Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 155 of 345
Found at i:52521727 original size:42 final size:44
Alignment explanation
Indices: 52521676--52521792 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 44
52521666 ATGCAATTCA
**
52521676 ATATCGATGCCTCTGTCCCT-GACAGGGTCTTATACG-AAATCAG
1 ATATCGATGCCGATGT-CCTAGACAGGGTCTTATACGTAAATCAG
* **
52521719 ATAT-GATGCCGATGTCCTAGACATGGTCTTATACGTAAATCTC
1 ATATCGATGCCGATGTCCTAGACAGGGTCTTATACGTAAATCAG
* *
52521762 A-ATCGA-GCCCGATGTCCCAGACACGGTCTTA
1 ATATCGATG-CCGATGTCCTAGACAGGGTCTTA
52521793 CACGATATCT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 3 0.05
42 27 0.43
43 33 0.52
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
ATATCGATGCCGATGTCCTAGACAGGGTCTTATACGTAAATCAG
Found at i:52529907 original size:48 final size:47
Alignment explanation
Indices: 52529825--52530008 Score: 224
Period size: 48 Copynumber: 3.9 Consensus size: 47
52529815 CAATTGGGTA
* * *
52529825 ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
52529872 ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTTG
1 A-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
*
52529921 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * **
52529968 GACATGTGAACTAGTGTAAGACCATGTCTGAAACATGGCAT
1 -ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
52530009 TAGCAATTTA
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
47 2 0.02
48 112 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:52529989 original size:96 final size:96
Alignment explanation
Indices: 52529825--52530008 Score: 271
Period size: 96 Copynumber: 1.9 Consensus size: 96
52529815 CAATTGGGTA
* *
52529825 ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTGTA
1 ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATCATGAGAACCAGTGTA
**
52529890 AGACCATGTCTGGGACATGGCATCGACGTTG
66 AGACCATGTCTGAAACATGGCATCGACGTTG
* * * * *
52529921 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAACTAGTGT
1 ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC-ATCATGAGAACCAGTGT
52529985 AAGACCATGTCTGAAACATGGCAT
65 AAGACCATGTCTGAAACATGGCAT
52530009 TAGCAATTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 77 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (96 bp):
ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATCATGAGAACCAGTGTA
AGACCATGTCTGAAACATGGCATCGACGTTG
Found at i:52538118 original size:12 final size:12
Alignment explanation
Indices: 52538101--52538125 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52538091 TGGACAAAAA
52538101 TTGGCTTTTAAT
1 TTGGCTTTTAAT
52538113 TTGGCTTTTAAT
1 TTGGCTTTTAAT
52538125 T
1 T
52538126 CATTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:52540059 original size:89 final size:89
Alignment explanation
Indices: 52539899--52540219 Score: 489
Period size: 89 Copynumber: 3.6 Consensus size: 89
52539889 TAAAATTACA
* * * *
52539899 ATGGTTGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCTATCCCTTTTCATATTTCGATAGT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
* * *
52539964 CATCACCATCCCTTTTCATTGTTG
66 CGTCACCATCCTTTTTCATGGTTG
*
52539988 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGTTATCCCTTTTCATATTTCGATGGT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
52540053 CGTCACCATCCTTTTTCATGGTTG
66 CGTCACCATCCTTTTTCATGGTTG
* * * *
52540077 ATGGTTGTCACCATCCCATTTCATAATTCGATAGCCAAAGCTATCCCTTTCCATAGTTCGATGGT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
*
52540142 CGTCACTATCCTTTTTCATGGTTG
66 CGTCACCATCCTTTTTCATGGTTG
* * * *
52540166 ATGGTCGCCACCATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCAT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCAT
52540220 TGGTTGATGA
Statistics
Matches: 211, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 211 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (89 bp):
ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
CGTCACCATCCTTTTTCATGGTTG
Found at i:52540197 original size:30 final size:30
Alignment explanation
Indices: 52539899--52540190 Score: 211
Period size: 30 Copynumber: 9.8 Consensus size: 30
52539889 TAAAATTACA
* *
52539899 ATGGTTGTCACCATCCCTTTTCATAGTTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* * * *
52539929 ATAG-C-TGAAGCTATCCCTTTTCATATTTCG
1 ATGGTCGT-CA-CCATCCCTTTTCATAGTTCG
* * *
52539959 ATAGTCATCACCATCCCTTTTCATTGTT-G
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* *
52539988 ATGGTTGTCACCATCCCTTTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* * * ** *
52540018 ATAGCCG-AAGTTATCCCTTTTCATATTTCG
1 ATGGTCGTCA-CCATCCCTTTTCATAGTTCG
* *
52540048 ATGGTCGTCACCATCCTTTTTCATGGTT-G
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* * *
52540077 ATGGTTGTCACCATCCCATTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* *** * *
52540107 ATAG-CCAAAGCTATCCCTTTCCATAGTTCG
1 ATGGTCGTCA-CCATCCCTTTTCATAGTTCG
* * *
52540137 ATGGTCGTCACTATCCTTTTTCATGGTT-G
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
*
52540166 ATGGTCGCCACCATCCCTTTTCATA
1 ATGGTCGTCACCATCCCTTTTCATA
52540191 TTTTGATAGC
Statistics
Matches: 197, Mismatches: 55, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
28 1 0.01
29 73 0.37
30 117 0.59
31 5 0.03
32 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (30 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTCG
Found at i:52540451 original size:21 final size:22
Alignment explanation
Indices: 52540427--52540470 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
52540417 ATAAATACAA
* *
52540427 TCAATTTAATCAATATTC-TAT
1 TCAATTCAATCAAAATTCATAT
52540448 TCAATTCAATCAAAATTCATAT
1 TCAATTCAATCAAAATTCATAT
52540470 T
1 T
52540471 TTTGTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (22 bp):
TCAATTCAATCAAAATTCATAT
Found at i:52544285 original size:30 final size:30
Alignment explanation
Indices: 52544249--52544326 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
52544239 TACAATGGTT
52544249 GTCACCATCCCTTTTCATATTTCAATAGCC
1 GTCACCATCCCTTTTCATATTTCAATAGCC
* *
52544279 GTCACCATCCCTTTTCATATTTCAATGGTC
1 GTCACCATCCCTTTTCATATTTCAATAGCC
52544309 GTCACCATCCCTTTTCAT
1 GTCACCATCCCTTTTCAT
52544327 TGTTGATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (30 bp):
GTCACCATCCCTTTTCATATTTCAATAGCC
Found at i:52544384 original size:30 final size:30
Alignment explanation
Indices: 52544345--52544505 Score: 139
Period size: 30 Copynumber: 5.4 Consensus size: 30
52544335 GTCATTGCCG
*
52544345 TCCCTTTTCATAATTCGATAGCAGAAGCTA
1 TCCCTTTTCATAATTCGATAGCTGAAGCTA
* * * * *
52544375 TCCTTTTTCATATTTCGAT-GGTCGTCA-CCA
1 TCCCTTTTCATAATTCGATAGCT-G-AAGCTA
*
52544405 TCCCTTTTCATAATTCGATAGCTGGAGCTA
1 TCCCTTTTCATAATTCGATAGCTGAAGCTA
* * * *
52544435 TCCCTTTTCATAGTTCGATTGTTGTCA-CTA
1 TCCCTTTTCATAATTCGATAGCTG-AAGCTA
* * * *
52544465 TACCTTTTCACAATTAGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCGATAGCTGAAGCTA
52544495 TCCCTTTTCAT
1 TCCCTTTTCAT
52544506 TGGTTGATGA
Statistics
Matches: 100, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
29 3 0.03
30 93 0.93
31 4 0.04
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (30 bp):
TCCCTTTTCATAATTCGATAGCTGAAGCTA
Found at i:52544415 original size:60 final size:60
Alignment explanation
Indices: 52544255--52544505 Score: 238
Period size: 60 Copynumber: 4.2 Consensus size: 60
52544245 GGTTGTCACC
* * * * * * * * *
52544255 ATCCCTTTTCATATTTCAATAGCCGTCACCATCCCTTTTCATATTTCAATGGTC-GTCA-CC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAATTCGATAG-CAG-AAGCT
* * ** *
52544315 ATCCCTTTTCATTGTT-GATGGTCATTGCCGTCCCTTTTCATAATTCGATAGCAGAAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAATTCGATAGCAGAAGCT
* * * *
52544374 ATCCTTTTTCATATTTCGATGGTCGTCACCATCCCTTTTCATAATTCGATAGCTGGAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAATTCGATAGCAGAAGCT
* * * * * * *
52544434 ATCCCTTTTCATAGTTCGATTGTTGTCACTATACCTTTTCACAATTAGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAATTCGATAGCAGAAGCT
52544494 ATCCCTTTTCAT
1 ATCCCTTTTCAT
52544506 TGGTTGATGA
Statistics
Matches: 155, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
58 2 0.01
59 40 0.26
60 113 0.73
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (60 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAATTCGATAGCAGAAGCT
Found at i:52544763 original size:21 final size:19
Alignment explanation
Indices: 52544717--52544764 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
52544707 CTAAATGAAT
*
52544717 AAATTCAATCAATTTAATC
1 AAATTCAATCAATTCAATC
*
52544736 AATATTCTATTCAATTCAATCC
1 AA-ATTC-AATCAATTCAAT-C
52544758 AAATTCA
1 AAATTCA
52544765 CATTTTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 14 0.58
22 3 0.12
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTCAATCAATTCAATC
Found at i:52548699 original size:17 final size:17
Alignment explanation
Indices: 52548673--52548710 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
52548663 AAGTGAGGTT
52548673 AATT-TAGTAATTAATA
1 AATTATAGTAATTAATA
52548689 AATTATAGTAATTAATA
1 AATTATAGTAATTAATA
52548706 AATTA
1 AATTA
52548711 ACTTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTATAGTAATTAATA
Found at i:52552826 original size:41 final size:42
Alignment explanation
Indices: 52552738--52552882 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 42
52552728 GTTAGACCAC
* *
52552738 GTCTGGGATGTTGGCATCG-ACTTATGATTTACGTGTAAGACCAT
1 GTCTGGGACGTTGGCATCGTA-TT-TGA-TTACGTGTAAGACCCT
52552782 GTCTGGGACGTTGGCATCGTATTTGATT-CGTGTAAGACCCT
1 GTCTGGGACGTTGGCATCGTATTTGATTACGTGTAAGACCCT
*
52552823 GTCTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACCAC-
1 GTCTGGGAC-GTTGGCATCG-TATTTGATTACGTGTAAGACC-CT
*
52552866 GTCTGGGATGTTGGCAT
1 GTCTGGGACGTTGGCAT
52552883 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
41 29 0.32
42 13 0.14
43 27 0.30
44 21 0.23
45 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (42 bp):
GTCTGGGACGTTGGCATCGTATTTGATTACGTGTAAGACCCT
Found at i:52564636 original size:25 final size:24
Alignment explanation
Indices: 52564603--52564650 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
52564593 TTATAACATG
* * *
52564603 AAAAAGACCGTTTTGCCCCTAGGT
1 AAAAAGACCATTATACCCCTAGGT
52564627 AAAAATGACCATTATACCCCTAGG
1 AAAAA-GACCATTATACCCCTAGG
52564651 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (24 bp):
AAAAAGACCATTATACCCCTAGGT
Found at i:52564753 original size:20 final size:20
Alignment explanation
Indices: 52564687--52564753 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
52564677 ATTTTGATAA
* *
52564687 ACATGGTATGTATAATATGC
1 ACATGATATGTATGATATGC
*
52564707 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
52564727 ACATGATATGTATGATAGGC
1 ACATGATATGTATGATATGC
52564747 ACATGAT
1 ACATGAT
52564754 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52564830 original size:24 final size:24
Alignment explanation
Indices: 52564803--52564884 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
52564793 GAGGAAGTGC
52564803 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
52564827 AAAAGGGCTTATGCTCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
52564851 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
52564875 AAAAGAGGCT
1 AAAAG-GGCT
52564885 AGGCCTCCGG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 50 0.93
25 4 0.07
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:52564897 original size:25 final size:25
Alignment explanation
Indices: 52564803--52564898 Score: 128
Period size: 24 Copynumber: 4.0 Consensus size: 25
52564793 GAGGAAGTGC
52564803 AAAAGGGCTTATGCC-CCAGTTATT
1 AAAAGGGCTTATGCCTCCAGTTATT
52564827 AAAAGGGCTTATG-CTCCAGTTATT
1 AAAAGGGCTTATGCCTCCAGTTATT
*
52564851 AAAAGGGCTTTTGCC-CCAGTTATT
1 AAAAGGGCTTATGCCTCCAGTTATT
* *
52564875 AAAAGAGGC-TAGGCCTCCGGTTAT
1 AAAAG-GGCTTATGCCTCCAGTTAT
52564899 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
23 1 0.02
24 52 0.81
25 11 0.17
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTATGCCTCCAGTTATT
Found at i:52567933 original size:40 final size:40
Alignment explanation
Indices: 52567856--52568074 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
52567846 AAACCAAGTA
* *
52567856 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
52567895 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52567935 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52567975 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
52568015 CCTTCGGGGGCTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
52568056 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52568075 TTATCATCCG
Statistics
Matches: 164, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
39 14 0.09
40 116 0.71
41 34 0.21
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52574875 original size:25 final size:24
Alignment explanation
Indices: 52574842--52574889 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
52574832 TTATAACATG
* *
52574842 AAAAAGACCATTTTGCCCCTAGGT
1 AAAAAGACCATTATACCCCTAGGT
52574866 AAAAATGACCATTATACCCCTAGG
1 AAAAA-GACCATTATACCCCTAGG
52574890 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (24 bp):
AAAAAGACCATTATACCCCTAGGT
Found at i:52574955 original size:20 final size:20
Alignment explanation
Indices: 52574926--52574972 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
52574916 ATTTTGATAA
* *
52574926 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATAGGC
52574946 ACATGATATGTATGATAGGC
1 ACATGATATGTATGATAGGC
52574966 ACATGAT
1 ACATGAT
52574973 GTATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATAGGC
Found at i:52575050 original size:24 final size:24
Alignment explanation
Indices: 52575023--52575154 Score: 201
Period size: 24 Copynumber: 5.4 Consensus size: 24
52575013 GAGGAAGTGC
52575023 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
52575047 AAAAAAGGGCTTATGCCCTAGTTATC
1 --AAAAGGGCTTATGCCCCAGTTATT
52575073 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
52575097 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
52575121 AAAAGGGTTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
52575145 AAAAGAGGCT
1 AAAAG-GGCT
52575155 GGGCCTCCAG
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 73 0.74
25 3 0.03
26 22 0.22
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:52582990 original size:33 final size:34
Alignment explanation
Indices: 52582943--52583009 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
52582933 GTTTCAATTA
*
52582943 GGATTTAGCATGGACT-AGTAATCCTAATT-GACT
1 GGATTTAGCATGGACTGA-TAATCCAAATTAGACT
*
52582976 GGATTTAGCCTGGACTGATAATCCAAATTAGACT
1 GGATTTAGCATGGACTGATAATCCAAATTAGACT
52583010 CTGTAGGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (34 bp):
GGATTTAGCATGGACTGATAATCCAAATTAGACT
Found at i:52585478 original size:11 final size:11
Alignment explanation
Indices: 52585462--52585492 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
52585452 GCCAGTTTTC
52585462 AATAACACAAA
1 AATAACACAAA
52585473 AATAACACAAA
1 AATAACACAAA
52585484 AATAACACA
1 AATAACACA
52585493 TTTGATTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.71, C:0.19, G:0.00, T:0.10
Consensus pattern (11 bp):
AATAACACAAA
Found at i:52586010 original size:46 final size:45
Alignment explanation
Indices: 52585916--52586133 Score: 210
Period size: 46 Copynumber: 4.7 Consensus size: 45
52585906 ATATCTGTGT
* * *
52585916 CGATGCCATGTCCCAGACATGGTCTTTCACT-GAC-ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTCGTCTCG-AGGC
* *
52585962 CGATGCTTGTCCCAGACATTTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-CGTCTCGAGGC
* * *
52586008 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTCGTCTCGAGGC
* * * *
52586054 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCGT-CTCGAGGC
*
52586101 TGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
52586134 CACATGAGTG
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
44 9 0.06
45 28 0.19
46 71 0.49
47 24 0.17
48 13 0.09
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTCGTCTCGAGGC
Found at i:52586106 original size:93 final size:93
Alignment explanation
Indices: 52585870--52586138 Score: 255
Period size: 93 Copynumber: 2.9 Consensus size: 93
52585860 AGACATCGAC
* ** * *
52585870 GCCATGTCCCAGACATGGTCTTACACAAGTTTTAATATATCTGTG-TCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACAC-TGGCTTCATA-ATGTG-GCT-GATG-CATGTCCCAGAC
* *
52585934 ATGGTCTTTCACT-G-ACACATCTCGTAGCCGAT
61 AT-GTCTTACACTAGCACACATCTCATAGCCGAT
* * * * * * *
52585966 G-CTTGTCCCAGACAT-TTCTTACACTAGCTTACGT-CTCGAGGCCGATGCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTT-CATAAT-GTGGCTGATGCATGTCCCAGACATG
* *
52586028 TCTTACACTAGCACTCGTCTCA-ATGCCGAT
64 TCTTACACTAGCACACATCTCATA-GCCGAT
52586058 GCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATGTGGCTGATGCATGTCCCAGACATGTC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATGTGGCTGATGCATGTCCCAGACATGTC
*
52586123 TTACACTAGCTCACAT
66 TTACACTAGCACACAT
52586139 GAGTGACCCA
Statistics
Matches: 138, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
90 9 0.07
91 16 0.12
92 20 0.14
93 56 0.41
94 23 0.17
95 13 0.09
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATGTGGCTGATGCATGTCCCAGACATGTC
TTACACTAGCACACATCTCATAGCCGAT
Found at i:52592831 original size:39 final size:39
Alignment explanation
Indices: 52592773--52592911 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
52592763 TTGTGATCTG
* *
52592773 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
52592812 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC-A
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
*
52592850 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGA
1 -AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
52592890 AAGCCCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
52592912 TTATCAGAGC
Statistics
Matches: 95, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 93 0.98
40 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
Found at i:52599463 original size:46 final size:46
Alignment explanation
Indices: 52599413--52599504 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
52599403 GCTTACACTA
*
52599413 GCACTCATCTCAATACCGATGCCATGTCCCAGACATGGTCTTACGC
1 GCACTCATCTCAATACCGATACCATGTCCCAGACATGGTCTTACGC
* *
52599459 GCACTCGTCTCAATGCCGATACCATGTCCCAGACATGGTCTTACGC
1 GCACTCATCTCAATACCGATACCATGTCCCAGACATGGTCTTACGC
52599505 TGGCTCTCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (46 bp):
GCACTCATCTCAATACCGATACCATGTCCCAGACATGGTCTTACGC
Found at i:52601386 original size:38 final size:38
Alignment explanation
Indices: 52601344--52601419 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52601334 GCATAGTCCA
52601344 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
1 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
52601382 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
1 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
52601420 GGCAAGTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (38 bp):
AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
Found at i:52602022 original size:22 final size:21
Alignment explanation
Indices: 52601972--52602025 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
52601962 TTTCAAAATA
52601972 TCAAGT-TTGACGTCGTGACG
1 TCAAGTCTTGACGTCGTGACG
**
52601992 TCACCTCTTGCACGTCGTGACG
1 TCAAGTCTTG-ACGTCGTGACG
52602014 TCAAGTCTTGAC
1 TCAAGTCTTGAC
52602026 CTCAGGCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 19 0.68
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.30
Consensus pattern (21 bp):
TCAAGTCTTGACGTCGTGACG
Found at i:52603196 original size:410 final size:410
Alignment explanation
Indices: 52602312--52603535 Score: 1265
Period size: 410 Copynumber: 3.0 Consensus size: 410
52602302 GGGTATGTTC
* * * *
52602312 AGTGTACTAACAATATAGGTAGTCATGGTTGATGGTAGAGATAGTTGTGGAGAACATGTACTCAA
1 AGTGTACTAGCAATATAGGTAGTCATGGTTGATGGTAGAGATGGTTGTTGAGAACTTGTACTC-A
* * * * * * * *
52602377 AATATTTCGGGAGTGATCATATGAAAACTAGTTGTTGCTAGAAGTATCTCAGAAAAAAAAAACAT
65 AATATTT-GGTAATGATCATATGGAAACCAGTTGTTGTTGGAAGTATCTCAG-AAAAACATACA-
* * * * * *
52602442 ATCGACTAGTTGGAGTTGAGATTCTTTGTAGGTTCGTCTTTTCAAAACTTGTCCCCATGCAGGAT
127 A---ATTAGTTGGAGTTGAGATTCTTGGTAGGTTGGTCTTTT-GAAACTTGTCACCATGTAGGAT
* * * * * * * *
52602507 AATGTTAGGGCTAAAACTCTTTCTCAAAAGGTTGGGAGGAGTCATCATAAGTGGTTGGGTTGACT
188 AATGTTTGGGCT-AAACTCTCTATCAAAAGGTTAGGAGGAGCCATCGTAAGTGGTTGGGCTAACT
* * **
52602572 CAAGAATAGAGGTGTTAGCAATTGTAAAGTTAGGTTGAATTGAGGGAGAATCC-ATGGCTTTTAG
252 CAAGAACAGGGGTGTTAGCAATTGTAAAGTTAGGTTGAATCAAGGGAGAA-CCTATGGCTTTTAG
* * * * ** * *** * * *
52602636 TTCAGTATTCTCCCAGATTGTGCCAATTGTTAATGTCTCTTTCACTGGGCTCGGAGATTGGTTGA
316 TTTAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGA
52602701 GCTAAACTTTATAGCCAGAAAATCTACCAA
381 GCTAAACTTTATAGCCAGAAAATCTACCAA
* * * *
52602731 AGTGTACTAGTAATATGGGTAGTCATGGTTGATGGTAGATATGATTG-TGAGAACTTGTACTC-A
1 AGTGTACTAGCAATATAGGTAGTCATGGTTGATGGTAGAGATGGTTGTTGAGAACTTGTACTCAA
* * *
52602794 ATATTTGGTAATGATCATATGGCAACCAATTGTTGTTGGAAGTATGTCAGAAAAACATACAAATT
66 ATATTTGGTAATGATCATATGGAAACCAGTTGTTGTTGGAAGTATCTCAGAAAAACATACAAATT
* * * * * *
52602859 AGTTGGAGTTGATATTCTTGGTGGGTTGGTCTTTCTGGACCTTGTCACCACGTAGGAAAATGTTT
131 AGTTGGAGTTGAGATTCTTGGTAGGTTGGTCTTT-TGAAACTTGTCACCATGTAGGATAATGTTT
* *
52602924 GGGCTCAAACTCTCAATCAAAAGGTTAAGAGGAGCCATCGTAAGTGGTTGGGCTAACTCAAGAAC
195 GGGCT-AAACTCTCTATCAAAAGGTTAGGAGGAGCCATCGTAAGTGGTTGGGCTAACTCAAGAAC
* * **
52602989 AGGGGCGTTAGCAATTGTAAAGTTAGCTTGAATCAAGGGAGAACCTATAACTTTTAGTTTAATAT
259 AGGGGTGTTAGCAATTGTAAAGTTAGGTTGAATCAAGGGAGAACCTATGGCTTTTAGTTTAATAT
* * * *
52603054 TCTCATAAACAGTGCCACTTGTTGATGTCTCTTTTGTTGGGCTTGAAGACTAGTTGAGCTACACT
324 TCTCACAAACAGTGCCAATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCTAAACT
*
52603119 TTATAGCC-GAACAATCT-GCAA
389 TTATAGCCAGAA-AATCTACCAA
* * * *
52603140 AGTGTTCTAGCAATATAGATAGTCATGGTTGATGGTAGAGATGGTTGTTAAGAACTTGTATTCAA
1 AGTGTACTAGCAATATAGGTAGTCATGGTTGATGGTAGAGATGGTTGTTGAGAACTTGTACTC-A
* * ** * * * ***
52603205 AATATTTTGGTAATGATCGTATGGAAACCGGTTACTATTGAAAGTATCT-AAAAAAACATATTGA
65 AATA-TTTGGTAATGATCATATGGAAACCAGTTGTTGTTGGAAGTATCTCAGAAAAACATACAAA
* * * * *
52603269 TTGGTTGGAGCTGAGATTCTTGGTAAGTTGGTCTTTTTGAAACTTGTAACCATGTGGGATAATGT
129 TTAGTTGGAGTTGAGATTCTTGGTAGGTTGGTC-TTTTGAAACTTGTCACCATGTAGGATAATGT
* * * * * * *
52603334 TTGGGCTAGTACTCTCTATCAAAACG-TAGGGAGGAGCTATCGTAAGTAGATGGGCTAATTAAAG
193 TTGGGCTA-AACTCTCTATCAAAAGGTTA-GGAGGAGCCATCGTAAGTGGTTGGGCTAACTCAAG
* * *** * * * * **
52603398 AACAAGGGTGTCAATTACTATAAAGTTAGGTTAAATCGAGAGAGAGAATATATGGCTTTTAGTTT
256 AACAGGGGTGTTAGCAATTGTAAAGTTAGGTTGAATC-A-AGGGAGAACCTATGGCTTTTAGTTT
* *
52603463 AATATTCTCACAAACAGTGCCAATTGTTGATATCTCTTTTGTTGGGCTTGGATACTAGTTGAGCT
319 AATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCT
52603528 AAACTTTA
384 AAACTTTA
52603536 AGATACTATT
Statistics
Matches: 663, Mismatches: 130, Indels: 29
0.81 0.16 0.04
Matches are distributed among these distances:
409 49 0.07
410 236 0.36
411 4 0.01
412 142 0.21
413 40 0.06
414 96 0.14
415 35 0.05
416 7 0.01
418 13 0.02
419 41 0.06
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (410 bp):
AGTGTACTAGCAATATAGGTAGTCATGGTTGATGGTAGAGATGGTTGTTGAGAACTTGTACTCAA
ATATTTGGTAATGATCATATGGAAACCAGTTGTTGTTGGAAGTATCTCAGAAAAACATACAAATT
AGTTGGAGTTGAGATTCTTGGTAGGTTGGTCTTTTGAAACTTGTCACCATGTAGGATAATGTTTG
GGCTAAACTCTCTATCAAAAGGTTAGGAGGAGCCATCGTAAGTGGTTGGGCTAACTCAAGAACAG
GGGTGTTAGCAATTGTAAAGTTAGGTTGAATCAAGGGAGAACCTATGGCTTTTAGTTTAATATTC
TCACAAACAGTGCCAATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCTAAACTTT
ATAGCCAGAAAATCTACCAA
Found at i:52604437 original size:44 final size:44
Alignment explanation
Indices: 52604383--52604472 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
52604373 ATTTAAGTAA
* * * * *
52604383 AATAGAAGTTGTGATAATTATACATTTACAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
52604427 AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
1 AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
52604471 AA
1 AA
52604473 ATTCAAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
Found at i:52605273 original size:5 final size:6
Alignment explanation
Indices: 52605260--52605312 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
52605250 ATAATTTAAT
*
52605260 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
52605310 AAA
1 AAA
52605313 ACAAATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:52612695 original size:2 final size:2
Alignment explanation
Indices: 52612688--52612720 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
52612678 AACACAGCTT
*
52612688 GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
52612721 GTAGAGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52614602 original size:19 final size:19
Alignment explanation
Indices: 52614578--52614618 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
52614568 TAACATAATA
* *
52614578 TATATAAATATATTTTTAT
1 TATATAAATACATATTTAT
*
52614597 TATATAATTACATATTTAT
1 TATATAAATACATATTTAT
52614616 TAT
1 TAT
52614619 TTTATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAAATACATATTTAT
Found at i:52614652 original size:93 final size:94
Alignment explanation
Indices: 52614474--52614656 Score: 284
Period size: 93 Copynumber: 2.0 Consensus size: 94
52614464 ATATTTAACA
52614474 TAACGATAAATATAAAAATATTTTTTATTATATAATTACATATTTATATGAATTTATTTATATAA
1 TAACGATAAATATAAAAATATTTTTTATTATATAATTACATATTTATATGAATTTATTTATATAA
52614539 ATAAATAAGTTACTAATTAAAAATATTTT
66 ATAAATAAGTTACTAATTAAAAATATTTT
* *
52614568 TAAC-ATAATATATATAAATATATTTTTATTATATAATTACATATTTAT-T-ATTTTATTTATAT
1 TAACGATAA-ATATAAAAATAT-TTTTTATTATATAATTACATATTTATATGAATTTATTTATAT
*
52614630 AAATAAAATAA-TTATTAATTAAAAATA
64 AAAT-AAATAAGTTACTAATTAAAAATA
52614657 AAAAACTTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
93 35 0.42
94 22 0.27
95 26 0.31
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (94 bp):
TAACGATAAATATAAAAATATTTTTTATTATATAATTACATATTTATATGAATTTATTTATATAA
ATAAATAAGTTACTAATTAAAAATATTTT
Found at i:52614713 original size:14 final size:13
Alignment explanation
Indices: 52614680--52614718 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
52614670 CAAAATGTTT
52614680 ATTAATTAAAAAC
1 ATTAATTAAAAAC
*
52614693 ATTAATTAAAAAT
1 ATTAATTAAAAAC
*
52614706 TTTAAATTAAAAA
1 ATT-AATTAAAAA
52614719 AACTTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:52620323 original size:39 final size:39
Alignment explanation
Indices: 52620280--52620421 Score: 178
Period size: 39 Copynumber: 3.6 Consensus size: 39
52620270 AAACATATTC
* * * * *
52620280 ACCTTTAAGCATATACCATATTACACATATAATCACATA
1 ACCTTCAAGCATATATCACAATACTCATATAATCACATA
* * *
52620319 ACCTTTAAGGATATATCACAATACTCATATAATCGCAT-
1 ACCTTCAAGCATATATCACAATACTCATATAATCACATA
*
52620357 ACCATTCAAGCATATATTACAATACTCATATAATCACATA
1 ACC-TTCAAGCATATATCACAATACTCATATAATCACATA
*
52620397 ACATTCAAGCATATATCACAATACT
1 ACCTTCAAGCATATATCACAATACT
52620422 AAAAAACATG
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 3 0.03
39 84 0.94
40 2 0.02
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (39 bp):
ACCTTCAAGCATATATCACAATACTCATATAATCACATA
Found at i:52624917 original size:48 final size:48
Alignment explanation
Indices: 52624831--52625059 Score: 228
Period size: 48 Copynumber: 4.8 Consensus size: 48
52624821 AAAGGTGGCA
* * * *
52624831 ATGCCATGTCCCAGACATGGTCTTATACGGGA-CATCATATCGATGCCA
1 ATGCCATATCCCAGATATGGTCTTACACGGGATC-TCATATCGATGCCG
* *
52624879 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATA-CTGATGTCG
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATC-GATGCCG
* * ** * * * *
52624927 ATGCCATGTCCTAGACGTGATCTTATACTGGATCTCTTATCGATGCCG
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGATGCCG
* * *
52624975 ATGCCATATCCCAGATATGGTCTTACACAGGATCTCATCTCGATGTCG
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGATGCCG
** * * *
52625023 ATGCCATATCTTAGATATTGTCTTATACGAGATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCA
52625060 ATACTCACAA
Statistics
Matches: 146, Mismatches: 32, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 143 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (48 bp):
ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGATGCCG
Found at i:52624932 original size:96 final size:96
Alignment explanation
Indices: 52624831--52625029 Score: 294
Period size: 96 Copynumber: 2.1 Consensus size: 96
52624821 AAAGGTGGCA
*
52624831 ATGCCATGTCCCAGACATGGTCTTATACGGGA-CATCATATCGATGCCAATGCCATATCCCAGAT
1 ATGCCATGTCCCAGACATGATCTTATACGGGATC-TCATATCGATGCCAATGCCATATCCCAGAT
**
52624895 ATGGTCTTACATGGGATCTCATACT-GATGTCG
65 ATGGTCTTACACAGGATCTCAT-CTCGATGTCG
* * * * *
52624927 ATGCCATGTCCTAGACGTGATCTTATACTGGATCTCTTATCGATGCCGATGCCATATCCCAGATA
1 ATGCCATGTCCCAGACATGATCTTATACGGGATCTCATATCGATGCCAATGCCATATCCCAGATA
52624992 TGGTCTTACACAGGATCTCATCTCGATGTCG
66 TGGTCTTACACAGGATCTCATCTCGATGTCG
52625023 ATGCCAT
1 ATGCCAT
52625030 ATCTTAGATA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
95 2 0.02
96 90 0.97
97 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGATCTTATACGGGATCTCATATCGATGCCAATGCCATATCCCAGATA
TGGTCTTACACAGGATCTCATCTCGATGTCG
Found at i:52625047 original size:96 final size:94
Alignment explanation
Indices: 52624850--52625059 Score: 271
Period size: 96 Copynumber: 2.2 Consensus size: 94
52624840 CCCAGACATG
**
52624850 GTCTTATACGGGA-CATCATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 GTCTTATAC-GGATC-TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTACACAGGATCT
* *
52624914 CATACTGATGTCGATGCCATGTCCTAGACGT
64 CATACTGATGTCGATGCCATATCCTAGAAGT
* *
52624945 GATCTTATACTGGATCTCTTATCGATGCCGATGCCATATCCCAGATATGGTCTTACACAGGATCT
1 G-TCTTATAC-GGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTACACAGGATCT
* *
52625010 CAT-CTCGATGTCGATGCCATATCTTAGATATT
64 CATACT-GATGTCGATGCCATATCCTAGA-AGT
52625042 GTCTTATACGAGATCTCA
1 GTCTTATACG-GATCTCA
52625060 ATACTCACAA
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
95 4 0.04
96 93 0.93
97 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (94 bp):
GTCTTATACGGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTACACAGGATCTCA
TACTGATGTCGATGCCATATCCTAGAAGT
Found at i:52634973 original size:41 final size:41
Alignment explanation
Indices: 52634927--52635021 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
52634917 TTAACAGGCT
*
52634927 TGCTCACATAAGCAGTCAGTCAAGACGT-AGCTACTCGGTCC
1 TGCTCACACAAGCAGTCAGTCAAGACGTGA-CTACTCGGTCC
* * *
52634968 TGCTCACACAAGCTGTCAGTTAAGACGTGACTACTCGGTGC
1 TGCTCACACAAGCAGTCAGTCAAGACGTGACTACTCGGTCC
* *
52635009 TACTCATACAAGC
1 TGCTCACACAAGC
52635022 TATCAAGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 46 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
TGCTCACACAAGCAGTCAGTCAAGACGTGACTACTCGGTCC
Found at i:52638528 original size:24 final size:24
Alignment explanation
Indices: 52638496--52638543 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
52638486 TACAACCATC
52638496 TCGTGATTGATCTTTGGGAATACT
1 TCGTGATTGATCTTTGGGAATACT
52638520 TCGTGATTGATCTTTGGGAATACT
1 TCGTGATTGATCTTTGGGAATACT
52638544 CTTACATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (24 bp):
TCGTGATTGATCTTTGGGAATACT
Found at i:52638732 original size:50 final size:50
Alignment explanation
Indices: 52638674--52638775 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
52638664 ATTTAATGCC
*
52638674 TATGTTTATTTTCAGGAAGTTAGGAATTGGGAAGGCGAGACCCACAACAG
1 TATGTTTATTTTCAGGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
*
52638724 TATGTTTATTTTTAGGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
1 TATGTTTATTTTCAGGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
52638774 TA
1 TA
52638776 ATGCTGTAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (50 bp):
TATGTTTATTTTCAGGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
Found at i:52652348 original size:13 final size:13
Alignment explanation
Indices: 52652330--52652355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52652320 AGCCTGGCAA
52652330 CCACGTCACACGG
1 CCACGTCACACGG
52652343 CCACGTCACACGG
1 CCACGTCACACGG
52652356 GCGTGTCCCT
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:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (13 bp):
CCACGTCACACGG
Found at i:52660227 original size:23 final size:24
Alignment explanation
Indices: 52660166--52660231 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
52660156 TACTGATATA
* * *
52660166 TCAGCTTGTAAGAGCTTACTATTT
1 TCAGCTCGTATGAGCTTACCATTT
52660190 TCAGCTC--ACTGGAGCTTACCA-TT
1 TCAGCTCGTA-T-GAGCTTACCATTT
52660213 TCAGCTCGTATGAGCTTAC
1 TCAGCTCGTATGAGCTTAC
52660232 TGTTCAGCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 1 0.03
23 17 0.49
24 16 0.46
25 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (24 bp):
TCAGCTCGTATGAGCTTACCATTT
Found at i:52665959 original size:45 final size:45
Alignment explanation
Indices: 52665909--52666070 Score: 155
Period size: 45 Copynumber: 3.5 Consensus size: 45
52665899 ATTGACGGTT
52665909 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
* * * * * *
52665954 AAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCATTGGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AGG-C
* ** ** *
52666001 AAAGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGAC
1 AAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGGC
52666049 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
52666071 ATTGGAACAT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
45 37 0.41
46 2 0.02
47 31 0.34
48 18 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (45 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
Found at i:52677200 original size:53 final size:54
Alignment explanation
Indices: 52676992--52677188 Score: 220
Period size: 54 Copynumber: 3.6 Consensus size: 54
52676982 TTGGTAAGAT
* * * *
52676992 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
52677046 AAGGAAATCATGTAAGACCATGTCAAGACAAT-GTATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGAC-ATGGCATTGATGAGTT-CTATAAGGC
* * * *
52677101 AAATG-TCCCATGTAAAACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
52677154 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
52677189 ATGGTACGTT
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 3 0.03
53 33 0.28
54 40 0.34
55 40 0.34
56 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:52682787 original size:29 final size:29
Alignment explanation
Indices: 52682746--52682824 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
52682736 AATGAGATCG
* * *
52682746 CACACTTACTGCTTGATAGTTTTACTTCA
1 CACACTTAGTGCTCGATAATTTTACTTCA
*
52682775 CACACTTAGTGCTCGATAATTTTACTTCG
1 CACACTTAGTGCTCGATAATTTTACTTCA
52682804 CACACTTAGTGCTCGATAATT
1 CACACTTAGTGCTCGATAATT
52682825 CACATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (29 bp):
CACACTTAGTGCTCGATAATTTTACTTCA
Found at i:52697605 original size:47 final size:47
Alignment explanation
Indices: 52697536--52697630 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
52697526 AGATAGTGTG
*
52697536 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTTTGATAATCTGT
1 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
*
52697583 ATAGATCTTTAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
1 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
52697630 A
1 A
52697631 AAGCAAAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (47 bp):
ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
Found at i:52704610 original size:32 final size:31
Alignment explanation
Indices: 52704556--52704616 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
52704546 AACCTTAATG
**
52704556 TCATCCTTTACTTTGTTGTTTTTCATTCTTT
1 TCATCCTTTACTTTGTCATTTTTCATTCTTT
*
52704587 TCATTCTTGTACTTTGTCATTTTTCATTCT
1 TCATCCTT-TACTTTGTCATTTTTCATTCT
52704617 GTGCAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.11, C:0.20, G:0.07, T:0.62
Consensus pattern (31 bp):
TCATCCTTTACTTTGTCATTTTTCATTCTTT
Found at i:52709738 original size:42 final size:42
Alignment explanation
Indices: 52709657--52709738 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
52709647 CGTACAAGAG
* * *
52709657 ACACACGGCCAGACAACACGCCCATGGGGCTAGCTGTGTGTC
1 ACACACGGCCAGACAACAAGCCCATGGGGCTACCCGTGTGTC
* *
52709699 ACACACGGCCTAGAC-ACAAGCCCATGTGTCTACCCGTGTG
1 ACACACGGCC-AGACAACAAGCCCATGGGGCTACCCGTGTG
52709739 GATAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 30 0.88
43 4 0.12
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (42 bp):
ACACACGGCCAGACAACAAGCCCATGGGGCTACCCGTGTGTC
Found at i:52710000 original size:25 final size:25
Alignment explanation
Indices: 52709972--52710021 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52709962 AAAATGAGTC
52709972 AAATGCTAAAACAAGCCAACACCTT
1 AAATGCTAAAACAAGCCAACACCTT
52709997 AAATGCTAAAACAAGCCAACACCTT
1 AAATGCTAAAACAAGCCAACACCTT
52710022 TGGCCCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (25 bp):
AAATGCTAAAACAAGCCAACACCTT
Found at i:52711122 original size:37 final size:37
Alignment explanation
Indices: 52711072--52711144 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
52711062 AAATTAGCTC
52711072 ATTTAATACACAAATCATTCAATTCAACTTAAGACTT
1 ATTTAATACACAAATCATTCAATTCAACTTAAGACTT
52711109 ATTTAATACACAAATCATTCAATTCAACTTAAGACT
1 ATTTAATACACAAATCATTCAATTCAACTTAAGACT
52711145 CATACTTTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (37 bp):
ATTTAATACACAAATCATTCAATTCAACTTAAGACTT
Found at i:52713710 original size:52 final size:50
Alignment explanation
Indices: 52713588--52713819 Score: 221
Period size: 52 Copynumber: 4.6 Consensus size: 50
52713578 ATCGGGTATG
* * **
52713588 CATAATAGCCTGCACTTAGTACTACACATGCGACCTAACCATTTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATTTGAAACA
** * *
52713638 TGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACCATTTGAAACA
* * * * * * **
52713690 CATAGTAGCCTTCACATAGTACTGCACATGCGACCTAATCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATTTGAAACA
* * * *
52713740 CGTAGTAGCCTGCAGTTAGTACTACACACGGGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACCATTTGAAACA
* * *
52713792 CATACTAGCCTGCACATAGTAATACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
52713820 TGTGTTCTCA
Statistics
Matches: 141, Mismatches: 37, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
50 69 0.49
52 72 0.51
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATTTGAAACA
Found at i:52713724 original size:102 final size:102
Alignment explanation
Indices: 52713588--52713821 Score: 369
Period size: 102 Copynumber: 2.3 Consensus size: 102
52713578 ATCGGGTATG
* * *
52713588 CATAATAGCCTGCACTTAGTACTACACATGCGACCTAACCATTTGGTACATGTAGTAGCCTGCAC
1 CATAATAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCAC
*
52713653 TTAGTACTACACACGTGACCTAAAACCATTTTAAACA
66 TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
* * * * *
52713690 CATAGTAGCCTTCACATAGTACTGCACATGCGACCTAATCATCTGGTACACGTAGTAGCCTGCAG
1 CATAATAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCAC
52713755 TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
66 TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
* *
52713792 CATACTAGCCTGCACATAGTAATACACATG
1 CATAATAGCCTGCACATAGTACTACACATG
52713822 TGTTCTCACA
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 119 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (102 bp):
CATAATAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
Found at i:52715746 original size:20 final size:20
Alignment explanation
Indices: 52715721--52715762 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
52715711 ACTTTGGACC
52715721 AAATGGTATTGATGCTTGGT
1 AAATGGTATTGATGCTTGGT
52715741 AAATGGTATTGATGCTTGGT
1 AAATGGTATTGATGCTTGGT
52715761 AA
1 AA
52715763 TCTTGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (20 bp):
AAATGGTATTGATGCTTGGT
Found at i:52719028 original size:31 final size:31
Alignment explanation
Indices: 52718986--52719049 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52718976 CCTTTTCATA
52718986 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
* **
52719017 TTTCATCTTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
52719048 TT
1 TT
52719050 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:52719294 original size:24 final size:24
Alignment explanation
Indices: 52719243--52719360 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
52719233 ACTTTATCGT
*
52719243 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
52719268 ATAACTGGGGAAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52719292 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52719315 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52719338 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52719361 GCAATTCCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 45 0.53
24 28 0.33
25 12 0.14
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:52719435 original size:20 final size:20
Alignment explanation
Indices: 52719410--52719476 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
52719400 TTATGAATAC
52719410 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
52719430 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52719450 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52719470 ACCATGT
1 ATCATGT
52719477 TTACTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52719441 original size:11 final size:11
Alignment explanation
Indices: 52719410--52719465 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52719400 TTATGAATAC
52719410 ATCATGTGCAT
1 ATCATGTGCAT
*
52719421 ATCA--TACAT
1 ATCATGTGCAT
52719430 ATCATGTGCAT
1 ATCATGTGCAT
*
52719441 ATCA--TACAT
1 ATCATGTGCAT
*
52719450 GTCATGTGCAT
1 ATCATGTGCAT
52719461 ATCAT
1 ATCAT
52719466 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:52727804 original size:47 final size:47
Alignment explanation
Indices: 52727753--52727899 Score: 240
Period size: 47 Copynumber: 3.1 Consensus size: 47
52727743 TTAGGATTTT
52727753 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
52727800 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
52727847 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
52727894 ATGTGA
1 ATGTGA
52727900 AATACGTATG
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:52727806 original size:22 final size:22
Alignment explanation
Indices: 52727779--52727853 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
52727769 CATGCATATG
52727779 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
52727801 TGTGATGAATGTG-AGCAT-G-CATA
1 TGTGAT-AA-G-GCCGAATGGCCA-A
52727824 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
52727848 TGTGAT
1 TGTGAT
52727854 GAATATGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:52728214 original size:37 final size:37
Alignment explanation
Indices: 52728108--52728214 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
52728098 AAATATATTT
*
52728108 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGAC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGAC
* *
52728145 CGGGTAGGACCCGATGACTACGTGTGGAGATTTTGGC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGAC
* * *
52728182 TGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
52728215 CGTCTGAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGAC
Found at i:52739396 original size:40 final size:40
Alignment explanation
Indices: 52739277--52739453 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
52739267 CGGATGATAA
* * *
52739277 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * *
52739317 CTGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
52739357 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
** *
52739397 CCAAGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
52739437 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
52739454 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 98 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:52739721 original size:22 final size:22
Alignment explanation
Indices: 52739681--52739722 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52739671 GAATGTGCAT
*
52739681 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
52739703 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
52739723 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:52744916 original size:22 final size:23
Alignment explanation
Indices: 52744888--52744931 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52744878 TAATAGGGAA
* *
52744888 TAAAATA-TAAATTTTATGTGGC
1 TAAAATACAAAATATTATGTGGC
52744910 TAAAATACAAAATATTATGTGG
1 TAAAATACAAAATATTATGTGG
52744932 TTGAAACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (23 bp):
TAAAATACAAAATATTATGTGGC
Found at i:52746397 original size:27 final size:27
Alignment explanation
Indices: 52746352--52746456 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
52746342 ACTGTCCCAT
*** *
52746352 AGACACCTATATTATGGAATGTCCTGT
1 AGACACCTATATTGCAGAATGTCCTGC
* * * *
52746379 GGACACCTATATTGCGGAAGGTCTTGC
1 AGACACCTATATTGCAGAATGTCCTGC
* * *
52746406 AAACACCTATGTTGCAGAATGTCTTGC
1 AGACACCTATATTGCAGAATGTCCTGC
* *
52746433 AGACACTTATATTGCAGACTGTCC
1 AGACACCTATATTGCAGAATGTCC
52746457 CGCAAACATA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (27 bp):
AGACACCTATATTGCAGAATGTCCTGC
Found at i:52747743 original size:69 final size:69
Alignment explanation
Indices: 52747631--52747770 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
52747621 ATATATAACA
52747631 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
1 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
52747696 ATTC
66 ATTC
* * *
52747700 TAACTTAATTTAATTTTCATCAACCAACATTATTCATCGGCTTATTATGCACATAAGTTAGTTCA
1 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
52747765 ATTC
66 ATTC
52747769 TA
1 TA
52747771 TCACTCGCAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (69 bp):
TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
ATTC
Found at i:52749580 original size:15 final size:16
Alignment explanation
Indices: 52749560--52749595 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
52749550 GAGGTGTTGC
*
52749560 TGATTT-GTGAGTTTG
1 TGATTTGGTGAGATTG
52749575 TGATTTGGTGAGATTG
1 TGATTTGGTGAGATTG
52749591 TGATT
1 TGATT
52749596 AGGCAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (16 bp):
TGATTTGGTGAGATTG
Found at i:52753330 original size:32 final size:33
Alignment explanation
Indices: 52753294--52753355 Score: 76
Period size: 31 Copynumber: 1.9 Consensus size: 33
52753284 ATTTTTTTAA
52753294 AAATAGAAAATTAT-AAAAA-ATA-AAAATAAAAT
1 AAATA-AAAATT-TCAAAAATATATAAAATAAAAT
*
52753326 AAATAAAAGTTTCAAAAATATATAAAATAA
1 AAATAAAAATTTCAAAAATATATAAAATAA
52753356 GAAAATGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
30 1 0.04
31 10 0.38
32 8 0.31
33 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (33 bp):
AAATAAAAATTTCAAAAATATATAAAATAAAAT
Found at i:52754777 original size:23 final size:23
Alignment explanation
Indices: 52754747--52754815 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
52754737 AGCGAAGATA
52754747 TCCTAAGTTGCGAGACTTAGACC
1 TCCTAAGTTGCGAGACTTAGACC
**
52754770 TCCTAAGTTGTAAGACTTAGA-C
1 TCCTAAGTTGCGAGACTTAGACC
52754792 TGCCTAAGTTGCGAGACTTAGACC
1 T-CCTAAGTTGCGAGACTTAGACC
52754816 GAATAAGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 2 0.05
23 37 0.93
24 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
TCCTAAGTTGCGAGACTTAGACC
Found at i:52763612 original size:31 final size:31
Alignment explanation
Indices: 52763574--52763634 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
52763564 CATTTCAAGC
52763574 TCAATAGTAAGTGCTTCCAAGCCCCGTTTTG
1 TCAATAGTAAGTGCTTCCAAGCCCCGTTTTG
52763605 TCAATAGTAAGTGCTTCCAAGCCCCGTTTT
1 TCAATAGTAAGTGCTTCCAAGCCCCGTTTT
52763635 TAGTGCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (31 bp):
TCAATAGTAAGTGCTTCCAAGCCCCGTTTTG
Found at i:52791818 original size:20 final size:22
Alignment explanation
Indices: 52791793--52791847 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
52791783 TCAATGCTTG
52791793 CAAACATAT-ACC-AGCCAATT
1 CAAACATATAACCAAGCCAATT
52791813 CAAACATTATAACCAAGCCAATT
1 CAAACA-TATAACCAAGCCAATT
*
52791836 CAAACATCTAAC
1 CAAACATATAAC
52791848 ATGATATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 6 0.19
21 3 0.10
22 8 0.26
23 14 0.45
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (22 bp):
CAAACATATAACCAAGCCAATT
Found at i:52793696 original size:27 final size:28
Alignment explanation
Indices: 52793658--52793710 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
52793648 AGAGTAAACA
* *
52793658 CAATTTGGGCCTAAGCC-CTTTCAGTTT
1 CAATTAGGGCCTAAGCCTATTTCAGTTT
*
52793685 CAATTAGGGCCTTAGCCTATTTCAGT
1 CAATTAGGGCCTAAGCCTATTTCAGT
52793711 AACAGTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (28 bp):
CAATTAGGGCCTAAGCCTATTTCAGTTT
Found at i:52793729 original size:34 final size:34
Alignment explanation
Indices: 52793691--52793773 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
52793681 GTTTCAATTA
* * * *
52793691 GGGCCTTAGCCTATTTCAGTAACAGTAGCAGTTT
1 GGGCCTGAGCCCATTTCAGTAACAATAGCAGTCT
* *
52793725 GGGCCTGAGCCCATTTCAGTAGCAATATCAGTCT
1 GGGCCTGAGCCCATTTCAGTAACAATAGCAGTCT
52793759 GGGCCTGAGCCCATT
1 GGGCCTGAGCCCATT
52793774 ACAGAATCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (34 bp):
GGGCCTGAGCCCATTTCAGTAACAATAGCAGTCT
Found at i:52794519 original size:15 final size:16
Alignment explanation
Indices: 52794481--52794518 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
52794471 TCGATAACCC
52794481 ACTTTTTGGCTTTTCA
1 ACTTTTTGGCTTTTCA
52794497 ACTTTTTGGCTTTTCA
1 ACTTTTTGGCTTTTCA
*
52794513 GCTTTT
1 ACTTTT
52794519 GTCGTTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (16 bp):
ACTTTTTGGCTTTTCA
Found at i:52797795 original size:18 final size:18
Alignment explanation
Indices: 52797747--52797795 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
52797737 TAGGATTGTA
* *
52797747 TACTATTACTACACTGAT
1 TACTGTTACTGCACTGAT
*
52797765 TACTGTTACTGCACTGTT
1 TACTGTTACTGCACTGAT
* *
52797783 TATTGTTATTGCA
1 TACTGTTACTGCA
52797796 ATGGGCCAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:52800413 original size:27 final size:27
Alignment explanation
Indices: 52800383--52800560 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
52800373 ATATTGAGCC
* * *
52800383 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
52800410 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
52800437 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
52800465 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
52800492 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
52800519 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
52800546 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52800561 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:52800476 original size:55 final size:55
Alignment explanation
Indices: 52800383--52800560 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
52800373 ATATTGAGCC
* * *
52800383 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
52800437 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
52800492 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
52800546 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52800561 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:52800522 original size:82 final size:81
Alignment explanation
Indices: 52800404--52800559 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
52800394 TGCTATACAA
* * *
52800404 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
52800469 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
52800486 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
52800550 CACTTAGTGC
65 CACTTAGTGC
52800560 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52808457 original size:27 final size:27
Alignment explanation
Indices: 52808427--52808605 Score: 108
Period size: 27 Copynumber: 6.6 Consensus size: 27
52808417 ATATTGAGCC
* * *
52808427 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
52808454 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
52808481 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
52808509 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
52808536 CGCACACTTAGGTGC-ATCATATTCATTT
1 CGCACACTTA-GTGCTA-CACAATCAAAT
* * * *
52808564 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
52808591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52808606 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
27 78 0.63
28 45 0.37
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:52808520 original size:55 final size:55
Alignment explanation
Indices: 52808427--52808605 Score: 197
Period size: 55 Copynumber: 3.3 Consensus size: 55
52808417 ATATTGAGCC
* * *
52808427 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
52808481 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
52808536 CGCACACTTAGGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTA-GTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
52808591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52808606 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 20 0.19
55 72 0.69
56 9 0.09
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:52811836 original size:22 final size:22
Alignment explanation
Indices: 52811794--52811837 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
52811784 GAAAATAATC
**
52811794 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATCCATTAT
*
52811816 AAAATTAATTAAAATCCATTAT
1 AAAATTAATCAAAATCCATTAT
52811838 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATCCATTAT
Found at i:52817612 original size:26 final size:26
Alignment explanation
Indices: 52817583--52817744 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
52817573 TGATACAAAT
52817583 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
52817609 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
52817635 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
52817661 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
52817687 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
52817713 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
52817739 TGATAA
1 TGATAA
52817745 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:52817673 original size:78 final size:78
Alignment explanation
Indices: 52817583--52817744 Score: 306
Period size: 78 Copynumber: 2.1 Consensus size: 78
52817573 TGATACAAAT
52817583 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
52817648 GGTAAATGTTTCA
66 GGTAAATGTTTCA
* *
52817661 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
52817726 GGTAAATGTTTCA
66 GGTAAATGTTTCA
52817739 TGATAA
1 TGATAA
52817745 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:52819220 original size:28 final size:26
Alignment explanation
Indices: 52819178--52819252 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
52819168 AAAAGTAACT
* *
52819178 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
52819206 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
52819232 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
52819253 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:52819440 original size:32 final size:27
Alignment explanation
Indices: 52819358--52819503 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
52819348 GGAAGCGTTT
*
52819358 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
52819385 TGGTGGCTCTGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
*
52819412 TGGTGGCTCTGCCACAAATATCTAATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
52819439 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* * * *
52819466 TGGTGGCCCTACCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTG-ATC
*
52819494 TGGTGACTCT
1 TGGTGGCTCT
52819504 ATCACATTAT
Statistics
Matches: 105, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 95 0.90
28 10 0.10
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:52819488 original size:54 final size:54
Alignment explanation
Indices: 52819369--52819522 Score: 193
Period size: 54 Copynumber: 2.9 Consensus size: 54
52819359 GGTGGCTATG
* * * * *
52819369 CCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTG
1 CCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTA
52819423 CCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTA
1 CCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTA
* * * * **
52819477 CCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTTCTGG
1 CCACAAATATCT-AATCTGGTGGCTCTGCCACATATATCTGTTCTGG
52819523 CAGCCATGCT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 71 0.81
55 17 0.19
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (54 bp):
CCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTA
Found at i:52819512 original size:27 final size:28
Alignment explanation
Indices: 52819358--52819522 Score: 173
Period size: 27 Copynumber: 6.1 Consensus size: 28
52819348 GGAAGCGTTT
* *
52819358 TGGTGGCTATGCCACAAATATCTG-ATC
1 TGGTGGCTCTGCCACAATTATCTGTATC
*
52819385 TGGTGGCTCTGCCACAAATATCTG-ATC
1 TGGTGGCTCTGCCACAATTATCTGTATC
* *
52819412 TGGTGGCTCTGCCACAAATATCT-AATC
1 TGGTGGCTCTGCCACAATTATCTGTATC
52819439 TGGTGGCTCTGCCAC-ATATATCTGT-TC
1 TGGTGGCTCTGCCACAAT-TATCTGTATC
* * *
52819466 TGGTGGCCCTACCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTGTATC
* **
52819494 TGGTGACTCTATCAC-ATTATCTGT-TC
1 TGGTGGCTCTGCCACAATTATCTGTATC
52819520 TGG
1 TGG
52819523 CAGCCATGCT
Statistics
Matches: 125, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.05
27 103 0.82
28 16 0.13
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGGTGGCTCTGCCACAATTATCTGTATC
Found at i:52829889 original size:20 final size:19
Alignment explanation
Indices: 52829852--52829890 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
52829842 ATAAACATAT
**
52829852 TAAAATTTTAACGTTATAC
1 TAAAATTTTAACACTATAC
52829871 TAAAATTTATAACACTATAC
1 TAAAATTT-TAACACTATAC
52829891 CAATACCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (19 bp):
TAAAATTTTAACACTATAC
Found at i:52831588 original size:14 final size:13
Alignment explanation
Indices: 52831562--52831586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52831552 ACTAAGTTAA
52831562 AATTTTTAAAAAT
1 AATTTTTAAAAAT
52831575 AATTTTTAAAAA
1 AATTTTTAAAAA
52831587 ATGAAAATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTTAAAAAT
Found at i:52832409 original size:176 final size:176
Alignment explanation
Indices: 52832085--52832443 Score: 556
Period size: 176 Copynumber: 2.0 Consensus size: 176
52832075 CAACCCCTTT
* *
52832085 CCAACCCTTAAATAAGAGGATAATGCGCTTCAGTGCATTTAAACCCACGTCCTATTGCATTGGCA
1 CCAACCCTTAAATAAGAGGATAATGCGCTTCAGTACACTTAAACCCACGTCCTATTGCATTGGCA
* * * *
52832150 ACAATGTTGATGCCAATTGAGCTAAGACTTAATCAACATCTTTGGTTAGTTTCTAAGCCTCCTAG
66 ACAATGTTGATGCCAACTAAGCTAAGACTCAATCAACATCTTTGGTTAGTTTCTAAACCTCCTAG
* *
52832215 TGTTGTGGTTAGTGTTAGTTTGCCTTTCTCCTCTAGTGTAACCTCC
131 TGTTGTGGTCAATGTTAGTTTGCCTTTCTCCTCTAGTGTAACCTCC
* * * ** * *
52832261 CCAACCTTTAAATAAGAGGATAATGTGCTTCAGTACACTTGAACTTATGTCCTCTTGCATTGGCA
1 CCAACCCTTAAATAAGAGGATAATGCGCTTCAGTACACTTAAACCCACGTCCTATTGCATTGGCA
*
52832326 ACAATGTTGATGCCAACTAAGCTAAGACTCAATCAACATCTTTGGTTAGTTTCTAAACCTCCTGG
66 ACAATGTTGATGCCAACTAAGCTAAGACTCAATCAACATCTTTGGTTAGTTTCTAAACCTCCTAG
* *
52832391 TGTTTTGGTCAATGTTAGTTTGTCTTTCTCCTCTAGTGTAACCTCC
131 TGTTGTGGTCAATGTTAGTTTGCCTTTCTCCTCTAGTGTAACCTCC
52832437 CCAACCC
1 CCAACCC
52832444 AACCTAGATG
Statistics
Matches: 164, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
176 164 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (176 bp):
CCAACCCTTAAATAAGAGGATAATGCGCTTCAGTACACTTAAACCCACGTCCTATTGCATTGGCA
ACAATGTTGATGCCAACTAAGCTAAGACTCAATCAACATCTTTGGTTAGTTTCTAAACCTCCTAG
TGTTGTGGTCAATGTTAGTTTGCCTTTCTCCTCTAGTGTAACCTCC
Found at i:52833937 original size:29 final size:28
Alignment explanation
Indices: 52833891--52833945 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
52833881 GATTTATTTC
52833891 GATTTGGCTTCAGGCCATGAATATCAGCT
1 GATTTGGCTTCAGGCCATG-ATATCAGCT
*
52833920 GATTTGGTTTC-GGACCATGATATCAG
1 GATTTGGCTTCAGG-CCATGATATCAG
52833946 TACTTCAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (28 bp):
GATTTGGCTTCAGGCCATGATATCAGCT
Found at i:52849732 original size:13 final size:13
Alignment explanation
Indices: 52849716--52849740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52849706 TAAACCGAGC
52849716 TATTAAATATTTT
1 TATTAAATATTTT
52849729 TATTAAATATTT
1 TATTAAATATTT
52849741 ATAGAGTGAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTAAATATTTT
Found at i:52852492 original size:43 final size:42
Alignment explanation
Indices: 52852439--52852596 Score: 142
Period size: 42 Copynumber: 3.7 Consensus size: 42
52852429 CAGAGAACAT
* * *
52852439 ATACAATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAAC
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC--AC
* * *
52852483 ATA-GATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAG
1 ATACGATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAC
* * *
52852524 ATACGATGCCGATGTCCCAGACATGGTCTTACACGTAA-AAC
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAC
* *
52852565 ATAAGTCGATGCCAACGTCTCAGACGTGGTCT
1 AT-A--CGATGCCAATGTCCCAGACGTGGTCT
52852597 CACATGGAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 7 0.08
42 30 0.33
43 29 0.32
44 26 0.28
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAC
Found at i:52855070 original size:27 final size:26
Alignment explanation
Indices: 52855033--52855147 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
52855023 AGCATGGCTG
* *
52855033 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
52855059 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
52855086 CCAGAACAGATGTTTGTGGCATAGCCA
1 CCAGAACAGAT-ATTGTGGCAGAGCCA
*
52855113 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
52855141 CCAGAAC
1 CCAGAAC
52855148 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 11 0.14
27 44 0.55
28 25 0.31
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:52855307 original size:27 final size:26
Alignment explanation
Indices: 52855249--52855312 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
52855239 CAAAATTAAC
* * *
52855249 CCTAGGGGTATCATGGTCATTTTGCA
1 CCTAGGGGTATAATGGTAATTTTACA
*
52855275 CCTAGGGGTATAATGGTAATTTTTATA
1 CCTAGGGGTATAATGGTAA-TTTTACA
*
52855302 CTTAGGGGTAT
1 CCTAGGGGTAT
52855313 TTTAGTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTTACA
Found at i:52881668 original size:37 final size:33
Alignment explanation
Indices: 52881627--52881794 Score: 174
Period size: 31 Copynumber: 5.2 Consensus size: 33
52881617 TGATAAATGA
52881627 TAGCTTCGGCTACACTTATCTGATCAGTGAAAAGTGG
1 TAGCTTCGGCTACAC----CTGATCAGTGAAAAGTGG
52881664 TAGCTTCGGCT--ACCTGATCAGTGAAAAGTGG
1 TAGCTTCGGCTACACCTGATCAGTGAAAAGTGG
* *
52881695 TAGCTTCTGCT--ACCTGATCAGTGAAAAGGGG
1 TAGCTTCGGCTACACCTGATCAGTGAAAAGTGG
* * *
52881726 TAGCTCCAGCT--ACCTGATCAGTGAAAAATGG
1 TAGCTTCGGCTACACCTGATCAGTGAAAAGTGG
*
52881757 TAGC-TCTGGCT--ACCTGATCAGTGAATAGTGG
1 TAGCTTC-GGCTACACCTGATCAGTGAAAAGTGG
52881788 TAGCTTC
1 TAGCTTC
52881795 AACTACAAGT
Statistics
Matches: 119, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.01
31 103 0.87
32 2 0.02
35 2 0.02
37 11 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (33 bp):
TAGCTTCGGCTACACCTGATCAGTGAAAAGTGG
Found at i:52881684 original size:31 final size:31
Alignment explanation
Indices: 52881646--52881794 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
52881636 CTACACTTAT
52881646 CTGATCAGTGAAAAGTGGTAGCTTCGGCTAC
1 CTGATCAGTGAAAAGTGGTAGCTTCGGCTAC
*
52881677 CTGATCAGTGAAAAGTGGTAGCTTCTGCTAC
1 CTGATCAGTGAAAAGTGGTAGCTTCGGCTAC
* * *
52881708 CTGATCAGTGAAAAGGGGTAGCTCCAGCTAC
1 CTGATCAGTGAAAAGTGGTAGCTTCGGCTAC
*
52881739 CTGATCAGTGAAAAATGGTAGC-TCTGGCTAC
1 CTGATCAGTGAAAAGTGGTAGCTTC-GGCTAC
*
52881770 CTGATCAGTGAATAGTGGTAGCTTC
1 CTGATCAGTGAAAAGTGGTAGCTTC
52881795 AACTACAAGT
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 103 0.97
32 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
CTGATCAGTGAAAAGTGGTAGCTTCGGCTAC
Found at i:52881943 original size:46 final size:42
Alignment explanation
Indices: 52881876--52882035 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 42
52881866 TACTACTGCA
* * * *
52881876 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GAGATATG-AATATGTG
*
52881922 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGAGATATGAATATGTG
* * * *
52881964 TAAGACCATAGCTGGGCTATGGCAT-AATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-GATATGAATATGTG
* ** *
52882006 TAAGACCATAGTTGAACTATGACATCGAGA
1 TAAGACCATAGCTGGGCTATGGCATCGAGA
52882036 AAATAAAGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 65 0.66
43 8 0.08
46 24 0.24
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGAGATATGAATATGTG
Found at i:52881977 original size:42 final size:42
Alignment explanation
Indices: 52881876--52882016 Score: 158
Period size: 42 Copynumber: 3.3 Consensus size: 42
52881866 TACTACTGCA
* * * * *
52881876 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATG-AATATGTG
52881922 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
* * *
52881964 TAAGACCATAGCTGGGCTATGGCAT-AATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
52882006 TAAGACCATAG
1 TAAGACCATAG
52882017 TTGAACTATG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 54 0.63
43 7 0.08
46 24 0.28
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
Found at i:52882413 original size:25 final size:28
Alignment explanation
Indices: 52882372--52882429 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
52882362 GAAATATGAG
* *
52882372 ATGATGATATCTGTACAT-GAAATTTAT
1 ATGATGATATATGTACATCCAAATTTAT
52882399 -TGATGA-ATATGTACATCCAAATTTAT
1 ATGATGATATATGTACATCCAAATTTAT
52882425 ATGAT
1 ATGAT
52882430 AGATTTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.33
26 14 0.52
27 4 0.15
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (28 bp):
ATGATGATATATGTACATCCAAATTTAT
Found at i:52882720 original size:23 final size:23
Alignment explanation
Indices: 52882690--52882740 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
52882680 ATGATATTTC
*
52882690 AAATACTTTGGTGAATAAAGGTT
1 AAATACTTTGGTGAATAAAGCTT
52882713 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
52882736 AAATA
1 AAATA
52882741 TGAAATAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (23 bp):
AAATACTTTGGTGAATAAAGCTT
Found at i:52889533 original size:27 final size:27
Alignment explanation
Indices: 52889486--52889561 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
52889476 GGGCAAAATA
*
52889486 GTCATTTTACCCT-CAAGGGGTATGTCG
1 GTCATTTTACACTACAA-GGGTATGTCG
*
52889513 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
52889540 GTAATTTTACACTACAATGGTA
1 GTCATTTTACACTACAAGGGTA
52889562 CTTCGATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 41 0.93
28 3 0.07
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:52889566 original size:27 final size:27
Alignment explanation
Indices: 52889489--52889575 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
52889479 CAAAATAGTC
* *
52889489 ATTTTACCCT-CAAGGGGTA-TGTCGGTC
1 ATTTTACACTACAA-GGGTACT-TCGGTA
*
52889516 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTACTTCGGTA
* *
52889543 ATTTTACACTACAATGGTACTTCGATA
1 ATTTTACACTACAAGGGTACTTCGGTA
52889570 ATTTTA
1 ATTTTA
52889576 TAAATTGGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
27 49 0.92
28 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTACTTCGGTA
Found at i:52889625 original size:81 final size:80
Alignment explanation
Indices: 52889529--52889921 Score: 291
Period size: 81 Copynumber: 4.9 Consensus size: 80
52889519 TTACACTACA
* * * * * *
52889529 AGGGTATTTCGGTAATTTTAC-ACTACAATGGTACTTCGA-TAATTTTATAAATTGGGGGTGTTT
1 AGGGTATTTCAGTAATTTTACAAAT-CAAGGGTA-TTCAAGTAATTTTACAAATTGAGGGTGTTT
*
52889592 CGGTAATTTTACAAACC
64 CGGTAATTTCACAAACC
* ** * *
52889609 GAGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTAAGTAATTTTACAAATTGAGGGTGTTTT
1 -AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTCAAGTAATTTTACAAATTGAGGGTGTTTC
*
52889674 GGTAATTTCACAAATC
65 GGTAATTTCACAAACC
** * * * *
52889690 AGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCAC-AATCGAGGGTATTTT
1 A-GGGTATTTCAGTAATTTTACAAATCAAGGGTATTCAAGTAATTTTACAAATTGAGGGTGTTTC
* * *
52889754 GGTAATTTTATAAATC
65 GGTAATTTCACAAACC
* * ** * *
52889770 AGGGGTATTTCTGTAATTTCAC-AATCGAA-GGTATT-TTGATTATTTTACAAATTG-GGGATAT
1 A-GGGTATTTCAGTAATTTTACAAATC-AAGGGTATTCAAG-TAATTTTACAAATTGAGGG-TGT
* * *
52889831 TTCAGTAATTTCACAATCG
62 TTCGGTAATTTCACAAACC
* * * * * * *
52889850 AGGGTATTACAGTAATTTTATAAATC-GGGGTATTTC-GGTAATTTTACAAATCGAGGGTATTTT
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTA-TTCAAGTAATTTTACAAATTGAGGGTGTTTC
*
52889913 AGTAATTTC
65 GGTAATTTC
52889922 TCTTTATTAT
Statistics
Matches: 256, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.01
79 67 0.26
80 83 0.32
81 102 0.40
82 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTCAAGTAATTTTACAAATTGAGGGTGTTTCG
GTAATTTCACAAACC
Found at i:52889749 original size:26 final size:27
Alignment explanation
Indices: 52889594--52889920 Score: 339
Period size: 27 Copynumber: 12.3 Consensus size: 27
52889584 GGGTGTTTCG
*
52889594 GTAATTTTACAAACCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTTA
* *
52889621 GTAATTTTACAAATTGAGGGTATTTAA
1 GTAATTTTACAAATCGAGGGTATTTTA
* * *
52889648 GTAATTTTACAAATTGAGGGTGTTTTG
1 GTAATTTTACAAATCGAGGGTATTTTA
* *
52889675 GTAATTTCACAAATC-AGGGGTATTTCA
1 GTAATTTTACAAATCGA-GGGTATTTTA
*
52889702 GTAATTTTACAAATCAAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTTA
* *
52889729 GTAATTTCAC-AATCGAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTTA
*
52889755 GTAATTTTATAAATC-AGGGGTATTTCT-
1 GTAATTTTACAAATCGA-GGGTATTT-TA
* *
52889782 GTAATTTCAC-AATCGAAGGTATTTT-
1 GTAATTTTACAAATCGAGGGTATTTTA
* * *
52889807 GATTATTTTACAAATTG-GGGATATTTCA
1 G-TAATTTTACAAATCGAGGG-TATTTTA
* **
52889835 GTAATTTCAC-AATCGAGGGTATTACA
1 GTAATTTTACAAATCGAGGGTATTTTA
* **
52889861 GTAATTTTATAAATCG-GGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTTA
52889887 GTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTTA
52889914 GTAATTT
1 GTAATTT
52889921 CTCTTTATTA
Statistics
Matches: 250, Mismatches: 37, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.01
26 85 0.34
27 160 0.64
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTTA
Found at i:52889769 original size:53 final size:54
Alignment explanation
Indices: 52889584--52889920 Score: 330
Period size: 53 Copynumber: 6.3 Consensus size: 54
52889574 TATAAATTGG
* * * * * *
52889584 GGGTGTTTCGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAAATCGA
* ** * *
52889638 GGGTATTTAAGTAATTTTACAAATTGAGGGTGTTTTGGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAAATCGA
52889691 GGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCAC-AATCGA
1 -GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAAATCGA
** * *
52889745 GGGTATTTTGGTAATTTTATAAATCAGGGGTATTTCT-GTAATTTCAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTT-TAGTAATTTCACAAATCGA
* * * ** *
52889798 AGGTATTT-TGATTATTTTACAAAT-TGGGGATATTTCAGTAATTTCAC-AATCGA
1 GGGTATTTCAG-TAATTTTACAAATCAAGGG-TATTTTAGTAATTTCACAAATCGA
* * * ** *
52889851 GGGTATTACAGTAATTTTATAAATC-GGGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAAATCGA
*
52889904 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
52889921 CTCTTTATTA
Statistics
Matches: 241, Mismatches: 33, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
52 20 0.08
53 133 0.55
54 88 0.37
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAAATCGA
Found at i:52901155 original size:43 final size:42
Alignment explanation
Indices: 52901089--52901224 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 42
52901079 AGCTCATACA
*
52901089 ATGCCAATGTCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAAAG-GGTCTTACATGTAATCAAATATCG
* * *
52901132 ATGCCACTGTCCCAAATAGGGTCTGACATGAAATCAAATA-CG
1 ATGCCAATGTCCCAAA-AGGGTCTTACATGTAATCAAATATCG
* * * *
52901174 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCA-AAAGGGTCTTACATGT-AATCA-AATATCG
52901218 ATGCCAA
1 ATGCCAA
52901225 CATCCCAGAC
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
42 25 0.32
43 40 0.52
44 12 0.16
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAAAAGGGTCTTACATGTAATCAAATATCG
Found at i:52903979 original size:28 final size:28
Alignment explanation
Indices: 52903923--52904024 Score: 82
Period size: 28 Copynumber: 3.7 Consensus size: 28
52903913 ATTGCATGAC
* *** *
52903923 TATGAAAGTTATTGGGCCTGGCAGACCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
52903951 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* ** *
52903979 TATGACTA-TGATTGGGCCCAATGAGCCA
1 TATGA-AAGTGATTGGGCCTGATGGGCCA
* *
52904007 TAT-AATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
52904025 AAAGGGGCCA
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 10 0.17
28 48 0.81
29 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:52907236 original size:27 final size:27
Alignment explanation
Indices: 52907205--52907383 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
52907195 TAAATTGTAC
*
52907205 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
52907232 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
52907258 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
52907286 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
52907313 AGCACTAAGTGTGCGAGTTTGATTACGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
52907341 AGGCACTAAGTGTGCGAGTTGATTATAT
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
52907369 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52907384 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 95 0.74
28 18 0.14
29 15 0.12
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:52907266 original size:54 final size:55
Alignment explanation
Indices: 52907205--52907383 Score: 220
Period size: 54 Copynumber: 3.3 Consensus size: 55
52907195 TAAATTGTAC
* **
52907205 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
52907260 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * *
52907313 AGCACTAAGTGTGCGAGTTTGATTACGTAGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGT-GGCACTAAGTGTGCGAGTTGAATATGAT
*
52907369 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52907384 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 6 0.06
56 39 0.37
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:52923498 original size:39 final size:40
Alignment explanation
Indices: 52923398--52923582 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
52923388 TTGAATGATG
* * *
52923398 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
** * *
52923438 TCCGGATTAAGAT-CCGAAGGCAATTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
52923478 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
52923517 TCCGGGTTATGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AA
* *
52923558 -CCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52923583 AATGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.27
40 79 0.63
41 11 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:52923534 original size:79 final size:81
Alignment explanation
Indices: 52923398--52923582 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
52923388 TTGAATGATG
* *
52923398 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGATTAAGATCCGAAGGCAAT
52923462 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * *
52923477 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGAT-ACTAAATCCGGGTTATG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TGACCAAATCCGGATTAAGAT-CCGAAGGC
* *
52923538 ATTTGTGCGAGTTACTATA
63 AATTGTGCGAGATACTATA
* * *
52923557 ACCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52923583 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGATTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:52923613 original size:79 final size:79
Alignment explanation
Indices: 52923435--52923615 Score: 174
Period size: 79 Copynumber: 2.3 Consensus size: 79
52923425 CTAAGTGACC
*
52923435 ATATCCGGATTAAGA-TCCGAAGGCAATTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCA
1 ATATCCGG-TTAA-ATTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCA
**
52923499 TTTGTGCGAGATACTA
64 TTTGAACGAGATACTA
** * * * * *
52923515 A-ATCCGGGTTATGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGTTATGTCCCGAAGGC
1 ATATCC-GGTTAAATTCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
52923578 ATTTGAATGAG-TAGC-A
63 ATTTGAACGAGATA-CTA
52923594 ATATCCGGTTAAATTCCGAAGG
1 ATATCCGGTTAAATTCCGAAGG
52923616 TATGTGATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
78 2 0.02
79 54 0.67
80 25 0.31
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGTTAAATTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
TGAACGAGATACTA
Found at i:52925535 original size:47 final size:47
Alignment explanation
Indices: 52925459--52925596 Score: 151
Period size: 47 Copynumber: 2.9 Consensus size: 47
52925449 TTACGCTGAC
*
52925459 ACATCTCGTAGCT-GATGCATGTCCCAGACATGTCTTACACTGGT-TT
1 ACATCTCG-AGGTCGATGCATGTCCCAGACATGTCTTACACTGGTCTT
52925505 ACATCTCGAGGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTT
1 ACATCTCGAGGTCGATG-CATGTCCCAGACAT-GTCTTACACTGG-TCTT
* * * *
52925555 ATA-AT--ATGGCCGAAGCATGTCCCAGACATGTCTTACACTGGT
1 ACATCTCGA-GGTCGATGCATGTCCCAGACATGTCTTACACTGGT
52925597 GCATGAATGA
Statistics
Matches: 81, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
45 4 0.05
46 24 0.30
47 29 0.36
48 18 0.22
49 2 0.02
50 4 0.05
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (47 bp):
ACATCTCGAGGTCGATGCATGTCCCAGACATGTCTTACACTGGTCTT
Found at i:52930651 original size:48 final size:49
Alignment explanation
Indices: 52930544--52930663 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 49
52930534 CGAGGCTGAC
* * *
52930544 GTCCCAGACATGGTCTTACACTAGCTCTCATATATCCGTGCTGATACCAT
1 GTCCCAGACATGGTCTTACACTAACCCTCATATA-CCGTGCAGATACCAT
*
52930594 GTCCCAGACATGGTCTTACACTAACACCTC-TATA-CGTGCCAG-TGCCAT
1 GTCCCAGACATGGTCTTACACTAAC-CCTCATATACCGTG-CAGATACCAT
52930642 GTCCCAGACATGGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
52930664 GGCACAACTC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
48 31 0.48
49 2 0.03
50 28 0.44
51 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (49 bp):
GTCCCAGACATGGTCTTACACTAACCCTCATATACCGTGCAGATACCAT
Found at i:52930744 original size:46 final size:44
Alignment explanation
Indices: 52930639--52930753 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 44
52930629 GTGCCAGTGC
*
52930639 CATGTCCCAGACATGGTCTTACACTGGCACAACTCGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACAACTCGTAGCCGATG
* *
52930684 CATGTCCCAGACATGTCTTACGCTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC--ACAACTCGTA-GCCGATG
*
52930730 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
52930754 AAATCTCGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.19
45 15 0.24
46 35 0.56
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCACAACTCGTAGCCGATG
Found at i:52935031 original size:45 final size:45
Alignment explanation
Indices: 52934980--52935070 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
52934970 AAACCAAGCC
52934980 AACATTAACATTATACTTGATATATCATCACTTGTATTCAAACTT
1 AACATTAACATTATACTTGATATATCATCACTTGTATTCAAACTT
*
52935025 AACATTAACATTATACTTGATATATCATTACTTGTATTCAAACTT
1 AACATTAACATTATACTTGATATATCATCACTTGTATTCAAACTT
52935070 A
1 A
52935071 CCTTTTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.41
Consensus pattern (45 bp):
AACATTAACATTATACTTGATATATCATCACTTGTATTCAAACTT
Found at i:52944385 original size:40 final size:41
Alignment explanation
Indices: 52944270--52944497 Score: 173
Period size: 40 Copynumber: 5.7 Consensus size: 41
52944260 ATTATTGATT
* * * * * *
52944270 ATTGCACATGCGTG-CCCTTGTTTGTATTTCGATAACCCTA
1 ATTGCACATACATGCCCCTTGTTTGTACTTCGGTACCCCTG
*
52944310 ATTGCACATACGTGCCCC-TGTTTGTACTTCGGTACCCCTG
1 ATTGCACATACATGCCCCTTGTTTGTACTTCGGTACCCCTG
* * *
52944350 ATTGCACATACATGTCCC-TGTTTGTACTTCAGTACCCTTG
1 ATTGCACATACATGCCCCTTGTTTGTACTTCGGTACCCCTG
* * * * *
52944390 ATTACACATTCAT-CCCCTTGCTTGAACTTCGGTACACCTG
1 ATTGCACATACATGCCCCTTGTTTGTACTTCGGTACCCCTG
* * * * * *
52944430 ATTGCA-ATTACGTG-CCTTTGTTTATACTTCGATAGCCTTG
1 ATTGCACA-TACATGCCCCTTGTTTGTACTTCGGTACCCCTG
* * * *
52944470 AATGCACTTACGTG-CCCTTGTTTATACT
1 ATTGCACATACATGCCCCTTGTTTGTACT
52944498 CTAGTAAGCC
Statistics
Matches: 152, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
39 4 0.03
40 145 0.95
41 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (41 bp):
ATTGCACATACATGCCCCTTGTTTGTACTTCGGTACCCCTG
Done.