indices: 42044148--42044196 Score: 73
Period size: 4 Copynumber: 12.2 Consensus size: 4
42044138 AACTTCAGCC
*
42044148 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTCA TTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
42044196 T
1 T
42044197 GTACAAGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 2 0.05
4 36 0.88
5 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:42046097 original size:13 final size:13
Alignment explanation
Indices: 42046079--42046103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42046069 CCAAGTCACA
42046079 GGCCGTGTGACTT
1 GGCCGTGTGACTT
42046092 GGCCGTGTGACT
1 GGCCGTGTGACT
42046104 CACATGGGCA
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:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (13 bp):
GGCCGTGTGACTT
Found at i:42054421 original size:20 final size:19
Alignment explanation
Indices: 42054385--42054434 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
42054375 AAGGGCTATT
42054385 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
42054404 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
42054424 TTGAAAATGTG
1 TTGTAAATGTG
42054435 AGTTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:42055118 original size:48 final size:47
Alignment explanation
Indices: 42055005--42055212 Score: 201
Period size: 46 Copynumber: 4.4 Consensus size: 47
42054995 TATGTGTGCT
*
42055005 AGTGTAAGACATGTTTGGGACATGCATCGG-C-C-ACATTACGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATTAC-A-AGCC
* * *
42055051 AGTGTAAGACGTGTCTGGGACATGCGTCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGAT-TACAAGCC
* * * * * * *
42055099 AGTGAAAGACATGTTTGGGAAATGCATCGGCATTGAGATGA-GAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATTACAAGCC
* *
42055145 ATTGTAAGACAT-TTCTGGGACATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTT-TGGGACATGCATCGGCCTCGAGAT-TACAAGCC
* *
42055193 AGTGTAAGACCTGTCTGGGA
1 AGTGTAAGACATGTTTGGGA
42055213 TTTGGCGTCA
Statistics
Matches: 130, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 61 0.47
47 3 0.02
48 56 0.43
49 5 0.04
50 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATTACAAGCC
Found at i:42055154 original size:94 final size:92
Alignment explanation
Indices: 42055005--42055212 Score: 265
Period size: 94 Copynumber: 2.2 Consensus size: 92
42054995 TATGTGTGCT
* *
42055005 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAGAGCCAGTGTAAGACGTGTCTGGG
1 AGTGTAAGACATGTTTGGGAAATGCATCGG-C-CATTACGAGAGCCAGTGTAAGACATGTCTGGG
*
42055070 ACATGCGTCGGCCTCGAGATATACAAGCC
64 ACATGCATCGGCCTCGAGATATACAAGCC
* * * * *
42055099 AGTGAAAGACATGTTTGGGAAATGCATCGG-CATTGAGATGAGAGCTATTGTAAGACATTTCTGG
1 AGTGTAAGACATGTTTGGGAAATGCATCGGCCATT---ACGAGAGCCAGTGTAAGACATGTCTGG
*
42055163 GACATGCATCGGCCTCGAGATATACAAGCT
63 GACATGCATCGGCCTCGAGATATACAAGCC
* *
42055193 AGTGTAAGACCTGTCTGGGA
1 AGTGTAAGACATGTTTGGGA
42055213 TTTGGCGTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
91 4 0.04
94 95 0.96
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTTTGGGAAATGCATCGGCCATTACGAGAGCCAGTGTAAGACATGTCTGGGAC
ATGCATCGGCCTCGAGATATACAAGCC
Found at i:42055293 original size:49 final size:48
Alignment explanation
Indices: 42055236--42055408 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 48
42055226 TGTTGTGTGT
* *
42055236 CAGTGTAAGACTTGTCTGGGACATGGCATCAACACTGATAGATGAGAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGC
* * * * * * *
42055285 CAGTGTAAGACCTATCTGGGACATGGAATCGGCCTCAATATATGAAAGT
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGACCT-GATAGATGAAAGC
* * * **
42055334 TAGTGTAAGACTTGTTTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGC
*
42055381 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGA-CTTGTCTGGGACATGGC
42055409 GACGACTTCT
Statistics
Matches: 97, Mismatches: 24, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
47 13 0.13
48 17 0.18
49 66 0.68
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACTTGTCTGGGACATGGCATCGACCTGATAGATGAAAGC
Found at i:42055338 original size:142 final size:145
Alignment explanation
Indices: 42055134--42055408 Score: 344
Period size: 142 Copynumber: 1.9 Consensus size: 145
42055124 ATCGGCATTG
* * * * *
42055134 AGATGAGAGCTATTGTAAGACATTTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTA
1 AGATGAGAGCCAGTGTAAGACATATCTGGGACATGAATCGGCCTCAAGATATACAAGCTAGTGTA
** * * * * *
42055199 AGACCTGTCTGGGATTTGGCGTC-AGTTTGTTGTG-T-GTCAGTGTAAGA-CTTGTCTGGGACAT
66 AGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACAT
42055260 GGCATCAACACTGAT
131 GGCATCAACACTGAT
* * *
42055275 AGATGAGAGCCAGTGTAAGACCTATCTGGGACATGGAATCGGCCTCAATATATGA-AAGTTAGTG
1 AGATGAGAGCCAGTGTAAGACATATCTGGGACAT-GAATCGGCCTCAAGATAT-ACAAGCTAGTG
* *
42055339 TAAGACTTGTTTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGAC
64 TAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGAC
42055404 ATGGC
129 ATGGC
42055409 GACGACTTCT
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
141 30 0.27
142 43 0.39
143 10 0.09
144 1 0.01
145 11 0.10
146 16 0.14
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (145 bp):
AGATGAGAGCCAGTGTAAGACATATCTGGGACATGAATCGGCCTCAAGATATACAAGCTAGTGTA
AGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACAT
GGCATCAACACTGAT
Found at i:42066125 original size:13 final size:13
Alignment explanation
Indices: 42066107--42066134 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42066097 GATTCTATTT
42066107 TAGAATAGATCAA
1 TAGAATAGATCAA
42066120 TAGAATAGATCAA
1 TAGAATAGATCAA
42066133 TA
1 TA
42066135 TATCATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (13 bp):
TAGAATAGATCAA
Found at i:42080951 original size:21 final size:21
Alignment explanation
Indices: 42080926--42080965 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42080916 ACCGAGAACT
42080926 TTAGAAAAACTTTAAGAAAAC
1 TTAGAAAAACTTTAAGAAAAC
* *
42080947 TTAGAAAAATTTTATGAAA
1 TTAGAAAAACTTTAAGAAA
42080966 CAGGGTCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
TTAGAAAAACTTTAAGAAAAC
Found at i:42082362 original size:48 final size:48
Alignment explanation
Indices: 42082283--42082509 Score: 225
Period size: 48 Copynumber: 4.9 Consensus size: 48
42082273 CACATGGTAG
* * * * *
42082283 GATGCCAATTCCATATCCCGGAAATGGTCTTACATTGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * **
42082331 GATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATTATAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
42082379 GATGCCAATG-CATGTCCAAGACATGGTCTTACATGGGATCACATAGC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
42082426 GATGCCAAT---A--ACCCA-ACTATGGTCTTACACGAAATCACATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
42082469 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
42082510 GTATATACCC
Statistics
Matches: 143, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
42 2 0.01
43 31 0.22
45 1 0.01
46 1 0.01
47 40 0.28
48 66 0.46
49 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:42089020 original size:27 final size:26
Alignment explanation
Indices: 42088934--42089034 Score: 122
Period size: 27 Copynumber: 4.0 Consensus size: 26
42088924 ACTTGATAAT
42088934 ATGGTTAGGTAAATGTTTCCATGATA
1 ATGGTTAGGTAAATGTTTCCATGATA
*
42088960 ATTGGCTTAGGT-AAT-ATT-CATGATA
1 A-TGG-TTAGGTAAATGTTTCCATGATA
*
42088985 ATGGGTAGGTTAAATGTTTCCATGATA
1 ATGGTTAGG-TAAATGTTTCCATGATA
42089012 ATGGTTAGGTAAATG--TCCATGAT
1 ATGGTTAGGTAAATGTTTCCATGAT
42089035 GGGCAATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
23 4 0.06
24 12 0.18
25 11 0.17
26 11 0.17
27 21 0.32
28 6 0.09
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.38
Consensus pattern (26 bp):
ATGGTTAGGTAAATGTTTCCATGATA
Found at i:42090736 original size:27 final size:25
Alignment explanation
Indices: 42090702--42090811 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 25
42090692 GATCTACGGT
*
42090702 GCTCTGCACAATATGTCTGTTCTGGTG
1 GCTCTGCAC-ATATATCTGTTCT-GTG
* *
42090729 GCTATGCACAT-TATCTGATCTGT-
1 GCTCTGCACATATATCTGTTCTGTG
*
42090752 GCGTCGGCACATATATCTGCTTCTGGTG
1 GC-TCTGCACATATATCTG-TTCT-GTG
42090780 GCTCTGCACACATATATCTGTTCTGTG
1 GCTCTG--CACATATATCTGTTCTGTG
42090807 GCTCT
1 GCTCT
42090812 ACCACAATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
23 2 0.03
24 9 0.13
25 14 0.20
26 5 0.07
27 21 0.30
28 6 0.09
29 12 0.17
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (25 bp):
GCTCTGCACATATATCTGTTCTGTG
Found at i:42090750 original size:25 final size:26
Alignment explanation
Indices: 42090702--42090832 Score: 112
Period size: 25 Copynumber: 5.0 Consensus size: 26
42090692 GATCTACGGT
*
42090702 GCTCTGCACAATATGTCTGTTCTGGTG
1 GCTCTGCAC-ATATATCTGTTCTGGTG
* *
42090729 GCTATGCACAT-TATCTGATCT-GT-
1 GCTCTGCACATATATCTGTTCTGGTG
*
42090752 GCGTCGGCACATATATCTGCTTCTGGTG
1 GC-TCTGCACATATATCTG-TTCTGGTG
42090780 GCTCTGCACACATATATCTGTTCT-GTG
1 GCTCTG--CACATATATCTGTTCTGGTG
*
42090807 GCTCTACCACA-ATAT-TGTATCTGGTG
1 GCTCT-GCACATATATCTGT-TCTGGTG
42090833 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
23 2 0.02
24 12 0.14
25 21 0.24
26 12 0.14
27 21 0.24
28 6 0.07
29 12 0.14
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
GCTCTGCACATATATCTGTTCTGGTG
Found at i:42090821 original size:27 final size:29
Alignment explanation
Indices: 42090759--42090821 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 29
42090749 TGTGCGTCGG
*
42090759 CACATATATCTGCTTCTGGTGGCTCTGCA
1 CACATATATCTGCTTCTGGTGGCTCTCCA
42090788 CACATATATCTG-TTCT-GTGGCTCTACCA
1 CACATATATCTGCTTCTGGTGGCTCT-CCA
42090816 CA-ATAT
1 CACATAT
42090822 TGTATCTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 12 0.38
28 8 0.25
29 12 0.38
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (29 bp):
CACATATATCTGCTTCTGGTGGCTCTCCA
Found at i:42099491 original size:48 final size:48
Alignment explanation
Indices: 42099412--42099639 Score: 234
Period size: 48 Copynumber: 4.9 Consensus size: 48
42099402 CACATGGTAG
* * * * *
42099412 GATGCCAATTCCATATCCCGGAAATGGTCTTACATTGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * **
42099460 GATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATTATAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
42099508 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATAGC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
42099556 GATGCCAAT---A--ACCCA-ACTATGGTCTTACACGAAATCACATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
42099599 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
42099640 GTATATAACC
Statistics
Matches: 144, Mismatches: 29, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.01
43 31 0.22
45 1 0.01
46 1 0.01
48 107 0.74
49 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:42102926 original size:68 final size:66
Alignment explanation
Indices: 42102852--42102999 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 66
42102842 CATCATGTGT
* * * *
42102852 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
42102915 TGTAG
62 TGTAG
* * *
42102920 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
42102985 AG
65 AG
42102987 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
42103000 GAGATAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:42105581 original size:43 final size:43
Alignment explanation
Indices: 42105515--42105687 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
42105505 AGCTCGTACA
* ** *
42105515 ATGCC-ATATCCCAGATATAGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
* * * * *
42105557 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
* * * *
42105600 ATGTCAATGTCCCCGA-CGTGGTCTTACACT-TAATCACA-ATACA
1 ATGCCAATGTCCCAGATAG-GGTCTTACA-TGTAATCACATAT-CG
* * *
42105643 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
42105686 AT
1 AT
42105688 AACCTAATGT
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
42 8 0.08
43 91 0.91
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
Found at i:42106194 original size:26 final size:26
Alignment explanation
Indices: 42106165--42106272 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
42106155 TGGTACAAAT
42106165 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
42106191 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
42106217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
42106243 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
42106269 TGAT
1 TGAT
42106273 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:42107460 original size:8 final size:8
Alignment explanation
Indices: 42107447--42107486 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
42107437 CTAGATTGGT
42107447 AAAAGCCG
1 AAAAGCCG
42107455 AAAAGCCG
1 AAAAGCCG
*
42107463 AAATGCCG
1 AAAAGCCG
*
42107471 AAATGCCG
1 AAAAGCCG
42107479 AAAAGCCG
1 AAAAGCCG
42107487 GTATTTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.45, C:0.25, G:0.25, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:42108062 original size:32 final size:27
Alignment explanation
Indices: 42107899--42108066 Score: 207
Period size: 27 Copynumber: 6.2 Consensus size: 27
42107889 AGGAAGCGTC
* * *
42107899 CTGGTGACTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
42107926 CTCGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
42107953 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGTT
42107980 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
42108007 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
42108034 CTGGTGGCTCTACCACA-ATATTTGTAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
42108061 CTGGTG
1 CTGGTG
42108067 ACTTCGTCAC
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.07
27 112 0.90
28 3 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:42108078 original size:81 final size:80
Alignment explanation
Indices: 42107899--42108084 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 80
42107889 AGGAAGCGTC
* *
42107899 CTGGTGACTATGCCACAATTATCTGATCTCGTGGCTCTGCCACATATGTCTGTTCTGGTGGCTAT
1 CTGGTGACTCTGCCAC-ATTATCTGATCTCGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
* *
42107964 GCCACGATTATCTGAT
65 ACCACGAATATCTGAT
* * * *
42107980 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGACTCTGCCACAT-TATCTGATCTCGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
*
42108045 ACCAC-AATATTTGTAT
65 ACCACGAATATCTG-AT
*
42108061 CTGGTGACT-TCGTCACATTATCTG
1 CTGGTGACTCT-GCCACATTATCTG
42108085 GCAGCCTCGC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
80 15 0.16
81 76 0.84
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (80 bp):
CTGGTGACTCTGCCACATTATCTGATCTCGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATA
CCACGAATATCTGAT
Found at i:42110786 original size:12 final size:12
Alignment explanation
Indices: 42110765--42110798 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
42110755 ATGATATCTA
42110765 CAAG-AAAACAT
1 CAAGTAAAACAT
42110776 CAAGTAAAACAT
1 CAAGTAAAACAT
42110788 CAAGTAAAACA
1 CAAGTAAAACA
42110799 AGTAAGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (12 bp):
CAAGTAAAACAT
Found at i:42118701 original size:13 final size:13
Alignment explanation
Indices: 42118683--42118709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42118673 GTTGTTACAA
42118683 GTTCCTTTATACT
1 GTTCCTTTATACT
42118696 GTTCCTTTATACT
1 GTTCCTTTATACT
42118709 G
1 G
42118710 CTAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (13 bp):
GTTCCTTTATACT
Found at i:42132372 original size:44 final size:45
Alignment explanation
Indices: 42132278--42132410 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 45
42132268 ACAGGACAGA
* *
42132278 ACAGAAATGAGCCATGTAAGTCCATATTAAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* * *
42132323 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGTCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
42132367 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
42132411 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 35 0.49
45 27 0.38
46 10 0.14
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:42139903 original size:27 final size:28
Alignment explanation
Indices: 42139740--42139890 Score: 241
Period size: 28 Copynumber: 5.4 Consensus size: 28
42139730 GAGATTGGCG
* * * *
42139740 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
42139769 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
42139797 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
42139825 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
42139853 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
42139880 CTGAGTGTGCG
1 CTAAGTGTGCG
42139891 GACTTAATAT
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.21
28 78 0.67
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:42139904 original size:84 final size:85
Alignment explanation
Indices: 42139740--42139904 Score: 228
Period size: 83 Copynumber: 2.0 Consensus size: 85
42139730 GAGATTGGCG
* *
42139740 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
* *
42139805 GCGAGTTTGATTATATAGCA
66 GCGAGCTTAATTATATAGCA
* * *
42139825 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
42139888 GCG-GACTTAATATATAT
66 GCGAG-CTTAAT-TATAT
42139905 TTTGAATCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
82 1 0.01
83 28 0.39
84 27 0.38
85 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (85 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
GCGAGCTTAATTATATAGCA
Found at i:42147919 original size:27 final size:28
Alignment explanation
Indices: 42147756--42147906 Score: 241
Period size: 28 Copynumber: 5.4 Consensus size: 28
42147746 GAGATTGGCG
* * * *
42147756 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
42147785 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
42147813 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
42147841 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
42147869 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
42147896 CTGAGTGTGCG
1 CTAAGTGTGCG
42147907 GACTTAATAT
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.21
28 78 0.67
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:42147920 original size:84 final size:85
Alignment explanation
Indices: 42147756--42147920 Score: 228
Period size: 83 Copynumber: 2.0 Consensus size: 85
42147746 GAGATTGGCG
* *
42147756 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
* *
42147821 GCGAGTTTGATTATATAGCA
66 GCGAGCTTAATTATATAGCA
* * *
42147841 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
42147904 GCG-GACTTAATATATAT
66 GCGAG-CTTAAT-TATAT
42147921 TTTGAATCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
82 1 0.01
83 28 0.39
84 27 0.38
85 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (85 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
GCGAGCTTAATTATATAGCA
Found at i:42150963 original size:46 final size:44
Alignment explanation
Indices: 42150904--42151018 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
42150894 ACAGGACAGA
* *
42150904 ACAGAAATGAGCCATGTAAGTCCATATTAAAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * * *
42150950 ACAGGATTGAGCCATGTAATTCCATATTATATATGTCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
42150994 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
42151019 GTCAAAGACG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 33 0.57
46 25 0.43
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:42154503 original size:30 final size:30
Alignment explanation
Indices: 42154467--42154527 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
42154457 CAACATTGTG
42154467 TCTGACACAAATATCACCTAAAGGAAAGTA
1 TCTGACACAAATATCACCTAAAGGAAAGTA
* *
42154497 TCTGACACAAATATCACCTGAAGGGAAGTA
1 TCTGACACAAATATCACCTAAAGGAAAGTA
42154527 T
1 T
42154528 TTTACCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (30 bp):
TCTGACACAAATATCACCTAAAGGAAAGTA
Done.