Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 166 of 356
Found at i:53744120 original size:20 final size:20
Alignment explanation
Indices: 53744095--53744180 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
53744085 AATAAAATAA
53744095 AATTATTTAAAAGTTTATAT
1 AATTATTTAAAAGTTTATAT
** *
53744115 AATTATACAAATTAATTT-TAT
1 AATTATTTAAA--AGTTTATAT
*
53744136 -TTTATTTAAAAGTTTA-AT
1 AATTATTTAAAAGTTTATAT
* *
53744154 AATTTTATTAAAAGTTTATAA
1 AATTAT-TTAAAAGTTTATAT
53744175 AATTAT
1 AATTAT
53744181 ACAAATTAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
18 6 0.12
19 3 0.06
20 27 0.55
21 9 0.18
22 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTATTTAAAAGTTTATAT
Found at i:53744128 original size:55 final size:57
Alignment explanation
Indices: 53744068--53744199 Score: 162
Period size: 60 Copynumber: 2.3 Consensus size: 57
53744058 AAGATTAATA
*
53744068 AAATTAATTTACTTTTAAATAAAA-TAA-AATTAT-TTAAAAGTTTATATAATTATAC
1 AAATTAATTTA-TTTTAAATAAAATTAATAATTATATTAAAAGTTTATAAAATTATAC
** *
53744123 AAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTATAC
1 AAATTAA-TTTATTTTAAATAAAA--TTAATAATTATATTAAAAGTTTATAAAATTATAC
53744183 AAATTAATTTTATTTTA
1 AAATTAA-TTTATTTTA
53744200 TTTAAAAGAT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
55 17 0.25
56 4 0.06
58 3 0.04
59 5 0.07
60 38 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (57 bp):
AAATTAATTTATTTTAAATAAAATTAATAATTATATTAAAAGTTTATAAAATTATAC
Found at i:53744181 original size:60 final size:60
Alignment explanation
Indices: 53744101--53744215 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
53744091 ATAAAATTAT
* *
53744101 TTAAAAGTTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTA
1 TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAATTTTA
53744161 TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAA
1 TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAA
53744216 AATTAATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (60 bp):
TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAATTTTA
Found at i:53744616 original size:22 final size:22
Alignment explanation
Indices: 53744575--53744616 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
53744565 CCCAATTTGA
* **
53744575 AATCCCCAAATCTATTTCCCAT
1 AATCCCCAAATCGAAATCCCAT
53744597 AATCCCCAAATCGAAATCCC
1 AATCCCCAAATCGAAATCCC
53744617 TTTTACTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.24
Consensus pattern (22 bp):
AATCCCCAAATCGAAATCCCAT
Found at i:53745981 original size:9 final size:9
Alignment explanation
Indices: 53745967--53746023 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
53745957 CAAATGAAAA
53745967 TTAATGTTT
1 TTAATGTTT
*
53745976 TTAATG--A
1 TTAATGTTT
*
53745983 TTAATTTTT
1 TTAATGTTT
*
53745992 TTAATG-AT
1 TTAATGTTT
53746000 TTAATGTTT
1 TTAATGTTT
53746009 TTAATGTTT
1 TTAATGTTT
53746018 TTAATG
1 TTAATG
53746024 ATTTAAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 27 0.69
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (9 bp):
TTAATGTTT
Found at i:53745985 original size:16 final size:16
Alignment explanation
Indices: 53745966--53746014 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
53745956 TCAAATGAAA
53745966 ATTAATGTTTTTAATG
1 ATTAATGTTTTTAATG
*
53745982 ATTAATTTTTTTAATG
1 ATTAATGTTTTTAATG
53745998 ATTTAATGTTTTTAATG
1 A-TTAATGTTTTTAATG
53746015 TTTTTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (16 bp):
ATTAATGTTTTTAATG
Found at i:53749350 original size:98 final size:100
Alignment explanation
Indices: 53749083--53749365 Score: 437
Period size: 103 Copynumber: 2.8 Consensus size: 100
53749073 GAATATGTTA
53749083 TTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCAC-AAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
53749148 TAAATTAAATTGTATTTAAAGTTTTTTTAAAATATT
65 TAAATTAAATTGTATTTAAAGTTTTTTTAAAATATT
*
53749184 TTATTGCATTTTATTTTAATCACAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCTA
1 TT-TT--ATTTTATTTTAATCACAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
* *
53749249 ATTAAATTATATTATATTTAAAG-TTTTTT-AAATATT
63 ATTAAATTAAATTGTATTTAAAGTTTTTTTAAAATATT
* * * *
53749285 TTTTATTTTATTTTAATCACGAAAAATATTTTGTTTACTTTTATTTT-TTGTTAAATAATCTAAT
1 TTTTATTTTATTTTAATCAC-AAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
53749349 TAAATTAAATTGTATTT
65 TAAATTAAATTGTATTT
53749366 TTAAATATTG
Statistics
Matches: 168, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
98 45 0.27
99 24 0.14
100 2 0.01
101 11 0.07
102 8 0.05
103 62 0.37
104 16 0.10
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (100 bp):
TTTTATTTTATTTTAATCACAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATT
AAATTAAATTGTATTTAAAGTTTTTTTAAAATATT
Found at i:53749653 original size:9 final size:9
Alignment explanation
Indices: 53749637--53749735 Score: 51
Period size: 9 Copynumber: 10.8 Consensus size: 9
53749627 ATATCATATC
53749637 TTACATAAT
1 TTACATAAT
*
53749646 TTACATAAG
1 TTACATAAT
* * * *
53749655 ATAAACAAC
1 TTACATAAT
53749664 TTACATAAT
1 TTACATAAT
* *
53749673 TTGCATAAC
1 TTACATAAT
53749682 TTACATAA-
1 TTACATAAT
53749690 -TACATAAAT
1 TTACAT-AAT
53749699 ATATATCAT-AT
1 -T-TA-CATAAT
*
53749710 CGTACATAAT
1 -TTACATAAT
*
53749720 TTACATAAC
1 TTACATAAT
53749729 TTACATA
1 TTACATA
53749736 GTACATAAAT
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 49 0.73
10 4 0.06
11 2 0.03
12 2 0.03
13 3 0.04
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.35
Consensus pattern (9 bp):
TTACATAAT
Found at i:53749721 original size:47 final size:47
Alignment explanation
Indices: 53749665--53749757 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
53749655 ATAAACAACT
*
53749665 TACATAATTTGCATAACTTACATAATACATAAATATATATCATATCG
1 TACATAATTTACATAACTTACATAATACATAAATATATATCATATCG
*
53749712 TACATAATTTACATAACTTACATAGTACATAAATATATATCATATC
1 TACATAATTTACATAACTTACATAATACATAAATATATATCATATC
53749758 ATAACTTACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (47 bp):
TACATAATTTACATAACTTACATAATACATAAATATATATCATATCG
Found at i:53749733 original size:18 final size:18
Alignment explanation
Indices: 53749631--53749735 Score: 61
Period size: 18 Copynumber: 5.7 Consensus size: 18
53749621 AAATATATAT
*
53749631 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
** * * *
53749649 CATAAGATAAACAACTTA
1 CATAACTTACATAATTTA
* * *
53749667 CATAATTTGCATAACTTA
1 CATAACTTACATAATTTA
53749685 CATAA--TACATAAATATATA
1 CATAACTTACAT-AAT-T-TA
* *
53749704 TCATATCGTACATAATTTA
1 -CATAACTTACATAATTTA
53749723 CATAACTTACATA
1 CATAACTTACATA
53749736 GTACATAAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
16 4 0.06
17 2 0.03
18 42 0.65
19 4 0.06
20 5 0.08
21 3 0.05
22 5 0.08
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (18 bp):
CATAACTTACATAATTTA
Found at i:53749760 original size:25 final size:25
Alignment explanation
Indices: 53749685--53749760 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
53749675 GCATAACTTA
*
53749685 CATAATACATAAATATATATCATAT
1 CATAGTACATAAATATATATCATAT
* * * *
53749710 C---GTACATAATTTACATAACTTA-
1 CATAGTACATAA-ATATATATCATAT
53749732 CATAGTACATAAATATATATCATAT
1 CATAGTACATAAATATATATCATAT
53749757 CATA
1 CATA
53749761 ACTTACATAA
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 8 0.22
25 13 0.35
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (25 bp):
CATAGTACATAAATATATATCATAT
Found at i:53754842 original size:13 final size:14
Alignment explanation
Indices: 53754826--53754854 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
53754816 TTATAAATAT
53754826 TTATAATG-TTTAA
1 TTATAATGTTTTAA
53754839 TTATAATGTTTTAA
1 TTATAATGTTTTAA
53754853 TT
1 TT
53754855 CGTCGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATGTTTTAA
Found at i:53754865 original size:11 final size:11
Alignment explanation
Indices: 53754849--53754873 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53754839 TTATAATGTT
53754849 TTAATTCGTCG
1 TTAATTCGTCG
53754860 TTAATTCGTCG
1 TTAATTCGTCG
53754871 TTA
1 TTA
53754874 GTAGTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (11 bp):
TTAATTCGTCG
Found at i:53755303 original size:21 final size:21
Alignment explanation
Indices: 53755271--53755325 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
53755261 ACAACTTAGA
53755271 GCAGAGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
* *
53755292 GCAGCGGTAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
53755313 GCAGAGGCAGCAG
1 GCAGAGGCAGCAG
53755326 TGATGGCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.51, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGCGAGGGAG
Found at i:53755602 original size:33 final size:32
Alignment explanation
Indices: 53755560--53755640 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 32
53755550 TTAGATTTAA
*
53755560 TGTTTTTGGTTGTATTTTTTATGCTACATTTGC
1 TGTTTTTGGTTG-ATTTTTCATGCTACATTTGC
*
53755593 TGTTTTTGGTTAGA--TTTCATGCTATATTTGC
1 TGTTTTTGGTT-GATTTTTCATGCTACATTTGC
53755624 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTT-GATTT
53755641 AATGCAGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 28 0.67
33 13 0.31
34 1 0.02
ACGTcount: A:0.12, C:0.07, G:0.21, T:0.59
Consensus pattern (32 bp):
TGTTTTTGGTTGATTTTTCATGCTACATTTGC
Found at i:53755622 original size:31 final size:31
Alignment explanation
Indices: 53755580--53755645 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
53755570 TGTATTTTTT
*
53755580 ATGCTACATTTGCTGTTTTTGGTTAGATTTC
1 ATGCTACATTTGCTGTTTTTGGTTAGATTTA
* *
53755611 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTGTTTTTGGTTAGATTTA
53755642 ATGC
1 ATGC
53755646 AGGAAGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.11, G:0.21, T:0.52
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTGGTTAGATTTA
Found at i:53756795 original size:13 final size:13
Alignment explanation
Indices: 53756777--53756802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53756767 TTTTTTAATA
53756777 TTATTTAAATTTT
1 TTATTTAAATTTT
53756790 TTATTTAAATTTT
1 TTATTTAAATTTT
53756803 ATAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTAAATTTT
Found at i:53756836 original size:21 final size:21
Alignment explanation
Indices: 53756766--53756838 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
53756756 GTTAATTTCG
*
53756766 TTTTTTTAATATTATTTA-AA
1 TTTTTTTAATATTTTTTATAA
* **
53756786 -TTTTTTATTTAAATTTTATAA
1 TTTTTTTA-ATATTTTTTATAA
**
53756807 TTTAATTAATATTTTTTATAA
1 TTTTTTTAATATTTTTTATAA
53756828 TTTTTTTAATA
1 TTTTTTTAATA
53756839 ATAGCCGGTA
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
19 7 0.18
20 6 0.15
21 21 0.54
22 5 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTTTAATATTTTTTATAA
Found at i:53758880 original size:29 final size:29
Alignment explanation
Indices: 53758839--53758911 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
53758829 AAATCATCTT
* *
53758839 GTCAAAATAATTTTTTCAGAACACATCATG
1 GTCAAAATTATTTTTTCAAAACACAT-ATG
* * *
53758869 GT-AAATTTATTTTTTCAAAACCCATATT
1 GTCAAAATTATTTTTTCAAAACACATATG
53758897 GTCAAAATTATTTTT
1 GTCAAAATTATTTTT
53758912 CCTTGAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.11
29 30 0.83
30 2 0.06
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (29 bp):
GTCAAAATTATTTTTTCAAAACACATATG
Found at i:53759061 original size:65 final size:65
Alignment explanation
Indices: 53758943--53759213 Score: 400
Period size: 65 Copynumber: 4.2 Consensus size: 65
53758933 TAAAAAAATT
* * * *
53758943 AAACCTTAAACAATTAAAAACCTAATACCCTAATTTAATTTTTTCTAATCCCTAATCAAACCCAA
1 AAACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
* *
53759008 AAACCCTAAACAATTAAAAAAATAATACCCTAATTTAAATTTTCCTAAACCCTAATCAAACCCCA
1 AAACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAA-CCCA
53759073 A
65 A
* * **
53759074 AAA-CCTAAACAATTAAAAACCTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAGCTGAA
1 AAACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
* * *
53759138 AAACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCATAAACCCTAATCAAATCTAA
1 AAACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
*
53759203 AAAACCTAAAC
1 AAACCCTAAAC
53759214 CTAGGCCATA
Statistics
Matches: 185, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
64 6 0.03
65 171 0.92
66 8 0.04
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (65 bp):
AAACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
Found at i:53761488 original size:13 final size:14
Alignment explanation
Indices: 53761465--53761494 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
53761455 TAGGGATTTA
53761465 CAATATTACATAAT
1 CAATATTACATAAT
53761479 CAAT-TTACATAAT
1 CAATATTACATAAT
53761492 CAA
1 CAA
53761495 ATAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
CAATATTACATAAT
Found at i:53764335 original size:18 final size:19
Alignment explanation
Indices: 53764312--53764349 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
53764302 TAAATATATT
*
53764312 ATTCAAGTCAA-TAATTAA
1 ATTCAAGTAAATTAATTAA
*
53764330 ATTCAATTAAATTAATTAA
1 ATTCAAGTAAATTAATTAA
53764349 A
1 A
53764350 AGACTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTCAAGTAAATTAATTAA
Found at i:53765836 original size:20 final size:20
Alignment explanation
Indices: 53765811--53765860 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
53765801 TGGCTTAAAA
53765811 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
53765831 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
53765848 GTGGTAGTGGATT
1 TTGGTAGTGGATT
53765861 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:53770475 original size:20 final size:20
Alignment explanation
Indices: 53770450--53770499 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
53770440 TGGCTTAAAA
53770450 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
53770470 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
53770487 GTGGTAGTGGATT
1 TTGGTAGTGGATT
53770500 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:53773611 original size:22 final size:22
Alignment explanation
Indices: 53773571--53773626 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
53773561 AATAAAATTG
*
53773571 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
53773591 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
53773613 TATTAATAATTTAT
1 AAATAATAAATTAT
53773627 TATATGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:53776527 original size:27 final size:26
Alignment explanation
Indices: 53776428--53776523 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
53776418 TATATGTTAG
* *
53776428 TTTAAATTGTCTTTA-A-ATTAATTGT
1 TTTAAATTAT-TTTATATATTAATTAT
* *
53776453 TTTAAATCATTTTATATATTATTTTAT
1 TTTAAATTATTTTATATATTA-ATTAT
* **
53776480 TTTAAAATAGTTTTGCATATTAATTAT
1 TTTAAATTA-TTTTATATATTAATTAT
53776507 TTTAAATTATTTTATAT
1 TTTAAATTATTTTATAT
53776524 TATTGCCATT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
24 4 0.07
25 9 0.16
26 10 0.18
27 22 0.40
28 10 0.18
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTAAATTATTTTATATATTAATTAT
Found at i:53776600 original size:39 final size:39
Alignment explanation
Indices: 53776557--53776634 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
53776547 TCAAACTTGT
53776557 TTTTTTATATATTATTTATTTTCATCTTGCTTACAATAG
1 TTTTTTATATATTATTTATTTTCATCTTGCTTACAATAG
53776596 TTTTTTATATATTATTTATTTTCATCTTGCTTACAATAG
1 TTTTTTATATATTATTTATTTTCATCTTGCTTACAATAG
53776635 GGGTCCGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (39 bp):
TTTTTTATATATTATTTATTTTCATCTTGCTTACAATAG
Found at i:53783514 original size:20 final size:22
Alignment explanation
Indices: 53783474--53783515 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
53783464 TGTTTCGACA
*
53783474 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
53783496 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
53783516 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:53784131 original size:14 final size:13
Alignment explanation
Indices: 53784112--53784149 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
53784102 CAGAAAAGTT
53784112 AATCATTTTCCAGA
1 AATCATTTTCC-GA
53784126 AATCATTTTCCGA
1 AATCATTTTCCGA
53784139 AAGTCATTTTC
1 AA-TCATTTTC
53784150 AATGAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (13 bp):
AATCATTTTCCGA
Found at i:53787639 original size:30 final size:30
Alignment explanation
Indices: 53787585--53787642 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
53787575 CACAGCCATG
* **
53787585 TCACACGGGCATGTAGCTTTCCCGTGTGAC
1 TCACACGGGCATGTAGATCACCCGTGTGAC
*
53787615 TCACACGGGCATGTGGATCACCCGTGTG
1 TCACACGGGCATGTAGATCACCCGTGTG
53787643 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.24
Consensus pattern (30 bp):
TCACACGGGCATGTAGATCACCCGTGTGAC
Found at i:53789511 original size:6 final size:6
Alignment explanation
Indices: 53789494--53789525 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
53789484 CTTCAAAAAT
*
53789494 AAATAA AGATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
53789526 TAGATGGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:53791344 original size:23 final size:24
Alignment explanation
Indices: 53791317--53791366 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
53791307 AGAAATAGGG
*
53791317 AGAAAAG-AGGAGGGAAGAAAAAA
1 AGAAAAGAAGGAGGAAAGAAAAAA
*
53791340 AG-AAAGAAGGAGGAAAGAAAGAA
1 AGAAAAGAAGGAGGAAAGAAAAAA
53791363 AGAA
1 AGAA
53791367 GAGACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 18 0.78
24 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (24 bp):
AGAAAAGAAGGAGGAAAGAAAAAA
Found at i:53791348 original size:15 final size:16
Alignment explanation
Indices: 53791330--53791387 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 16
53791320 AAAGAGGAGG
53791330 GAAGA-AAAAAAGAAA
1 GAAGAGAAAAAAGAAA
53791345 GAAGGAGGAAAGAAAGAAA
1 GAA-GA-GAAA-AAAGAAA
*
53791364 GAAGAGACAAAA-AAA
1 GAAGAGAAAAAAGAAA
*
53791379 GAAAAGAAA
1 GAAGAGAAA
53791388 GGAAGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 13 0.36
16 5 0.14
17 3 0.08
18 5 0.14
19 10 0.28
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (16 bp):
GAAGAGAAAAAAGAAA
Found at i:53791379 original size:19 final size:19
Alignment explanation
Indices: 53791334--53791382 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
53791324 AGGAGGGAAG
*
53791334 AAAAAAAGAAAGAAGGAGG
1 AAAAAAAGAAAGAAGGAGC
*
53791353 AAAGAAAGAAAGAA-GAGAC
1 AAAAAAAGAAAGAAGGAG-C
53791372 AAAAAAAGAAA
1 AAAAAAAGAAA
53791383 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAGAAGGAGC
Found at i:53798561 original size:8 final size:8
Alignment explanation
Indices: 53798550--53798594 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
53798540 ACAAAAGTAC
53798550 AAAAAAAT
1 AAAAAAAT
53798558 AAAAAAAT
1 AAAAAAAT
53798566 AAATAAAA-
1 AAA-AAAAT
*
53798574 AAGAAGAAT
1 AA-AAAAAT
53798583 AAAAAAAT
1 AAAAAAAT
53798591 AAAA
1 AAAA
53798595 CAAAGGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:53798583 original size:13 final size:12
Alignment explanation
Indices: 53798550--53798593 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
53798540 ACAAAAGTAC
53798550 AAAA-AAATAAA
1 AAAATAAATAAA
53798561 AAAATAAATAAA
1 AAAATAAATAAA
53798573 AAAGA-AGAATAAA
1 AAA-ATA-AATAAA
53798586 AAAATAAA
1 AAAATAAA
53798594 ACAAAGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.14
12 14 0.48
13 11 0.38
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:53799133 original size:22 final size:21
Alignment explanation
Indices: 53799108--53799171 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 21
53799098 AATCAAATCC
*
53799108 AAAATAAAAAAAATGAATCAAA
1 AAAATAAAAAAAATCAAT-AAA
* *
53799130 AAAATCAAAAAGATCAATAAA
1 AAAATAAAAAAAATCAATAAA
* *
53799151 AAAAGAAAAGAAAT-AA-AAA
1 AAAATAAAAAAAATCAATAAA
53799170 AA
1 AA
53799172 GGAGAGGCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 13 0.37
22 15 0.43
ACGTcount: A:0.78, C:0.05, G:0.06, T:0.11
Consensus pattern (21 bp):
AAAATAAAAAAAATCAATAAA
Found at i:53810738 original size:27 final size:27
Alignment explanation
Indices: 53810660--53810771 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
53810650 AGCATGGCTG
* * *
53810660 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGAAAATTGTGGCAGAGCCA
* * *
53810686 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGAAAATTGTGGCAGAGCCA
53810714 CCAGAACA-AAAATATGTGGCAGAGCCA
1 CCAGAACAGAAAAT-TGTGGCAGAGCCA
* * *
53810741 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAAATTGTGGCAGAGCCA
53810768 CCAG
1 CCAG
53810772 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.12
27 44 0.61
28 19 0.26
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGAAAATTGTGGCAGAGCCA
Found at i:53817254 original size:178 final size:178
Alignment explanation
Indices: 53816919--53818022 Score: 1436
Period size: 178 Copynumber: 6.2 Consensus size: 178
53816909 AGTGAATTCA
* * * * *
53816919 TAGATCTTATTTCCCTGAGATAGTATTGGAGCAGATCAAAGACGGCGAATCTTGTCTCCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* ** * * *
53816984 TAGCAGGGGAGCAAATTTTTGGCCACCAGCCTTAAC-TCTCTGAGGTAGCAAGAGAGCA-AGTTG
66 TAGCAGGGGAGCAGA-TTTCAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAGCAGA-CT-
* * * * *
53817047 AA-GATTGTAGTGTTATCTTCTTGAGGTAGCAAGGAAATAGACTAAAGATTG
127 AATGATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * *
53817098 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * *
53817163 TAGTAGGGGAGCAGATTTCAACCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* *
53817228 ATTATAGTCTTATCTTCTTGAGGTAGCAAGGAAACAGACTAAAGATTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * * * *
53817276 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGTCGGCAAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
*
53817341 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* * *
53817406 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGACTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * **
53817454 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTTCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* *
53817518 TAGCAGGGGAGCAGATTTCAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* * * *
53817583 ATTATAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGGTTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * * *
53817631 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGTAGATTGAAGACGACAAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* *
53817695 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG--AGCAGACTAA
* *
53817760 TGATTATAGTCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTG
129 TGATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * *
53817809 TAGATCTTATCTCCCTAAG-CAGTAATGGGGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * * * *
53817873 TAGCAGGGAAGCA-AATCCTAGCCACCAGCCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCTAAT
66 TAGCAGGGGAGCAGATTTC-AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAT
* * * *
53817937 GATTGTAGTCTTATCTTTCC-GAGTTAGCAAGGAAGCAGACTGAAGATGG
130 GATTATAGTCTTATC-TTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* *
53817986 TAGATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATC
1 TAGATCTTATCTCCCTGAGA-TAGTAGTGGAGCAGATC
53818023 AAAGCCACAA
Statistics
Matches: 836, Mismatches: 79, Indels: 21
0.89 0.08 0.02
Matches are distributed among these distances:
176 23 0.03
177 301 0.36
178 416 0.50
179 96 0.11
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (178 bp):
TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
Found at i:53817780 original size:355 final size:356
Alignment explanation
Indices: 53816919--53818022 Score: 1490
Period size: 355 Copynumber: 3.1 Consensus size: 356
53816909 AGTGAATTCA
* * * * * * * *
53816919 TAGATCTTATTTCCCTGAGATAGTATTGGAGCAGATCAAAGACGGCGAATCTTGTCTCCCCGAGG
1 TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
** * * * *
53816984 TAGCAGGGGAGCAAATTTTTGGCCACCAGCCTTAAC-TCTCTGAGGTAGCAAGAG-AGCAAGTTG
66 TAGCAGGGGAGCAAA-TTTCAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAAGCAGGCT-
* * * * * *
53817047 AA-GATTGTAGTGTTATCTTCTTGAGGTAGCAAGGAAAT-AGACTAAAGATTGTAGGTCTTATCT
128 AATGATTATAGTCTTATCTTCCTGAGGTAGCAAGG-GATCAGACTGAAGATTGTAGATCTTATCT
* * * * *
53817110 CCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGGAGC
192 CCCTAAG-TAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGC
* * *
53817175 AGATTTCAACCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGTCTTA
256 AGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTA
* * *
53817240 TCTTCTTGAGGTAGCAAGGAAACAGACTAAAGATTG
321 TCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * * *
53817276 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGTCGGCAAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
* * *
53817341 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG-AGCAGACTAAT
66 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAGCAGGCTAAT
*
53817405 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGACTGTAGATCTTATCTCCCT
131 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGATTGTAGATCTTATCTCCCT
* **
53817470 AAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATT
196 AAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATT
*
53817535 TCAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTC
261 TCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTC
* * *
53817600 CTAAGGTAGCAAGGGAGCAGACTGAAGGTTG
326 CTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * *
53817631 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGTAGATTGAAGACGACAAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
53817695 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAA
66 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG-AAGCAGGCTAA
*
53817760 TGATTATAGTCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCC
130 TGATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGATTGTAGATCTTATCTCCC
* * * * *
53817824 TAAGCAGTAATGGGGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGAAGCA-AA
195 TAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGAT
* * *
53817888 TCCTAGCCACCAGCCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCTAATGATTGTAGTCTTATCT
260 TTC-AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATC-
* *
53817953 TTCC-GAGTTAGCAAGGAAGCAGACTGAAGATGG
323 TTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
*
53817986 TAGATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATC
1 TAGATCTTATCTCCCT-AAGATAGCAGTGGAGCAGATC
53818023 AAAGCCACAA
Statistics
Matches: 659, Mismatches: 80, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
354 93 0.14
355 362 0.55
356 135 0.20
357 69 0.10
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (356 bp):
TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAGCAGGCTAAT
GATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGATTGTAGATCTTATCTCCCT
AAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATT
TCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTC
CTGAGGTAGCAAGGAAGCAGACTGAAGATTG
Found at i:53817950 original size:44 final size:43
Alignment explanation
Indices: 53817192--53817997 Score: 317
Period size: 44 Copynumber: 18.2 Consensus size: 43
53817182 AACCACCAGC
* * *
53817192 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
** * *
53817236 CTTATCTTCTTGAGGTAGCAAGGAAACAGACTAAAGATTGTAGGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTA-GT
* * * * * *
53817281 CTTATC-TCCTTGAGATAGC-AGTGGAGCAGATCGAAG-TCGGCAAAT
1 CTTATCTTCC-CGAGGTAGCAAG-GGAGCAGA-CTAAGAT-TG-TAGT
* * * * * ***** *
53817326 CTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTCAGCCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGA-CTAAGATTGTAGT
* *
53817370 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
* * *
53817414 CTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGACTGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
* * * * * * *
53817459 CTTATC-TCCCTAAGTAG-TAGTGGAGCAGATCGAAGATGGCGAAT
1 CTTATCTTCCCGAGGTAGCAAG-GGAGCAGA-CTAAGATTG-TAGT
** * * * *** *
53817503 CTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTCAG-TCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGA-CTAAGAT-TGTAGT
* * *
53817547 CTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
** *
53817591 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGGTTGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
* * * * * * * *
53817636 CTTATC-TCCCTAAGTAG-TAGTGGAGTAGATTGAAGA-CGACAAAT
1 CTTATCTTCCCGAGGTAGCAAG-GGAGCAGACT-AAGATTG--TAGT
* * * * ***** *
53817680 CTTATCTTCCCGAGGTAGCAGGGGAGCAAATTTCAGCCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGA-CTAAGATTGTAGT
* * *
53817724 CTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAATGATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGG--AGCAGACTAA-GATTGTAGT
*
53817770 CTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
* * * * * ** * *
53817814 CTTATC-TCCCTAAGCAGTAATGGG-GCAGATCGAAGACGGCGAAT
1 CTTATCTTCCCGAGGTAGCAA-GGGAGCAGA-CTAAGATTG-TAGT
* ***** *
53817858 CTTATCTTCCCGAGGTAGC-AGGGAAGCAAATCCT-AGCCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGG-AGCAGA--CTAAGATTGTAGT
*
53817902 CTTATCTTCCCGAGGTAGCAAGGGAGCAGGCTAATGATTGTAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
* * * *
53817946 CTTATCTTTCCGAGTTAGCAAGGAAGCAGACTGAAGATGGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
53817991 CTTATCT
1 CTTATCT
53817998 CCCTGAAGTT
Statistics
Matches: 560, Mismatches: 154, Indels: 95
0.69 0.19 0.12
Matches are distributed among these distances:
42 2 0.00
43 27 0.05
44 345 0.62
45 164 0.29
46 22 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (43 bp):
CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAAGATTGTAGT
Found at i:53829777 original size:44 final size:43
Alignment explanation
Indices: 53829714--53829797 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
53829704 ACATGTATCG
53829714 CATCCATAATGAACTCGGACCAAATCAACGAGCTCAAATGCTCA
1 CATCCATAATGAACTCGGACC-AATCAACGAGCTCAAATGCTCA
* *
53829758 CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
1 CATCCATAATGAACTCGGACCAATCAACGAGCTCAAATGC
53829798 CATATATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 17 0.45
44 21 0.55
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCAATCAACGAGCTCAAATGCTCA
Found at i:53830059 original size:14 final size:16
Alignment explanation
Indices: 53830027--53830063 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
53830017 ATTTACATAA
*
53830027 CATATATCACCTATTT
1 CATATATCACCTATGT
53830043 CATATATCA-CT-TGT
1 CATATATCACCTATGT
53830057 CATATAT
1 CATATAT
53830064 TATCATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:53830546 original size:20 final size:18
Alignment explanation
Indices: 53830509--53830559 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
53830499 CTATAACAAC
53830509 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
53830526 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
53830546 TTACAACTTTACAA
1 TCACAA-TTTACAA
53830560 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:53838622 original size:6 final size:6
Alignment explanation
Indices: 53838613--53838651 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
53838603 ATAAAATAAG
53838613 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
53838652 GAACAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:53843054 original size:15 final size:16
Alignment explanation
Indices: 53843024--53843057 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
53843014 TCAATCATGC
*
53843024 AAAAATAATAATGAAG
1 AAAAATAATAAAGAAG
53843040 AAAAATAA-AAAGAAG
1 AAAAATAATAAAGAAG
53843055 AAA
1 AAA
53843058 GAAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAATAATAAAGAAG
Found at i:53843527 original size:4 final size:4
Alignment explanation
Indices: 53843484--53843535 Score: 52
Period size: 4 Copynumber: 12.0 Consensus size: 4
53843474 ATAACGTAAT
53843484 TAAA TAAA TGAAA TAATCA TAAA TAGAA T-AA TAGAA TAAA TAAA TAAA
1 TAAA TAAA T-AAA TAA--A TAAA TA-AA TAAA TA-AA TAAA TAAA TAAA
53843532 TAAA
1 TAAA
53843536 AATAAAATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
3 3 0.07
4 24 0.57
5 11 0.26
6 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:53847043 original size:64 final size:64
Alignment explanation
Indices: 53846970--53847097 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
53846960 CTTTGGAAAA
*
53846970 CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCTGTGTGG
1 CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
*
53847034 CTCAAAAAATTTGTCATCAAAATAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
1 CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
53847098 GTAGGCCATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (64 bp):
CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
Found at i:53848961 original size:5 final size:5
Alignment explanation
Indices: 53848951--53849039 Score: 72
Period size: 5 Copynumber: 16.2 Consensus size: 5
53848941 TGAATCCTCC
53848951 TATTT TATTT TA-TT TATTCT TATTCT TATTTT TATTT TATTTT TATTTT
1 TATTT TATTT TATTT TATT-T TATT-T TA-TTT TATTT TA-TTT TA-TTT
* *
53849000 TCTTT TGACTTT TATTT TCATTT CAATTT TATTT TATTT T
1 TATTT T-A-TTT TATTT T-ATTT -TATTT TATTT TATTT T
53849040 GAAAGACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
4 4 0.06
5 31 0.43
6 31 0.43
7 6 0.08
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:53848985 original size:12 final size:11
Alignment explanation
Indices: 53848951--53849039 Score: 85
Period size: 11 Copynumber: 8.0 Consensus size: 11
53848941 TGAATCCTCC
53848951 TATTTTA-TTT
1 TATTTTATTTT
*
53848961 TA-TTTATTCT
1 TATTTTATTTT
53848971 TATTCTTATTTT
1 TATT-TTATTTT
53848983 TATTTTATTTT
1 TATTTTATTTT
53848994 TATTTT-TCTTT
1 TATTTTAT-TTT
53849005 TGACTTTTATTTT
1 T-A-TTTTATTTT
* * *
53849018 CATTTCAATTT
1 TATTTTATTTT
53849029 TATTTTATTTT
1 TATTTTATTTT
53849040 GAAAGACATA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
9 4 0.06
10 7 0.11
11 33 0.52
12 12 0.19
13 7 0.11
14 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:53848996 original size:17 final size:17
Alignment explanation
Indices: 53848951--53849039 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
53848941 TGAATCCTCC
53848951 TATTTTA-TTTTA--TT
1 TATTTTATTTTTATTTT
*
53848965 TATTCTTATTCTTATTTT
1 TATT-TTATTTTTATTTT
53848983 TATTTTATTTTTATTTT
1 TATTTTATTTTTATTTT
* *
53849000 TCTTTTGACTTTTATTTT
1 TATTTT-ATTTTTATTTT
* * *
53849018 CATTTCAATTTTA-TTT
1 TATTTTATTTTTATTTT
53849034 TATTTT
1 TATTTT
53849040 GAAAGACATA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.07
15 3 0.05
16 11 0.18
17 23 0.38
18 19 0.32
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (17 bp):
TATTTTATTTTTATTTT
Found at i:53848998 original size:6 final size:6
Alignment explanation
Indices: 53848963--53849039 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
53848953 TTTTATTTTA
* * * * *
53848963 TTTATT CTTATT CTTATT TTTA-T TTTATT TTTATT TTTCTT TTGACT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
53849010 TTTATT TTCA-T TTCAAT TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
53849040 GAAAGACATA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
5 15 0.26
6 43 0.74
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:53851970 original size:13 final size:13
Alignment explanation
Indices: 53851952--53851976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53851942 TTAAATCAGT
53851952 TAATTAGTTTAAA
1 TAATTAGTTTAAA
53851965 TAATTAGTTTAA
1 TAATTAGTTTAA
53851977 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:53859314 original size:47 final size:47
Alignment explanation
Indices: 53859263--53859637 Score: 581
Period size: 47 Copynumber: 8.0 Consensus size: 47
53859253 GATTTTATGA
53859263 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
53859310 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
53859357 GATGAATGTGAACTTGCATATGTGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
53859404 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
53859451 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
53859498 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
53859545 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** * *
53859592 GATGAACGTGGAA-GTGTATATATGTGGCAAAGCCGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
53859638 CGAAACGTGT
Statistics
Matches: 301, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 298 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:53859670 original size:46 final size:46
Alignment explanation
Indices: 53859611--53859747 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
53859601 GGAAGTGTAT
* *
53859611 ATATGTGGCAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
53859657 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * **
53859703 ATATGAGGTAAAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
53859748 TGTATATATA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.23
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:53861931 original size:13 final size:13
Alignment explanation
Indices: 53861913--53861940 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53861903 AGTGATTGTG
53861913 TTTGAATCTAAAA
1 TTTGAATCTAAAA
53861926 TTTGAATCTAAAA
1 TTTGAATCTAAAA
53861939 TT
1 TT
53861941 ACTAAACTAA
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTTGAATCTAAAA
Found at i:53870891 original size:47 final size:47
Alignment explanation
Indices: 53870777--53870946 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
53870767 GCCCCTAAGT
* * * *
53870777 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
53870823 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
53870870 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
53870915 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
53870947 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:53870946 original size:92 final size:93
Alignment explanation
Indices: 53870777--53870946 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53870767 GCCCCTAAGT
* *
53870777 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53870842 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53870870 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53870934 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53870947 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53871398 original size:30 final size:30
Alignment explanation
Indices: 53871364--53871423 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53871354 ATTTAATACG
53871364 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
53871394 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
53871424 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:53878382 original size:46 final size:45
Alignment explanation
Indices: 53878311--53878480 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 45
53878301 AACCCGCCCC
* * *
53878311 TAAGTGAACTCGGACTCAACACAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCG-ATCCA
* * * *
53878357 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGATCCA
* * *
53878403 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGATCCA
53878448 TAAGT-AACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53878481 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
44 30 0.29
45 5 0.05
46 66 0.63
47 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGATCCA
Found at i:53903276 original size:39 final size:39
Alignment explanation
Indices: 53903233--53903315 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
53903223 TATGAGAATT
53903233 ATGAGATGAAATTATAATAACTCGAAAGAATATTGCATG
1 ATGAGATGAAATTATAATAACTCGAAAGAATATTGCATG
53903272 ATGAGATGAAATTATAATAACTCGAAAGAATATTGCATG
1 ATGAGATGAAATTATAATAACTCGAAAGAATATTGCATG
53903311 ATGAG
1 ATGAG
53903316 CTCATCTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (39 bp):
ATGAGATGAAATTATAATAACTCGAAAGAATATTGCATG
Found at i:53917256 original size:34 final size:34
Alignment explanation
Indices: 53917213--53917280 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
53917203 TAGGAGTAAG
*
53917213 TCAATAATTCGATCAATACTCATAAATACCTAAA
1 TCAATAATTCGATCAATACTCATAAACACCTAAA
53917247 TCAATAATTCGATCAATACTCATAAACACCTAAA
1 TCAATAATTCGATCAATACTCATAAACACCTAAA
53917281 AAAACACACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (34 bp):
TCAATAATTCGATCAATACTCATAAACACCTAAA
Found at i:53926314 original size:27 final size:27
Alignment explanation
Indices: 53926266--53926342 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
53926256 GCTCATCACT
* * *
53926266 TGTAGATACATATCATAGTTCACAACA
1 TGTAGAGACATATCACACTTCACAACA
* * **
53926293 TGTAGAGACATTTCACACTTCACCATG
1 TGTAGAGACATATCACACTTCACAACA
53926320 TGTAGAGACA-ACTCACACTTCAC
1 TGTAGAGACATA-TCACACTTCAC
53926343 CACTTGTGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (27 bp):
TGTAGAGACATATCACACTTCACAACA
Found at i:53926360 original size:27 final size:27
Alignment explanation
Indices: 53926293--53926344 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
53926283 GTTCACAACA
**
53926293 TGTAGAGACATTTCACACTTCACCATG
1 TGTAGAGACAACTCACACTTCACCATG
53926320 TGTAGAGACAACTCACACTTCACCA
1 TGTAGAGACAACTCACACTTCACCA
53926345 CTTGTGGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (27 bp):
TGTAGAGACAACTCACACTTCACCATG
Found at i:53929943 original size:48 final size:46
Alignment explanation
Indices: 53929872--53930005 Score: 178
Period size: 48 Copynumber: 2.8 Consensus size: 46
53929862 GGATTATGTG
*
53929872 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGATCTA
1 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA--TA
*
53929920 CGATCCCATGTAAGACCATGTCTGGGACATGACATTGGTACCGATA
1 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGATA
* * * *
53929966 CGTGATTCCATGTAAGACCATATCCGGGATATGGCATTGG
1 C--GATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
53930006 CATCCTACCA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
46 3 0.04
48 74 0.96
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (46 bp):
CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGATA
Found at i:53932025 original size:43 final size:43
Alignment explanation
Indices: 53931971--53932068 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
53931961 TGCAACATTG
*
53931971 GATAAATTGAAGGAA-ATATACTAACACACATAGTGCATCATCA
1 GATAAACTGAAGGAATATATACTAACACACATAGTGCATCAT-A
* * *
53932014 GATAAACTGAA-GAATGTATACTAGCACACATAGTTCATCATA
1 GATAAACTGAAGGAATATATACTAACACACATAGTGCATCATA
53932056 GAATAAACTGAAG
1 G-ATAAACTGAAG
53932069 CCATTATGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.10
43 43 0.90
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (43 bp):
GATAAACTGAAGGAATATATACTAACACACATAGTGCATCATA
Found at i:53937230 original size:37 final size:37
Alignment explanation
Indices: 53937139--53937223 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
53937129 TGTGAGTACG
* * *
53937139 TGTAAAACCATAGCTGGGCTATGGCATCGTAATGACA
1 TGTAAGACCATAGCTGGGCTATGACATCGTAATCACA
* * *
53937176 TGTAAGACCATAGCTGGGCTATGACATTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATGACATCGTAATCACA
53937213 TGTAAGACCAT
1 TGTAAGACCAT
53937224 GTCTGGGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGACATCGTAATCACA
Found at i:53937292 original size:23 final size:23
Alignment explanation
Indices: 53937266--53937312 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
53937256 TCCCATGTAA
53937266 GACCATATCTAGGACATGGAATT
1 GACCATATCTAGGACATGGAATT
* * *
53937289 GACCATGTCTAGGATATGGCATT
1 GACCATATCTAGGACATGGAATT
53937312 G
1 G
53937313 GCATCGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (23 bp):
GACCATATCTAGGACATGGAATT
Found at i:53937406 original size:49 final size:48
Alignment explanation
Indices: 53937289--53937455 Score: 217
Period size: 48 Copynumber: 3.5 Consensus size: 48
53937279 ACATGGAATT
* * *
53937289 GACCATGTCTAGGATATGGCATTGGCATCGATATGTGATCCTATGTAA
1 GACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAA
* * * *
53937337 GACCATGTTTGGAACATGGCATTGACATCGATATGTGATCCCCATCTAA
1 GACCATGTCTGGGACATGGCATTGGCATCGATATGTGAT-CCCATGTAA
* * **
53937386 GACCATATCTGGGACATGGCATTGGCATCAATATGTGATTTCATGTAA
1 GACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAA
*
53937434 AACCATGTCTGGGACATGGCAT
1 GACCATGTCTGGGACATGGCAT
53937456 CGATTGAGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 60 0.59
49 41 0.41
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
GACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAA
Found at i:53939242 original size:29 final size:29
Alignment explanation
Indices: 53939200--53939255 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
53939190 TGTAATGATC
53939200 AAAGATTTCGAGTAAGTTATTGATTTATG
1 AAAGATTTCGAGTAAGTTATTGATTTATG
*
53939229 AAAGATTTTGAGTAAGTTATTGATTTA
1 AAAGATTTCGAGTAAGTTATTGATTTA
53939256 ATCTCTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.43
Consensus pattern (29 bp):
AAAGATTTCGAGTAAGTTATTGATTTATG
Found at i:53944396 original size:46 final size:46
Alignment explanation
Indices: 53944346--53944518 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
53944336 TGGTTGAGCA
53944346 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53944392 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
** *
53944437 CATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53944485 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53944519 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53944502 original size:93 final size:93
Alignment explanation
Indices: 53944343--53944513 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53944333 GGATGGTTGA
* * *
53944343 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53944408 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
53944436 GCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53944501 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53944514 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53948046 original size:29 final size:27
Alignment explanation
Indices: 53947981--53948086 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 27
53947971 TACATACATG
*
53947981 CATATGGCCCACTTGGCCC-ATC-TCATT
1 CATATGGCCCAC-AGGCCCAATCAT-ATT
53948008 CATATGGCCCACAGGGCCCAATTCATATT
1 CATATGGCCCACA-GGCCCAA-TCATATT
**
53948037 CATATGGCCCATCAGGCCCAAATCACCTT
1 CATATGGCCCA-CAGGCCC-AATCATATT
* *
53948066 TATATGGCCCATTAGGCCCAA
1 CATATGGCCCA-CAGGCCCAA
53948087 ATCACCTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
27 17 0.25
28 3 0.04
29 43 0.63
30 5 0.07
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (27 bp):
CATATGGCCCACAGGCCCAATCATATT
Found at i:53948087 original size:29 final size:28
Alignment explanation
Indices: 53948009--53948098 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
53947999 CATCTCATTC
* **
53948009 ATATGGCCCA-CAGGGCCCAATTCATATT
1 ATATGGCCCATCA-GGCCCAAATCACCTT
53948037 CATATGGCCCATCAGGCCCAAATCACCTTT
1 -ATATGGCCCATCAGGCCCAAATCACC-TT
*
53948067 ATATGGCCCATTAGGCCCAAATCACCTT
1 ATATGGCCCATCAGGCCCAAATCACCTT
53948095 ATAT
1 ATAT
53948099 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 6 0.11
29 45 0.82
30 4 0.07
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACCTT
Found at i:53949036 original size:25 final size:25
Alignment explanation
Indices: 53949002--53949051 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
53948992 GAAAAGAAAG
*
53949002 AAAAACAAAAGGGTTTTTGGCTTTT
1 AAAAACAAAAGGGTTTTCGGCTTTT
*
53949027 AAAAAGAAAAGGGTTTTCGGCTTTT
1 AAAAACAAAAGGGTTTTCGGCTTTT
53949052 GGAGAAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (25 bp):
AAAAACAAAAGGGTTTTCGGCTTTT
Found at i:53951379 original size:29 final size:29
Alignment explanation
Indices: 53951340--53951418 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53951330 CTTAATAATC
*
53951340 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
53951370 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
53951399 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53951419 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:53955904 original size:29 final size:29
Alignment explanation
Indices: 53955821--53955910 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
53955811 CATCTTATTC
* * * *
53955821 ATATGGACCATAAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACCTTT
53955850 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
**
53955879 ATATGGCCTGTTAGGCCCAAATCACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
53955907 ATAT
1 ATAT
53955911 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 6 0.11
29 49 0.89
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:53956849 original size:38 final size:38
Alignment explanation
Indices: 53956806--53956878 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
53956796 ATCCTTTTTA
53956806 ATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAATTC
1 ATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAATTC
53956844 ATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 ATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
53956879 GGAGTTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (38 bp):
ATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAATTC
Found at i:53958159 original size:40 final size:40
Alignment explanation
Indices: 53958065--53958209 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
53958055 TACTCGAATG
*
53958065 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
53958106 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
53958146 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
53958186 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
53958210 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:53960664 original size:16 final size:16
Alignment explanation
Indices: 53960640--53960671 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53960630 AAGTTCGGGA
53960640 TTTTAGGATTTTTGGG
1 TTTTAGGATTTTTGGG
*
53960656 TTTTGGGATTTTTGGG
1 TTTTAGGATTTTTGGG
53960672 GCATTATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (16 bp):
TTTTAGGATTTTTGGG
Found at i:53973258 original size:22 final size:22
Alignment explanation
Indices: 53973230--53973351 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
53973220 TTCCACATCC
53973230 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
53973252 ATCACATATATACACTGTC-ACATT
1 ATCACAT-TGGCCA-T-TCGGCCTT
53973276 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
53973299 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
53973323 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
53973346 ATCACA
1 ATCACA
53973352 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 24 0.34
23 14 0.20
24 14 0.20
25 18 0.26
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:53973265 original size:47 final size:47
Alignment explanation
Indices: 53973202--53973847 Score: 924
Period size: 47 Copynumber: 13.6 Consensus size: 47
53973192 CCCTTCGGGA
* * *
53973202 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53973249 CTTATCACATATATACACTGTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973296 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
53973343 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
53973390 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
53973437 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
53973484 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
53973531 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973580 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973627 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973723 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53973772 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53973821 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53973848 TATTCAAATA
Statistics
Matches: 565, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 379 0.67
49 184 0.33
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:53973609 original size:96 final size:94
Alignment explanation
Indices: 53973202--53973847 Score: 924
Period size: 96 Copynumber: 6.8 Consensus size: 94
53973192 CCCTTCGGGA
* * *
53973202 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
53973267 TGTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
* * * *
53973296 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
53973360 -TGTTCACATTCATCACATTGGCCATTCGGC
65 CT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
53973390 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
53973454 -TGTTCACATTCATCACATTGGCCATTCGGC
65 CT-TTCACATTCATCACATTGGCCATTCGGC
* * *
53973484 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATATA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATA
53973548 CACTTTCACATTCATCACATTGGCCATTCGGC
63 CACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973580 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
* *
53973645 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
* *
53973676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
* *
53973741 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
*
53973772 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
53973837 ACTTTCACATT
64 ACTTTCACATT
53973848 TATTCAAATA
Statistics
Matches: 517, Mismatches: 27, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 221 0.43
96 246 0.48
97 2 0.00
98 46 0.09
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:53975367 original size:56 final size:56
Alignment explanation
Indices: 53975300--53975419 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
53975290 TATTAGTTTA
53975300 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
53975356 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
53975412 TTGCCCAT
1 TTGCCCAT
53975420 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:53976520 original size:17 final size:17
Alignment explanation
Indices: 53976485--53976521 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
53976475 TGAAACACGC
* *
53976485 ATACAAAAAGGGAAGCA
1 ATACAAAAAGGCAACCA
53976502 ATACAAAAAGGCAACCA
1 ATACAAAAAGGCAACCA
53976519 ATA
1 ATA
53976522 TCGGAAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.08
Consensus pattern (17 bp):
ATACAAAAAGGCAACCA
Found at i:53979007 original size:131 final size:131
Alignment explanation
Indices: 53978806--53979157 Score: 327
Period size: 131 Copynumber: 2.7 Consensus size: 131
53978796 AAATTTGATA
* *** * *
53978806 TTTGGCAATTCGCGGAATCGTGCCCTAACGCATTGGGTTGCAATTTCTCG-TTG-CTCAAAATAA
1 TTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTC-CAAAACAA
*
53978869 TCAAATATCCCTTCGAAATTTCACTCAGGTCT-TCTAAAAATCCTCT-AAAACAAAGGCAATACT
64 TCAAATATCCCTTCGAAATTTCACTCAGGTTTATC-AAAAA-CCTCTCAAAACAAAGGCAATACT
53978932 CGGTG
127 CGGTG
* * * *
53978937 TTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTCCAAAACGATC
1 TTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTCCAAAACAATC
* * * ** * * ** ** *
53979002 GAATATTCCTT-TAGGCTTTCACTCATGTTTATCAAAAACCTTTCAAAATGAAGGCAATGTTCGT
66 AAATATCCCTTCGA-AATTTCACTCAGGTTTATCAAAAACCTCTCAAAACAAAGGCAATACTCGG
53979066 TG
130 TG
* * * * * * *
53979068 TTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAACAAAT
1 TTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTCCAAAAC-AAT
* *
53979133 CAAAGATCCCTTCGGAATTTCACTC
65 CAAATATCCCTTCGAAATTTCACTC
53979158 GTATGTTCTA
Statistics
Matches: 173, Mismatches: 41, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
130 35 0.20
131 116 0.67
132 22 0.13
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (131 bp):
TTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTCCAAAACAATC
AAATATCCCTTCGAAATTTCACTCAGGTTTATCAAAAACCTCTCAAAACAAAGGCAATACTCGGT
G
Found at i:53979967 original size:18 final size:18
Alignment explanation
Indices: 53979940--53979981 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
53979930 ACCTCGACCT
53979940 CCTCTACCATGATAACCA
1 CCTCTACCATGATAACCA
* *
53979958 CCTCTGCCATGATAATCA
1 CCTCTACCATGATAACCA
53979976 CCTCTA
1 CCTCTA
53979982 TATGTGGCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.38, G:0.07, T:0.26
Consensus pattern (18 bp):
CCTCTACCATGATAACCA
Found at i:53982489 original size:55 final size:55
Alignment explanation
Indices: 53982430--53982557 Score: 161
Period size: 55 Copynumber: 2.4 Consensus size: 55
53982420 CATGTCCTTA
* *
53982430 GCCCGTGTGCAACACTGACTTCAACACACGGCCATGGCACACGCCTGTGTGACAT
1 GCCCGTGTACAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACAT
* * * * * *
53982485 GCCCGTGTACGATACTGACTTTAAGACACGGCCATGGCACACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACAT
*
53982540 --ACGTGTACAACACTGACT
1 GCCCGTGTACAACACTGACT
53982558 AACAAGTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
53 15 0.24
55 47 0.76
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (55 bp):
GCCCGTGTACAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACAT
Found at i:53984061 original size:47 final size:47
Alignment explanation
Indices: 53983933--53984150 Score: 189
Period size: 47 Copynumber: 4.7 Consensus size: 47
53983923 TATACGTGCT
* * *
53983933 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAAC-TCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATC-GAGGCC
* * * * **
53983977 GATACGTGTCTCAGACACGTCTTACACAAGCTA-TCATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGAGGCC
* * * *
53984024 GATGTATGTCCCAAACATGTCTTACACTGGCACTCATC-TCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCC
* * * * *
53984070 GATCCCATGTCCCAGACATAGTCTTATACTGGCACTCAT-AACGTGGCT
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGAGGCC
53984118 GATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
53984151 ACAAGAAATC
Statistics
Matches: 138, Mismatches: 28, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
44 26 0.19
45 1 0.01
46 28 0.20
47 59 0.43
48 24 0.17
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCC
Found at i:53984103 original size:48 final size:46
Alignment explanation
Indices: 53983887--53984150 Score: 153
Period size: 47 Copynumber: 5.7 Consensus size: 46
53983877 GAGGCTGATG
* * * *
53983887 CCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACGT-GCTGAT
1 CCATGTCCCAGACAT-GTCTTACACTGGCACTC--ATA-ACGTCGCCGAT
* * * * *
53983936 GCATGTCCCAGACATGTCTTACACTAGCA--CA-ACTCTTAGCCGAT
1 CCATGTCCCAGACATGTCTTACACTGGCACTCATA-ACGTCGCCGAT
* * * * ** * **
53983980 ACGTGTCTCAGACACGTCTTACACAAGCTA-TCATCATCGAGGCCGAT
1 CCATGTCCCAGACATGTCTTACACTGGC-ACTCAT-AACGTCGCCGAT
** * **
53984027 GTATGTCCCAAACATGTCTTACACTGGCACTCATCTC-TACGCCGAT
1 CCATGTCCCAGACATGTCTTACACTGGCACTCATAACGT-CGCCGAT
* * *
53984073 CCCATGTCCCAGACATAGTCTTATACTGGCACTCATAACGTGGCTGAT
1 -CCATGTCCCAGACAT-GTCTTACACTGGCACTCATAACGTCGCCGAT
*
53984121 GCATGTCCCAGACATGTCTTACACTGGCAC
1 CCATGTCCCAGACATGTCTTACACTGGCAC
53984151 ACAAGAAATC
Statistics
Matches: 169, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
43 3 0.02
44 29 0.17
45 1 0.01
46 26 0.15
47 58 0.34
48 37 0.22
49 15 0.09
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CCATGTCCCAGACATGTCTTACACTGGCACTCATAACGTCGCCGAT
Found at i:53984130 original size:94 final size:92
Alignment explanation
Indices: 53983887--53984150 Score: 277
Period size: 94 Copynumber: 2.8 Consensus size: 92
53983877 GAGGCTGATG
* *
53983887 CCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACGT-GCTGATGCATGTCCCAGACAT
1 CCATGTCCCAGACATAGTCTTATACTAGCACTC--ATA-ACGTGGCTGATGCATGTCCCAGACAT
*
53983951 GTCTTACACTAGCA-CAACTCTTAGCCGAT
63 GTCTTACACTGGCACCAACTCTTAGCCGAT
* * * * * * * * * * *
53983980 ACGTGTCTCAGACA-CGTCTTACACAAGCTA-TCATCATCGAGGCCGATGTATGTCCCAAACATG
1 CCATGTCCCAGACATAGTCTTATACTAGC-ACTCAT-AACGTGGCTGATGCATGTCCCAGACATG
*
53984043 TCTTACACTGGCACTCATCTC-TACGCCGAT
64 TCTTACACTGGCAC-CAACTCTTA-GCCGAT
*
53984073 CCCATGTCCCAGACATAGTCTTATACTGGCACTCATAACGTGGCTGATGCATGTCCCAGACATGT
1 -CCATGTCCCAGACATAGTCTTATACTAGCACTCATAACGTGGCTGATGCATGTCCCAGACATGT
53984138 CTTACACTGGCAC
65 CTTACACTGGCAC
53984151 ACAAGAAATC
Statistics
Matches: 136, Mismatches: 26, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
90 4 0.03
91 32 0.24
92 15 0.11
93 22 0.16
94 49 0.36
95 14 0.10
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
CCATGTCCCAGACATAGTCTTATACTAGCACTCATAACGTGGCTGATGCATGTCCCAGACATGTC
TTACACTGGCACCAACTCTTAGCCGAT
Found at i:53985855 original size:25 final size:23
Alignment explanation
Indices: 53985811--53985860 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
53985801 AAACAACATC
*
53985811 AAAATTTTAAACAAACATAAACAA
1 AAAATTATAAACAAACATAAA-AA
53985835 AAAATTATATAACTAAA-ATAAAAA
1 AAAATTATA-AAC-AAACATAAAAA
53985859 AA
1 AA
53985861 GTTATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 12 0.52
25 8 0.35
26 3 0.13
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAATTATAAACAAACATAAAAA
Found at i:53990894 original size:23 final size:24
Alignment explanation
Indices: 53990868--53990912 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
53990858 AAAATATGTT
53990868 TTATAATTTTT-ATATTAAAAAAA
1 TTATAATTTTTAATATTAAAAAAA
* *
53990891 TTATATTTTTTAATTTTAAAAA
1 TTATAATTTTTAATATTAAAAA
53990913 TTAATTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATAATTTTTAATATTAAAAAAA
Found at i:53994817 original size:36 final size:37
Alignment explanation
Indices: 53994777--53994855 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
53994767 TAAATATTTT
* *
53994777 TATAATTTGAAGTAAAAAAAATAAAAAGTAATAT-AA
1 TATAATTTGAAATAAAAAAAATAAAAAATAATATGAA
* ***
53994813 TATAAATTGAAATAAAATGCATAAAAAATAATATGAA
1 TATAATTTGAAATAAAAAAAATAAAAAATAATATGAA
53994850 TATAAT
1 TATAAT
53994856 AAATCTATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
36 28 0.80
37 7 0.20
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (37 bp):
TATAATTTGAAATAAAAAAAATAAAAAATAATATGAA
Found at i:54007243 original size:214 final size:214
Alignment explanation
Indices: 54006874--54007303 Score: 851
Period size: 214 Copynumber: 2.0 Consensus size: 214
54006864 TAGGATGAAA
54006874 ATTGAGTCCCCTTGAATATGAAATATGATAAATTGATGTTAAATTTACTCATATAGATCTGGATA
1 ATTGAGTCCCCTTGAATATGAAATATGATAAATTGATGTTAAATTTACTCATATAGATCTGGATA
54006939 GACCAAATTCGGAACTAGAACGAGGAAAAGAGGAAAATGTCAGATTAGTAGATTTTACGTACACG
66 GACCAAATTCGGAACTAGAACGAGGAAAAGAGGAAAATGTCAGATTAGTAGATTTTACGTACACG
54007004 AACATTTGTCAATGTAAGTTTGTGTAACTAAATTGCGTATGTCTATATGCTTGAATTAAATGTTG
131 AACATTTGTCAATGTAAGTTTGTGTAACTAAATTGCGTATGTCTATATGCTTGAATTAAATGTTG
54007069 TGTTGTGAATTGTATAAAT
196 TGTTGTGAATTGTATAAAT
54007088 ATTGAGTCCCCTTGAATATGAAATATGATAAATTGATGTTAAATTTACTCATATAGATCTGGATA
1 ATTGAGTCCCCTTGAATATGAAATATGATAAATTGATGTTAAATTTACTCATATAGATCTGGATA
54007153 GACCAAATTCGGAACTAGAACGAGGAAAAGAGGAAAATGTCAGATTAGTAGATTTTACGTACACG
66 GACCAAATTCGGAACTAGAACGAGGAAAAGAGGAAAATGTCAGATTAGTAGATTTTACGTACACG
54007218 AACATTTGTCAATGTAAGTTTGTGTAACTAAATTGCGTATGTCTATATGCTTGAATTAAATGTTG
131 AACATTTGTCAATGTAAGTTTGTGTAACTAAATTGCGTATGTCTATATGCTTGAATTAAATGTTG
*
54007283 TGTTGTGAATTGTATATAT
196 TGTTGTGAATTGTATAAAT
54007302 AT
1 AT
54007304 ATATGACATT
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 215 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (214 bp):
ATTGAGTCCCCTTGAATATGAAATATGATAAATTGATGTTAAATTTACTCATATAGATCTGGATA
GACCAAATTCGGAACTAGAACGAGGAAAAGAGGAAAATGTCAGATTAGTAGATTTTACGTACACG
AACATTTGTCAATGTAAGTTTGTGTAACTAAATTGCGTATGTCTATATGCTTGAATTAAATGTTG
TGTTGTGAATTGTATAAAT
Found at i:54011238 original size:17 final size:17
Alignment explanation
Indices: 54011216--54011256 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
54011206 CGCCTGTGAC
* *
54011216 TTCATTTTTCTATCATT
1 TTCATTTTTCAAGCATT
*
54011233 TTCATTCTTCAAGCATT
1 TTCATTTTTCAAGCATT
54011250 TTCATTT
1 TTCATTT
54011257 ACGAGGGGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.59
Consensus pattern (17 bp):
TTCATTTTTCAAGCATT
Found at i:54016820 original size:39 final size:39
Alignment explanation
Indices: 54016777--54016903 Score: 111
Period size: 39 Copynumber: 3.3 Consensus size: 39
54016767 TCTATTATTA
54016777 TTTATTTATATATGCTTTATTACAATTTTTGGTTTTAAT
1 TTTATTTATATATGCTTTATTACAATTTTTGGTTTTAAT
* * * *
54016816 TTTATTTATATTCTACTTTGATT---ATTTTT--TATCTATT
1 TTTATTTATA-TATGCTTT-ATTACAATTTTTGGT-TTTAAT
* * * *
54016853 ATTTATTTATATATGTTTTATTACAAATTATGGCTTTAAT
1 -TTTATTTATATATGCTTTATTACAATTTTTGGTTTTAAT
54016893 TTTATTTATAT
1 TTTATTTATAT
54016904 TCTACTTTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
36 4 0.06
37 9 0.13
38 16 0.24
39 25 0.37
40 10 0.15
41 3 0.04
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.62
Consensus pattern (39 bp):
TTTATTTATATATGCTTTATTACAATTTTTGGTTTTAAT
Found at i:54016867 original size:77 final size:77
Alignment explanation
Indices: 54016772--54016915 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 77
54016762 TTTTATCTAT
* * *
54016772 TATTATTTATTTATATATGCTTTATTACAATTTTTGGTTTTAATTTTATTTATATTCTACTTTGA
1 TATTATTTATTTATATATGCTTTATTACAAATTATGGCTTTAATTTTATTTATATTCTACTTTGA
54016837 TTATTTTTTATC
66 TTATTTTTTATC
*
54016849 TATTATTTATTTATATATGTTTTATTACAAATTATGGCTTTAATTTTATTTATATTCTACTTTGA
1 TATTATTTATTTATATATGCTTTATTACAAATTATGGCTTTAATTTTATTTATATTCTACTTTGA
54016914 TT
66 TT
54016916 CTTTATTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (77 bp):
TATTATTTATTTATATATGCTTTATTACAAATTATGGCTTTAATTTTATTTATATTCTACTTTGA
TTATTTTTTATC
Found at i:54030210 original size:8 final size:7
Alignment explanation
Indices: 54030180--54030212 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
54030170 TCAAATTGTT
54030180 AAATTTA
1 AAATTTA
54030187 AAATTTA
1 AAATTTA
54030194 AAATTTA
1 AAATTTA
54030201 AAATTTTA
1 AAA-TTTA
54030209 AAAT
1 AAAT
54030213 AATGGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:54044715 original size:40 final size:40
Alignment explanation
Indices: 54044678--54044863 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
54044668 GCTACTCGTT
* *
54044678 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
54044718 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
54044758 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
54044798 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
54044839 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
54044864 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54049179 original size:72 final size:72
Alignment explanation
Indices: 54049052--54049185 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
54049042 TGCGCCCAGC
* * *
54049052 GCTAGTTGGATAAACCAACGAATAATTAGTGAGCCCAACTCTAGTTGGATATACCAATGATATTT
1 GCTAGTTGGATAAACCAACGAATAAATAGTGAGCCCAACTCTAGTTGAATATACCAACGATATTT
54049117 CCACCTA
66 CCACCTA
* * *
54049124 GCTAGTTGGATAAATCGACGAATAAATAGTGAGCCCAGCTCTAGTTAGAAT-TACCAACGATA
1 GCTAGTTGGATAAACCAACGAATAAATAGTGAGCCCAACTCTAGTT-GAATATACCAACGATA
54049186 CTTGCGTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 52 0.95
73 3 0.05
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (72 bp):
GCTAGTTGGATAAACCAACGAATAAATAGTGAGCCCAACTCTAGTTGAATATACCAACGATATTT
CCACCTA
Found at i:54049225 original size:74 final size:72
Alignment explanation
Indices: 54049052--54049227 Score: 189
Period size: 72 Copynumber: 2.4 Consensus size: 72
54049042 TGCGCCCAGC
** * * *
54049052 GCTAGTTGGATAAACCAACGAATAATTAGTGAGCCCAACTCTAGTTGGATATACCAATGATATTT
1 GCTAGTTGGATAAACTGACGAATAAATAGTGAGCCCAACTCTAGTTGAATATACCAACGATATTT
54049117 CCACCTA
66 CCACCTA
*
54049124 GCTAGTTGGATAAA-TCGACGAATAAATAGTGAGCCCAGCTCTAGTTAGAAT-TACCAACGATAC
1 GCTAGTTGGATAAACT-GACGAATAAATAGTGAGCCCAACTCTAGTT-GAATATACCAACGATA-
* *
54049187 TTGCGTTCA-GT-
63 TT---TCCACCTA
*
54049198 GCTAGTCGGATAAACTGACGAATAAATAGT
1 GCTAGTTGGATAAACTGACGAATAAATAGT
54049228 TATTTATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
72 51 0.58
73 5 0.06
74 27 0.31
75 2 0.02
76 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (72 bp):
GCTAGTTGGATAAACTGACGAATAAATAGTGAGCCCAACTCTAGTTGAATATACCAACGATATTT
CCACCTA
Found at i:54049636 original size:21 final size:21
Alignment explanation
Indices: 54049610--54049660 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
54049600 TCAAAGTTCA
54049610 CAAGTAAATATTTAAATAGTT
1 CAAGTAAATATTTAAATAGTT
54049631 CAAGTAAATATTTAAATAGTT
1 CAAGTAAATATTTAAATAGTT
*
54049652 TAAGCTAAA
1 CAAG-TAAA
54049661 GAATTATGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (21 bp):
CAAGTAAATATTTAAATAGTT
Found at i:54055567 original size:46 final size:46
Alignment explanation
Indices: 54055508--54055775 Score: 217
Period size: 46 Copynumber: 5.8 Consensus size: 46
54055498 TATTTGGGCA
* * *
54055508 TCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
54055554 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
54055601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
54055647 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
54055694 TCTGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
54055740 CCCGAGCTCGTT-AGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54055776 GCGGGTTACA
Statistics
Matches: 176, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 11 0.06
45 27 0.15
46 65 0.37
47 57 0.32
48 6 0.03
50 10 0.06
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:54055619 original size:47 final size:47
Alignment explanation
Indices: 54055554--54055722 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
54055544 GATGCAAACG
54055554 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
54055601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
* *
54055647 TCTGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
54055694 TCTGAGCTCGTTGAGTTGAGCCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
54055723 ACTTATGGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.26
47 55 0.54
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:54055663 original size:93 final size:93
Alignment explanation
Indices: 54055504--54055768 Score: 433
Period size: 93 Copynumber: 2.9 Consensus size: 93
54055494 CGGATATTTG
* * *
54055504 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
54055569 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* *
54055597 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
54055662 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* * * *
54055690 GGCATCTGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTT-AG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
54055754 TTGAGTCTGAGTTCG
66 TTGAGTCTGAGTTCG
54055769 CTTATGGGCG
Statistics
Matches: 160, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 17 0.11
93 143 0.89
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCTGAGTTCGTGAGATGTAACTA
Found at i:54060254 original size:38 final size:38
Alignment explanation
Indices: 54060211--54060286 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
54060201 TTCATCCTTT
54060211 TTCATTTCTTTTGCCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGCCCGAAAATTCTAAGGAAGGAGGAA
*
54060249 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGCCCGAAAATTCTAAGGAAGGAGGAA
54060287 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGCCCGAAAATTCTAAGGAAGGAGGAA
Found at i:54061575 original size:40 final size:41
Alignment explanation
Indices: 54061475--54061579 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
54061465 TACTCGAATG
** * *
54061475 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAAGCGACC
* * *
54061516 ACATCCGGACTAAGTCCCGAAGGCAATTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAAGCGACC
* *
54061556 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
54061580 CTTGTGCGAG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 25 0.47
41 28 0.53
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.22
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAAGCGACC
Found at i:54068275 original size:38 final size:38
Alignment explanation
Indices: 54068232--54068307 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
54068222 TTCATCCTTT
54068232 TTCATTTCTTTTGCCCGAAA-ATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGCCCGAAATA-TCTAAGGAAGGAGGAA
*
54068270 TTCATTTCTTTTGGCCGAAATATCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGCCCGAAATATCTAAGGAAGGAGGAA
54068308 GGAGTTCTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 35 0.97
39 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGCCCGAAATATCTAAGGAAGGAGGAA
Found at i:54073944 original size:29 final size:29
Alignment explanation
Indices: 54073885--54073957 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
54073875 AATCAACCGT
* *
54073885 GCACACTTAGTGCCGTGTACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
**
54073914 GCACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
*
54073943 GCACACCTAGTGCCA
1 GCACACTTAGTGCCA
54073958 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:54075722 original size:27 final size:27
Alignment explanation
Indices: 54075659--54075725 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
54075649 GAAGATTAAT
*
54075659 AAAACATCTCAGAAGAATAATGAATAC
1 AAAACATCTTAGAAGAATAATGAATAC
54075686 AAAACATCTTAGAAGAATAATGAATAC
1 AAAACATCTTAGAAGAATAATGAATAC
54075713 AAAACATCTTAGA
1 AAAACATCTTAGA
54075726 TTTGTCTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.21
Consensus pattern (27 bp):
AAAACATCTTAGAAGAATAATGAATAC
Found at i:54078424 original size:93 final size:93
Alignment explanation
Indices: 54078265--54078464 Score: 256
Period size: 93 Copynumber: 2.2 Consensus size: 93
54078255 CAGCCATGTT
* * * *
54078265 GCACGGCCGTGTCAATCTTCGTTCGCCTCTCCAACACCCATGTATGGAGGCATACGCCCGTGTTA
1 GCACGGTCGTGTCAATCTTCGTTAGCCTCTCCAACACCCATGTATGCAGGCACACGCCCGTGTTA
* *
54078330 TTTTGATAGGCTCGACCACGATCGGTGG
66 TTTTGACAGGCTCGACCACGATAGGTGG
* * * * * **
54078358 GCACGGTCTTGTCAATCTTCGTTATCCTCTCCCACGCCCGTGTATGCAGGTGCACGCCCGTGTTA
1 GCACGGTCGTGTCAATCTTCGTTAGCCTCTCCAACACCCATGTATGCAGGCACACGCCCGTGTTA
* *
54078423 TTTTGACAGGCTCGACCATGGTAGGTGG
66 TTTTGACAGGCTCGACCACGATAGGTGG
*
54078451 GCATGGTCGTGTCA
1 GCACGGTCGTGTCA
54078465 GACGCCCGTG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.28
Consensus pattern (93 bp):
GCACGGTCGTGTCAATCTTCGTTAGCCTCTCCAACACCCATGTATGCAGGCACACGCCCGTGTTA
TTTTGACAGGCTCGACCACGATAGGTGG
Found at i:54085993 original size:40 final size:40
Alignment explanation
Indices: 54085956--54086139 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
54085946 GCTACTCGTT
*
54085956 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
54085996 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
54086036 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
54086075 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
54086116 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
54086140 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 73 0.61
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:54086067 original size:79 final size:82
Alignment explanation
Indices: 54085956--54086140 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
54085946 GCTACTCGTT
* * *
54085956 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
54086019 GGATTTAGTAAC-TCGCA
65 GAATATAGTAACTTAGCA
* **
54086036 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
54086099 AATATGGTCACTTAGCA
66 AATATAGTAACTTAGCA
54086116 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54086141 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
AATATAGTAACTTAGCA
Found at i:54093459 original size:40 final size:40
Alignment explanation
Indices: 54093256--54093459 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
54093246 CGGAATTTAA
** *
54093256 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54093296 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54093336 CCGAATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54093375 CTGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
54093415 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54093455 CCGGA
1 CCGGA
54093460 CATCATTCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 90 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54099259 original size:43 final size:42
Alignment explanation
Indices: 54099173--54099289 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
54099163 TAGGGTTAGT
* * *
54099173 TGAGATTACGTGTAAGA-CATATCTGGGATATGGCATCGATG
1 TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATG
* *
54099214 TGAGACTT-CTTGTAAGACCATATCTGGGCTATTGGCATCAATG
1 TGAGA-TTCCATGTAAGACCATATCTGGGATA-TGGCATCAATG
* *
54099257 TGAGATTCCATGTAATACCTTATCTGGGATATG
1 TGAGATTCCATGTAAGACCATATCTGGGATATG
54099290 TCATTGGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 13 0.20
42 18 0.28
43 34 0.52
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATG
Found at i:54099857 original size:19 final size:19
Alignment explanation
Indices: 54099833--54099874 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
54099823 CATTGAATGT
*
54099833 TGGCCTATAATGGTTATGA
1 TGGCCTATAATGATTATGA
*
54099852 TGGCCTATAATGATTATGT
1 TGGCCTATAATGATTATGA
54099871 TGGC
1 TGGC
54099875 TATTGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (19 bp):
TGGCCTATAATGATTATGA
Found at i:54103053 original size:27 final size:26
Alignment explanation
Indices: 54103023--54103080 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
54103013 CGACTTGTAA
54103023 AATTACCAAAGTACTCCCAATTTACAG
1 AATTACCAAAGTAC-CCCAATTTACAG
*** *
54103050 AATTACCATTTTACCTCAATTTACAG
1 AATTACCAAAGTACCCCAATTTACAG
54103076 AATTA
1 AATTA
54103081 TCGTTTTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTACCAAAGTACCCCAATTTACAG
Found at i:54103217 original size:27 final size:27
Alignment explanation
Indices: 54103040--54103206 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
54103030 AAAGTACTCC
*
54103040 CAATTTACAGAATTACCATTTTA-CCT
1 CAATTTACAGAATTACCGTTTTACCCT
*
54103066 CAATTTACAGAATTATCGTTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
** * *
54103093 CAATTTTTAAAATTACAGTTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
* *
54103120 CGATTTACAGAATTACCGTTTTATCCT
1 CAATTTACAGAATTACCGTTTTACCCT
* * **
54103147 TAGTTTACAGAATTACTATTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
*
54103174 CGATTTACAGAATTACCGTTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
54103201 CAATTT
1 CAATTT
54103207 GTAAAATTAC
Statistics
Matches: 115, Mismatches: 25, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
26 21 0.18
27 94 0.82
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
CAATTTACAGAATTACCGTTTTACCCT
Found at i:54103229 original size:69 final size:69
Alignment explanation
Indices: 54103150--54103290 Score: 174
Period size: 69 Copynumber: 2.0 Consensus size: 69
54103140 TTATCCTTAG
* * * * *
54103150 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATT
1 TTTACAGAATTACTAGTTTACCCTCGATTTACAAAATTACCATTTTACCATCAATTTATAAAATT
54103215 ACCA
66 ACCA
* * * * * *
54103219 TTTATAGAATTACTGGTTTACCCTCGGTTTACAAAATTATCATTTTACCATCGATTTATAGAATT
1 TTTACAGAATTACTAGTTTACCCTCGATTTACAAAATTACCATTTTACCATCAATTTATAAAATT
*
54103284 ACTA
66 ACCA
54103288 TTT
1 TTT
54103291 TACCCTCAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (69 bp):
TTTACAGAATTACTAGTTTACCCTCGATTTACAAAATTACCATTTTACCATCAATTTATAAAATT
ACCA
Done.