Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 183 of 433
Found at i:57542842 original size:40 final size:40
Alignment explanation
Indices: 57542797--57542963 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
57542787 CGGAATATAA
57542797 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57542837 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57542877 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57542917 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57542956 CCGGATAT
1 CCGGATAT
57542964 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57542947 original size:80 final size:79
Alignment explanation
Indices: 57542813--57542963 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
57542803 ATAATCACGT
*
57542813 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
57542878 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
57542893 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
57542956 CCGGATAT
64 CCGGATAT
57542964 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57550806 original size:40 final size:39
Alignment explanation
Indices: 57550761--57550926 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
57550751 CGGAATATAA
57550761 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
57550801 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
57550840 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
57550880 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
57550919 CCGGATAT
1 CCGGATAT
57550927 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:57550883 original size:79 final size:79
Alignment explanation
Indices: 57550777--57550926 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
57550767 ATAATCACGT
*
57550777 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
57550840 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
57550856 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
57550921 GGATAT
66 GGATAT
57550927 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57552594 original size:2 final size:2
Alignment explanation
Indices: 57552587--57552622 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
57552577 TGTCACAAAT
57552587 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
57552623 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:57557708 original size:25 final size:23
Alignment explanation
Indices: 57557680--57557738 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 23
57557670 ATTTTTCTCC
*
57557680 TAAATTTTAATTTTATTTAATTAAT
1 TAAATTTTAA-TTTATTGAATT-AT
57557705 TAAATTTTCAATTTATTGAATTAT
1 TAAATTTT-AATTTATTGAATTAT
57557729 TAATATTTTA
1 TAA-ATTTTA
57557739 TACTGATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 6 0.19
25 23 0.74
26 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TAAATTTTAATTTATTGAATTAT
Found at i:57559884 original size:25 final size:25
Alignment explanation
Indices: 57559851--57559898 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
57559841 CTATAACATG
* *
57559851 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57559876 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57559899 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57559982 original size:11 final size:11
Alignment explanation
Indices: 57559946--57560001 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57559936 CATGGTATGT
57559946 ATGATATGCAC
1 ATGATATGCAC
* *
57559957 ATGACATG--T
1 ATGATATGCAC
57559966 ATGATATGCAC
1 ATGATATGCAC
*
57559977 ATGATATG--T
1 ATGATATGCAC
57559986 ATGATATGCAC
1 ATGATATGCAC
57559997 ATGAT
1 ATGAT
57560002 GTAATCATAA
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:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57560001 original size:20 final size:20
Alignment explanation
Indices: 57559935--57560001 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57559925 ATTTTGATAA
*
57559935 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57559955 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57559975 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
57559995 ACATGAT
1 ACATGAT
57560002 GTAATCATAA
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:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57560081 original size:23 final size:23
Alignment explanation
Indices: 57560051--57560216 Score: 278
Period size: 23 Copynumber: 7.1 Consensus size: 23
57560041 AGGAAGTGAA
57560051 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
57560074 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
57560097 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
57560120 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
57560144 AAAGGGCTTATGGCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
57560167 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
57560190 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
57560214 AAA
1 AAA
57560217 AGAGGCTAGG
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 91 0.68
24 43 0.32
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:57560166 original size:47 final size:46
Alignment explanation
Indices: 57560050--57560216 Score: 280
Period size: 47 Copynumber: 3.6 Consensus size: 46
57560040 GAGGAAGTGA
57560050 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
57560096 TAAAGGGCTTATACCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
57560142 CAAAAGGGCTTATGGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA-T
*
57560190 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
57560217 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 44 0.39
47 67 0.60
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:57560464 original size:31 final size:31
Alignment explanation
Indices: 57560429--57560489 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
57560419 CGTTTACAGT
57560429 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
57560460 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
57560490 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:57565041 original size:8 final size:8
Alignment explanation
Indices: 57565028--57565058 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
57565018 ATTAGGGACT
57565028 AAAATGTC
1 AAAATGTC
57565036 AAAATGTC
1 AAAATGTC
57565044 AAAATGTC
1 AAAATGTC
57565052 AAAATGT
1 AAAATGT
57565059 GAGGGCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (8 bp):
AAAATGTC
Found at i:57565564 original size:43 final size:43
Alignment explanation
Indices: 57565407--57565565 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
57565397 TATGTGTTTT
* * * *
57565407 CGTGTAAGACCACGTCTGAGATGTTTGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * * *
57565451 CGTGTAAGACCATC-TCTGGGACATCGACATCG-TATTTGATTT
1 CGTGTAAGACCA-CGTCTGGGACGTTGGCATCGATATTTGATTA
*
57565493 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTA
* *
57565536 CATGTAAGACCACATCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
57565566 TGTATGAACT
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.01
42 28 0.31
43 36 0.40
44 25 0.27
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:57568371 original size:38 final size:38
Alignment explanation
Indices: 57568316--57568398 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
57568306 TTGTTGTTTA
*
57568316 CATA-TTATTCATGTAATCATTCTCATAATTATGATTG
1 CATACTTATTCATGTAATCATTCTCATAATTATCATTG
57568353 CATACTTATTCATGTAATCATTCTCATAATTATCATTG
1 CATACTTATTCATGTAATCATTCTCATAATTATCATTG
*
57568391 TATACTTA
1 CATACTTA
57568399 CTCTTGTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.46
Consensus pattern (38 bp):
CATACTTATTCATGTAATCATTCTCATAATTATCATTG
Found at i:57574896 original size:21 final size:22
Alignment explanation
Indices: 57574861--57574907 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
57574851 TCACACGGCC
*
57574861 GTGCCTCTGCACCACATGGGCGT
1 GTGCCTCTG-ACCACACGGGCGT
*
57574884 GTGCCTCTG-CCACACGGTCGT
1 GTGCCTCTGACCACACGGGCGT
57574905 GTG
1 GTG
57574908 TTACTCCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
23 9 0.41
ACGTcount: A:0.11, C:0.34, G:0.32, T:0.23
Consensus pattern (22 bp):
GTGCCTCTGACCACACGGGCGT
Found at i:57579621 original size:20 final size:21
Alignment explanation
Indices: 57579598--57579649 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
57579588 TGCCATTTCT
57579598 ATATATTGCATAC-ATGCATG
1 ATATATTGCATACAATGCATG
*
57579618 ATAT-TATG-GTACAATGCATG
1 ATATAT-TGCATACAATGCATG
*
57579638 ACATATTGCATA
1 ATATATTGCATA
57579650 GGGATGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
19 4 0.16
20 18 0.72
21 3 0.12
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
ATATATTGCATACAATGCATG
Found at i:57586678 original size:27 final size:26
Alignment explanation
Indices: 57586648--57586721 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
57586638 CCGGTGGCTA
*
57586648 TGCCACAAATATCTGTTCTGGTCG-CTC
1 TGCCAC-AATATCTATTCTGGT-GACTC
57586675 TGCCACAATATCTATATCTGGTGACTC
1 TGCCACAATATCTAT-TCTGGTGACTC
*
57586702 TG-TACAATATCTATTCTGGT
1 TGCCACAATATCTATTCTGGT
57586722 AGCCATGTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.14
26 20 0.47
27 17 0.40
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTATTCTGGTGACTC
Found at i:57591153 original size:99 final size:100
Alignment explanation
Indices: 57591041--57591226 Score: 320
Period size: 99 Copynumber: 1.9 Consensus size: 100
57591031 AAGCTATCTG
* * *
57591041 GTACGCATAGTAGCCTGCACATATTACTACACATGCGACCAATAATCTGGTACAC-TAGTAGCCT
1 GTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAATAATCCGGTACACATAGTAGCCT
57591105 GCACTTAGTACTACACACGTGATTACAGTTTTCAT
66 GCACTTAGTACTACACACGTGATTACAGTTTTCAT
* *
57591140 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCT
1 GTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAATAATCCGGTACACATAGTAGCCT
57591205 GCACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
57591227 CCTCACAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 50 0.62
100 31 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAATAATCCGGTACACATAGTAGCCT
GCACTTAGTACTACACACGTGATTACAGTTTTCAT
Found at i:57591217 original size:49 final size:49
Alignment explanation
Indices: 57591035--57591221 Score: 220
Period size: 49 Copynumber: 3.8 Consensus size: 49
57591025 TAGCCGAAGC
* * * *
57591035 TATCTGGTACGCATAGTAGCCTGCACATATTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* *
57591084 AATCTGGTACAC-TAGTAGCCTGCACTTAGTACTACACACGTG-ATTA-CAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCA--ACCAAT
* *
57591134 TTTCAT-GTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATC-TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
*
57591183 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
57591222 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
48 25 0.22
49 50 0.43
50 13 0.11
51 28 0.24
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:57598609 original size:18 final size:17
Alignment explanation
Indices: 57598586--57598619 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57598576 TAACTTGTTT
*
57598586 ATTAATCACATTATTCAA
1 ATTAATC-CATAATTCAA
57598604 ATTAATCCATAATTCA
1 ATTAATCCATAATTCA
57598620 TGTTTTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAATCCATAATTCAA
Found at i:57608799 original size:2 final size:2
Alignment explanation
Indices: 57608792--57608831 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
57608782 TTGCATGGCT
57608792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57608832 CACACACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57609657 original size:43 final size:42
Alignment explanation
Indices: 57609490--57609658 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 42
57609480 TATCGTACAA
* * * * *
57609490 TGCCAACGTCCTAGATGTGGTCTTACATGAAATCATATCTCAA
1 TGCCAACGTCCCAGACGTGGTCTTACACG-AATCATATATCAG
*
57609533 TGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-C-G
1 TGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCATATATCAG
* * *
57609573 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCATATATCAG
1 -TGCCAACGTCCCAGACGTGGTCTTACACG-AATCATATATCAG
* *
57609617 TGCCAACGTCCCAGACGTGGTCTTACATGAATACACATATCA
1 TGCCAACGTCCCAGACGTGGTCTTACACGAAT-CATATATCA
57609659 AAACTCCTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
41 24 0.24
42 21 0.21
43 55 0.54
44 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
TGCCAACGTCCCAGACGTGGTCTTACACGAATCATATATCAG
Found at i:57616110 original size:44 final size:42
Alignment explanation
Indices: 57615976--57616129 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 42
57615966 CTCGTACAAA
* * *
57615976 GTGGTCTTACATGTAATCACATATTGATGCCACTATCCCAGAC
1 GTGGTCTTACACGAAATCACATATCGATGCCAC-ATCCCAGAC
* * ** * *
57616019 AG-GGTCTTACATG-AA-CTCATATGCGATGCCGATGTCCTAAAC
1 -GTGGTCTTACACGAAATCACATAT-CGATGCC-ACATCCCAGAC
* *
57616061 ATGGTCTTACACGTAAATCAAATATCGATGCCAACATCCCAGAC
1 GTGGTCTTACACG-AAATCACATATCGATGCC-ACATCCCAGAC
57616105 GTGGTCTTACAC-AAATCACATATCG
1 GTGGTCTTACACGAAATCACATATCG
57616130 GAATCCTATG
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 6 0.07
42 36 0.41
43 12 0.14
44 28 0.32
45 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
GTGGTCTTACACGAAATCACATATCGATGCCACATCCCAGAC
Found at i:57618036 original size:25 final size:25
Alignment explanation
Indices: 57618008--57618057 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
57617998 CACAAACACA
*
57618008 GCTCTTTATGAGCGTCCTGATATGG
1 GCTCTTTATAAGCGTCCTGATATGG
* *
57618033 GCTCTTTTTAAGCTTCCTGATATGG
1 GCTCTTTATAAGCGTCCTGATATGG
57618058 CTCGCTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (25 bp):
GCTCTTTATAAGCGTCCTGATATGG
Found at i:57630332 original size:137 final size:137
Alignment explanation
Indices: 57630086--57630362 Score: 527
Period size: 137 Copynumber: 2.0 Consensus size: 137
57630076 TCTACACATA
* *
57630086 TTTGACCCATATTTTATTTAATAATTAAAAGCCCAATAAAATTCTAACCAAATTAGACTACTTTT
1 TTTGACCCATACTTTATTTAATAATTAAAAGCCCAATAAAATTCTAACCAAATTAGACCACTTTT
*
57630151 AATTTGGGCTAACCTATCATGATAGTAAATAATAACATGTAATTATCCTTATTATATATCTGATG
66 AATTTGGGCTAACCTATCATGATAGTAAATAATAACATGTAATTATACTTATTATATATCTGATG
57630216 TCCAAAT
131 TCCAAAT
57630223 TTTGACCCATACTTTATTTAATAATTAAAAGCCCAATAAAATTCTAACCAAATTAGACCACTTTT
1 TTTGACCCATACTTTATTTAATAATTAAAAGCCCAATAAAATTCTAACCAAATTAGACCACTTTT
57630288 AATTTGGGCTAACCTATCATGATAGTAAATAATAACATGTAATTATACTTATTATATATCTGATG
66 AATTTGGGCTAACCTATCATGATAGTAAATAATAACATGTAATTATACTTATTATATATCTGATG
57630353 TCCAAAT
131 TCCAAAT
57630360 TTT
1 TTT
57630363 CTAACAATCT
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (137 bp):
TTTGACCCATACTTTATTTAATAATTAAAAGCCCAATAAAATTCTAACCAAATTAGACCACTTTT
AATTTGGGCTAACCTATCATGATAGTAAATAATAACATGTAATTATACTTATTATATATCTGATG
TCCAAAT
Found at i:57646432 original size:21 final size:21
Alignment explanation
Indices: 57646397--57646437 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57646387 TAATAAACCG
*
57646397 TTTCATTTAATATATCTAATAT
1 TTTCATTTAAAATAT-TAATAT
57646419 TTTCA-TTAAAATATTAATA
1 TTTCATTTAAAATATTAATA
57646438 AAACTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCATTTAAAATATTAATAT
Found at i:57649557 original size:22 final size:21
Alignment explanation
Indices: 57649525--57649567 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
57649515 TGTTGAGATA
*
57649525 TTGATGAATTAGGCTT-GAAT
1 TTGATGAATTAAGCTTAGAAT
57649545 TTGATAGATATTAAGCTTAGAAT
1 TTGAT-GA-ATTAAGCTTAGAAT
57649568 ATGAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
TTGATGAATTAAGCTTAGAAT
Found at i:57650731 original size:19 final size:19
Alignment explanation
Indices: 57650707--57650753 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
57650697 CAAGATTTTC
57650707 AATCAAAGGATTTAGAACG
1 AATCAAAGGATTTAGAACG
*
57650726 AATCAAAGGATTTAGAATG
1 AATCAAAGGATTTAGAACG
57650745 AATCAAAGG
1 AATCAAAGG
57650754 CAATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (19 bp):
AATCAAAGGATTTAGAACG
Found at i:57654112 original size:42 final size:42
Alignment explanation
Indices: 57654010--57654193 Score: 131
Period size: 43 Copynumber: 4.3 Consensus size: 42
57654000 AACAAGTACA
* ** * * *
57654010 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAGACACGGTATTACACG-AAATCAGATA-CG
** * *
57654053 ATGCCTCTGTCCCAGACAGGGTTTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACACGGTATTACACGAAATCAGATACG
* * * *
57654095 ATACCGATGTCCCAGACATGGTCTTATACGTAAATCTCA-AT-CG
1 ATGCCGATGTCCCAGACACGGTATTACACG-AAA--TCAGATACG
* * * *
57654138 AGGCCTATGTCCTAGACACGGTATTACACAAAATCAGATACG
1 ATGCCGATGTCCCAGACACGGTATTACACGAAATCAGATACG
*
57654180 ATGCTGATGTCCCA
1 ATGCCGATGTCCCA
57654194 TACATGGTCT
Statistics
Matches: 109, Mismatches: 26, Indels: 13
0.74 0.18 0.09
Matches are distributed among these distances:
40 3 0.03
41 2 0.02
42 46 0.42
43 53 0.49
44 2 0.02
45 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACACGGTATTACACGAAATCAGATACG
Found at i:57654149 original size:43 final size:43
Alignment explanation
Indices: 57654101--57654248 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
57654091 TACGATACCG
*
57654101 ATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCT
1 ATGTCCCAGACACGGTCTTATACGTAAATCTCAATCGAGGCCT
* * * * *
57654144 ATGTCCTAGACACGGTATTACAC--AAA-ATCAGATACGATG-CT
1 ATGTCCCAGACACGGTCTTATACGTAAATCTCA-AT-CGAGGCCT
* * * *
57654185 GATGTCCCATACATGGTCTTATATGTAAATCTCAATCGAGGCAT
1 -ATGTCCCAGACACGGTCTTATACGTAAATCTCAATCGAGGCCT
*
57654229 GTGTCCCAGACACGGTCTTA
1 ATGTCCCAGACACGGTCTTA
57654249 CACGATGTCT
Statistics
Matches: 80, Mismatches: 18, Indels: 14
0.71 0.16 0.12
Matches are distributed among these distances:
40 3 0.04
41 7 0.09
42 21 0.26
43 40 0.50
44 6 0.08
45 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACACGGTCTTATACGTAAATCTCAATCGAGGCCT
Found at i:57654165 original size:85 final size:85
Alignment explanation
Indices: 57654013--57654253 Score: 306
Period size: 85 Copynumber: 2.8 Consensus size: 85
57654003 AAGTACAATG
* * * * * * *
57654013 CCGACGTCCCAGACGTGGTCTTACATGT-AAT-TCAATATCGATGCCTCTGTCCCAGACAGGGTT
1 CCGATGTCCCAGACATGGTCTTATATGTAAATCTC-A-ATCGAGGCCTATGTCCCAGACACGGTA
57654076 TTACACGAAATCAGATACGATA
64 TTACACGAAATCAGATACGATA
* *
57654098 CCGATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTATGTCCTAGACACGGTATT
1 CCGATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTATGTCCCAGACACGGTATT
* *
57654163 ACACAAAATCAGATACGATG
66 ACACGAAATCAGATACGATA
* * * * *
57654183 CTGATGTCCCATACATGGTCTTATATGTAAATCTCAATCGAGGCATGTGTCCCAGACACGGTCTT
1 CCGATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTATGTCCCAGACACGGTATT
57654248 ACACGA
66 ACACGA
57654254 TGTCTCAGAC
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
85 129 0.96
86 4 0.03
87 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (85 bp):
CCGATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTATGTCCCAGACACGGTATT
ACACGAAATCAGATACGATA
Found at i:57654511 original size:24 final size:24
Alignment explanation
Indices: 57654484--57654531 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
57654474 GACTTCCTCC
**
57654484 GATCTAAGTTTGATTTTCTTTGTT
1 GATCTAAGTCCGATTTTCTTTGTT
57654508 GATCTAAGTCCGATTTTCTTTGTT
1 GATCTAAGTCCGATTTTCTTTGTT
57654532 CTTGATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (24 bp):
GATCTAAGTCCGATTTTCTTTGTT
Found at i:57659448 original size:25 final size:25
Alignment explanation
Indices: 57659419--57659492 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
57659409 AACCCTCCCT
* *
57659419 CGAGCTATATAACAGGAAGCTCATG
1 CGAGCTATATAACGGGAAGCTCATC
* * * *
57659444 TGAGCCATCTAACGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTCATC
*
57659469 CGGGCTATATAACGGGAAGCTCAT
1 CGAGCTATATAACGGGAAGCTCAT
57659493 AAGAGCCATA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTCATC
Found at i:57667816 original size:23 final size:23
Alignment explanation
Indices: 57667786--57667836 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
57667776 GAGTTAAAGG
57667786 ACTTACTTATATGTGTGAAGTTT
1 ACTTACTTATATGTGTGAAGTTT
57667809 ACTTACTTATATGTGTGAAGTTT
1 ACTTACTTATATGTGTGAAGTTT
57667832 ACTTA
1 ACTTA
57667837 TGCTATGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (23 bp):
ACTTACTTATATGTGTGAAGTTT
Found at i:57667849 original size:22 final size:22
Alignment explanation
Indices: 57667794--57667859 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
57667784 GGACTTACTT
*
57667794 ATATGTGTGAAGTTTACTTACTT
1 ATATGTGTGAAGTTTACTTA-TG
57667817 ATATGTGTGAAGTTTACTTATG
1 ATATGTGTGAAGTTTACTTATG
* *
57667839 CTATG-GATGAA-TTTACCTATG
1 ATATGTG-TGAAGTTTACTTATG
57667860 TCGTGAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 10 0.26
22 9 0.23
23 20 0.51
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
ATATGTGTGAAGTTTACTTATG
Found at i:57667946 original size:20 final size:20
Alignment explanation
Indices: 57667917--57667960 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
57667907 TATGCTAACA
*
57667917 AAATGAAATGGAAAGTAAGT
1 AAATGAAATGGAAAGAAAGT
* *
57667937 AAATGGAATGGTAAGAAAGT
1 AAATGAAATGGAAAGAAAGT
57667957 AAAT
1 AAAT
57667961 AGAGTGGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (20 bp):
AAATGAAATGGAAAGAAAGT
Found at i:57670105 original size:42 final size:42
Alignment explanation
Indices: 57670046--57670207 Score: 155
Period size: 42 Copynumber: 3.8 Consensus size: 42
57670036 GGGTTATCTA
* * *
57670046 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 TGATTTCATGTAAGACCATATCTGAGATATGGCATCGATATG
* * * *
57670088 TGATTTCATATAAGACCATGTCTGAGACATGGCA-CTGGTATG
1 TGATTTCATGTAAGACCATATCTGAGATATGGCATC-GATATG
* ** * * * *
57670130 AGACATCGTGTAAGACCATAGCTGGGCTATCGGCATCGATATG
1 TGATTTCATGTAAGACCATATCTGAGATAT-GGCATCGATATG
**
57670173 TGATCCCATGTAAGACCATATCTGAGATATGGCAT
1 TGATTTCATGTAAGACCATATCTGAGATATGGCAT
57670208 TGGTATCTTA
Statistics
Matches: 91, Mismatches: 26, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
41 1 0.01
42 58 0.64
43 31 0.34
44 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGAGATATGGCATCGATATG
Found at i:57670197 original size:85 final size:84
Alignment explanation
Indices: 57670051--57670213 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 84
57670041 ATCTATGATT
* ** *
57670051 TCGTGTAAGACCATATCTGGGATATGGCATCAATATGTGATTTCATATAAGACCATGTCTGAGAC
1 TCGTGTAAGACCATAGCTGGGATATGGCATCAATATGTGATCCCATATAAGACCATATCTGAGAC
57670116 ATGGCACTGGTATGAGACA
66 ATGGCACTGGTATGAGACA
* * *
57670135 TCGTGTAAGACCATAGCTGGGCTATCGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGA
1 TCGTGTAAGACCATAGCTGGGATAT-GGCATCAATATGTGATCCCATATAAGACCATATCTGAGA
* *
57670200 TATGGCATTGGTAT
65 CATGGCACTGGTAT
57670214 CTTACTATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
84 23 0.33
85 46 0.67
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCATAGCTGGGATATGGCATCAATATGTGATCCCATATAAGACCATATCTGAGAC
ATGGCACTGGTATGAGACA
Found at i:57679353 original size:93 final size:93
Alignment explanation
Indices: 57679194--57679363 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
57679184 CCCCTAAGTG
* * * * *
57679194 AACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATATGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
57679259 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
*
57679287 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
57679352 GAGTTCGGATGC
66 GAGTTCGGATGC
57679364 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:57679354 original size:46 final size:44
Alignment explanation
Indices: 57679190--57679360 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 44
57679180 CCCGCCCCTA
* * * *
57679190 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTGCATCCAT
* *
57679235 ATGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCATC-CAT
57679286 A---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCAT
57679328 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
57679361 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
44 1 0.01
45 1 0.01
46 56 0.53
47 28 0.26
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCAT
Found at i:57679817 original size:30 final size:30
Alignment explanation
Indices: 57679783--57679842 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57679773 ATTTAATACG
57679783 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
57679813 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
57679843 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:57687751 original size:27 final size:28
Alignment explanation
Indices: 57687695--57687764 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
57687685 AAATTTGTAC
57687695 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
57687723 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
57687750 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57687765 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:57687775 original size:27 final size:27
Alignment explanation
Indices: 57687695--57687776 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
57687685 AAATTTGTAC
* *
57687695 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
57687723 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
57687750 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
57687777 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:57695684 original size:27 final size:28
Alignment explanation
Indices: 57695628--57695697 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
57695618 AAATTTGTAC
57695628 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
57695656 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
57695683 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57695698 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:57695708 original size:27 final size:27
Alignment explanation
Indices: 57695628--57695709 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
57695618 AAATTTGTAC
* *
57695628 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
57695656 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
57695683 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
57695710 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:57698030 original size:40 final size:40
Alignment explanation
Indices: 57697993--57698222 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
57697983 GGATATAGCT
* *
57697993 ACTCGCTCAAATGCCTTCGGGACTTAGCTCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
57698033 GTTCGCACAAATGCCTTCGGGACTTAGCCCAG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
57698073 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
57698113 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
57698153 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
57698193 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
57698223 CGTTATCATC
Statistics
Matches: 175, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 173 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:57698119 original size:80 final size:80
Alignment explanation
Indices: 57697967--57698222 Score: 358
Period size: 80 Copynumber: 3.2 Consensus size: 80
57697957 AAACCAAGTA
* * * *
57697967 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCTCGG-ATAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-T
**
57698029 AGTAGTTCGCACAAATG
64 AGTAACTCGCACAAATG
* *
57698046 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
57698111 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
57698126 CCTTCGGGACTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
* *
57698190 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
57698206 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57698223 CGTTATCATC
Statistics
Matches: 159, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 14 0.09
80 143 0.90
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:57701035 original size:28 final size:28
Alignment explanation
Indices: 57701003--57701101 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
57700993 GCAATAAGCC
*
57701003 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
57701031 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
57701059 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
57701088 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57701102 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:57708724 original size:39 final size:40
Alignment explanation
Indices: 57708625--57708799 Score: 241
Period size: 40 Copynumber: 4.4 Consensus size: 40
57708615 AAACCAAGTA
* * *
57708625 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* **
57708664 CTTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57708704 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57708743 CCTTCGGGACTTAGCCCGGAAATTAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57708783 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57708800 CGTTATCATC
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 49 0.40
40 65 0.53
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57708756 original size:79 final size:80
Alignment explanation
Indices: 57708625--57708799 Score: 241
Period size: 79 Copynumber: 2.2 Consensus size: 80
57708615 AAACCAAGTA
* * * * *
57708625 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCTTTCGGGACTTAGCCCGGATA-TA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATTA
**
57708688 GTAGTTCGCACAAATG
66 GTAACT-GCACAAATG
57708704 CCTTC-GGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATT
57708767 AGTAACTGCACAAATG
65 AGTAACTGCACAAATG
57708783 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57708800 CGTTATCATC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 7 0.08
79 61 0.72
80 17 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATTA
GTAACTGCACAAATG
Found at i:57713540 original size:21 final size:20
Alignment explanation
Indices: 57713516--57713556 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57713506 ACATGGCTAG
* *
57713516 TAAATGAAATGGAATTGGATT
1 TAAATAAAAT-GAAATGGATT
57713537 TAAATAAAATGAAATGGATT
1 TAAATAAAATGAAATGGATT
57713557 GGTGATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (20 bp):
TAAATAAAATGAAATGGATT
Found at i:57713992 original size:21 final size:21
Alignment explanation
Indices: 57713959--57714008 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
57713949 TAATCGATTC
57713959 ACAAATT--AATAGT-ATTAA
1 ACAAATTAAAATAGTAATTAA
*
57713977 TCCAAATTAAAATAGTAATTAA
1 -ACAAATTAAAATAGTAATTAA
57713999 ACAAATTAAA
1 ACAAATTAAA
57714009 TTACTAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 6 0.23
21 15 0.58
22 5 0.19
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (21 bp):
ACAAATTAAAATAGTAATTAA
Found at i:57714371 original size:18 final size:19
Alignment explanation
Indices: 57714344--57714386 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
57714334 ATACTCTTGA
* *
57714344 ATAAACAACCAATTTA-AG
1 ATAAATAACCAATTAACAG
*
57714362 ATAAATAACCACTTAACAG
1 ATAAATAACCAATTAACAG
57714381 ATAAAT
1 ATAAAT
57714387 TAGTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAAATAACCAATTAACAG
Found at i:57715378 original size:16 final size:15
Alignment explanation
Indices: 57715352--57715381 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57715342 ATTAAATTAA
57715352 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
57715367 TTAACGTAAATGCAA
1 TTAAC-TAAATGCAA
57715382 ACGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:57724741 original size:27 final size:28
Alignment explanation
Indices: 57724674--57724747 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
57724664 ATTGCATGAC
*
57724674 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGACAGGCCA
* *
57724702 TATGAAAGTGATTGGGCC-GATAGGCCA
1 TATGAATGTGATTGGGCCTGACAGGCCA
* *
57724729 TATGAATGAGATTTGGCCT
1 TATGAATGTGATTGGGCCT
57724748 AAAAGGGCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGACAGGCCA
Found at i:57731878 original size:28 final size:29
Alignment explanation
Indices: 57731846--57731900 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
57731836 CACGGGCAAT
*
57731846 GACATGGGCGTGT-CTAGGCCATGTGAGG
1 GACATGAGCGTGTGCTAGGCCATGTGAGG
* *
57731874 GACATGAGCGTGTGCTTGGCCGTGTGA
1 GACATGAGCGTGTGCTAGGCCATGTGA
57731901 AAACCCTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.16, C:0.18, G:0.42, T:0.24
Consensus pattern (29 bp):
GACATGAGCGTGTGCTAGGCCATGTGAGG
Found at i:57736217 original size:47 final size:47
Alignment explanation
Indices: 57736159--57736399 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
57736149 TTAGGATTTT
** * * *
57736159 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
57736206 ATGTGACGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
57736253 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
57736300 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
57736347 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
57736394 ATGTGA
1 ATGTGA
57736400 AATATGTATG
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:57736246 original size:25 final size:25
Alignment explanation
Indices: 57736218--57736289 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 25
57736208 GTGACGAATG
57736218 TGAACATGCATATATGTGATAAGGC
1 TGAACATGCATATATGTGATAAGGC
* *
57736243 TG-A-ATGGC-CA-ATGTGATGAATG-
1 TGAACAT-GCATATATGTGAT-AAGGC
57736265 TGAACATGCATATATGTGATAAGGC
1 TGAACATGCATATATGTGATAAGGC
57736290 CGAATGGCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
22 9 0.25
23 9 0.25
24 9 0.25
25 9 0.25
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (25 bp):
TGAACATGCATATATGTGATAAGGC
Found at i:57736259 original size:22 final size:22
Alignment explanation
Indices: 57736231--57736306 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
57736221 ACATGCATAT
57736231 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* *
57736253 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCTG-A-ATGGC-CA
*
57736277 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
57736300 ATGTGAT
1 ATGTGAT
57736307 GAATGTGAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:57736355 original size:25 final size:25
Alignment explanation
Indices: 57736280--57736355 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
57736270 ATGCATATAT
57736280 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
57736305 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
57736327 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
57736352 GTGA
1 GTGA
57736356 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:57736432 original size:48 final size:48
Alignment explanation
Indices: 57736369--57736557 Score: 272
Period size: 48 Copynumber: 3.8 Consensus size: 48
57736359 TGAACATGCA
57736369 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
57736417 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
57736465 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG----A-A-ATATGTATGAGATATG
* *
57736519 TATATGTGGTAAAGCCGAATGGCTAGTATGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
57736558 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
47 1 0.01
48 81 0.64
49 1 0.01
50 1 0.01
52 1 0.01
53 1 0.01
54 40 0.31
55 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:57736551 original size:102 final size:96
Alignment explanation
Indices: 57736370--57736557 Score: 279
Period size: 102 Copynumber: 1.9 Consensus size: 96
57736360 GAACATGCAT
*
57736370 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
57736435 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATATGAAATATGTATGAGATATGC
57736466 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATATGAGATATGTATATGTGGTA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG----A-A-ATATATATGAGATATGTATATGTGGTA
*
57736530 AAGCCGAATGGCTAGTATGAAATATGTA
59 AAGCCGAATGGCTAATATGAAATATGTA
57736558 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
100 1 0.01
101 1 0.01
102 52 0.63
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATATGAAATATGTATGAGATATGC
Found at i:57736811 original size:37 final size:37
Alignment explanation
Indices: 57736703--57736811 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
57736693 GGAAATATAT
*
57736703 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
57736740 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
57736777 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
57736812 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:57739572 original size:17 final size:17
Alignment explanation
Indices: 57739547--57739580 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57739537 CAGTAACATG
57739547 AAAACGCAAGGACAATA
1 AAAACGCAAGGACAATA
* *
57739564 AAAATGCAATGACAATA
1 AAAACGCAAGGACAATA
57739581 TATACTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.12
Consensus pattern (17 bp):
AAAACGCAAGGACAATA
Found at i:57739663 original size:27 final size:27
Alignment explanation
Indices: 57739625--57739678 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
57739615 AATTGATGAA
57739625 TACTATAAGAAAAGTTTAAAATAAACT
1 TACTATAAGAAAAGTTTAAAATAAACT
57739652 TACTATAAGAAAAGTTTAAAATAAACT
1 TACTATAAGAAAAGTTTAAAATAAACT
57739679 AACTCAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (27 bp):
TACTATAAGAAAAGTTTAAAATAAACT
Found at i:57740080 original size:18 final size:18
Alignment explanation
Indices: 57740057--57740116 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
57740047 TCATTTTTAG
57740057 CAACTTCTTCTTCAGCAA
1 CAACTTCTTCTTCAGCAA
* *
57740075 CAACTTCCTCTTCTGCAATA
1 CAACTTCTTCTTCAGC-A-A
57740095 GCAACTTCCTT-TTCAGCAA
1 -CAACTT-CTTCTTCAGCAA
57740114 CAA
1 CAA
57740117 TGTCCTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 17 0.50
19 2 0.06
20 2 0.06
21 11 0.32
22 2 0.06
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.32
Consensus pattern (18 bp):
CAACTTCTTCTTCAGCAA
Found at i:57740088 original size:21 final size:21
Alignment explanation
Indices: 57740062--57740125 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
57740052 TTTAGCAACT
57740062 TCTTCTTCAGCAACAACTTCC
1 TCTTCTTCAGCAACAACTTCC
* ** *
57740083 TCTTCTGCAATAGCAACTT-C
1 TCTTCTTCAGCAACAACTTCC
57740103 -CTT-TTCAGCAACAA-TGTCC
1 TCTTCTTCAGCAACAACT-TCC
57740122 TCTT
1 TCTT
57740126 AATCAGTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 4 0.12
20 4 0.12
21 15 0.47
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTTCTTCAGCAACAACTTCC
Found at i:57742545 original size:50 final size:50
Alignment explanation
Indices: 57742420--57742665 Score: 316
Period size: 50 Copynumber: 4.9 Consensus size: 50
57742410 ACATTAATAT
* * ** *
57742420 CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTCAGGTATTGA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGC
* * * *
57742469 CGATGCCTTGTCCCAAACATGGTCTTACACTAGCTCTCACGTATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGC
* * * * *
57742519 TGATGCCATGTCTCAGACATGGTCTTACATTGGCTCTCACAAATCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGC
* * *
57742569 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATATCAAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGC
57742619 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-TATCGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CATATCGA
57742666 TGCCATGTCC
Statistics
Matches: 171, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
49 40 0.23
50 130 0.76
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGC
Found at i:57742605 original size:100 final size:99
Alignment explanation
Indices: 57742389--57742657 Score: 350
Period size: 100 Copynumber: 2.7 Consensus size: 99
57742379 ATGTCTCTAG
**
57742389 ACATGGTCTTACACT-GCTCAT-ACAT-T-AATATCGATGCCATGTCCCAGACATGGTCTTACAT
1 ACATGGTCTTACACTAGCTC-TCACATATCAAGGTCGATGCCATGTCCCAGACATGGTCTTACAT
* *** ** *
57742450 TGACTCTCAGGTATTGAGCCGATGCCTTGTCCCAA
65 TGGCTCTCACAAATCAAGCCGATGCCATGTCCCAA
* * *
57742485 ACATGGTCTTACACTAGCTCTCACGTATCGAGG-CTGATGCCATGTCTCAGACATGGTCTTACAT
1 ACATGGTCTTACACTAGCTCTCACATATCAAGGTC-GATGCCATGTCCCAGACATGGTCTTACAT
57742549 TGGCTCTCACAAATCAAGGCCGATGCCATGTCCCAA
65 TGGCTCTCACAAATCAA-GCCGATGCCATGTCCCAA
* *
57742585 ACATGGTCTTACACTGGCTCTCACATATCAAGGTCGATGCCATGTCCCAGACATGGTCTTACACT
1 ACATGGTCTTACACTAGCTCTCACATATCAAGGTCGATGCCATGTCCCAGACATGGTCTTACATT
57742650 GGCTCTCA
66 GGCTCTCA
57742658 TCTATCGATG
Statistics
Matches: 149, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
96 16 0.11
97 7 0.05
98 2 0.01
99 40 0.27
100 83 0.56
101 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (99 bp):
ACATGGTCTTACACTAGCTCTCACATATCAAGGTCGATGCCATGTCCCAGACATGGTCTTACATT
GGCTCTCACAAATCAAGCCGATGCCATGTCCCAA
Found at i:57742702 original size:44 final size:44
Alignment explanation
Indices: 57742376--57742702 Score: 147
Period size: 50 Copynumber: 6.8 Consensus size: 44
57742366 AGATGACGAC
* * *
57742376 GCCATGTCTCTAGACATGGTCTTACACT-GCTCATACATTAATATCGAT
1 GCCATGTC-CCAGACATGGTCTTACACTAGCAC-T-CA-T-CTATCGAT
* * * *
57742424 GCCATGTCCCAGACATGGTCTTACA-TTGACTCTCAGGTATTGAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CACTCA--T-CT-A-TCGAT
* * *
57742473 GCCTTGTCCCAAACATGGTCTTACACTAGCTCTCA-CGTATCGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-TAT-----C-GAT
* * * * * *
57742523 GCCATGTCTCAGACATGGTCTTACATTGGCTCTCACAAATCAAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACT--C--ATCTA--TCGAT
* * * *
57742573 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATATCAAGGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACT--C--ATCTA--TCGAT
* *
57742623 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTATCGAT
* *
57742667 GCCATGTCCTAGACATGGTCTTACGCTAGCACTCAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACTCAT
57742703 ATAACCTTAG
Statistics
Matches: 232, Mismatches: 27, Indels: 44
0.77 0.09 0.15
Matches are distributed among these distances:
44 37 0.16
45 1 0.00
46 8 0.03
47 21 0.09
48 13 0.06
49 34 0.15
50 113 0.49
51 1 0.00
52 1 0.00
54 2 0.01
55 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTATCGAT
Found at i:57747842 original size:124 final size:121
Alignment explanation
Indices: 57747625--57747873 Score: 399
Period size: 124 Copynumber: 2.0 Consensus size: 121
57747615 AGCTCGAACA
* * *
57747625 GGTGTTCCTTGAGTGATCGAGCCTCCCAAATAATGTGTGCATTGTGGATTTAGCTGGACGAGTAA
1 GGTGTTCCTTGAGTGATCGAGCCTCCCAAAAAATGTGTGCATTGTGGATTTAGCCGAACGAGTAA
* * *
57747690 TCCGATTAGGGTCTGAATTTAGCCTGGACTGGTAATTCAGATCTGAGCTCATTAAG
66 TCCGATTAGGGTCTAAATTTAGCCTGGACTGGTAATTCAAATCCGAGCTCATTAAG
* *
57747746 GGTGTTCTTTGAGTGATCGAGCCTCCCAAAGAATATGTGTGCATTGTGGATTTAGCCCGAACGGG
1 GGTGTTCCTTGAGTGATCGAGCCTCCCAAA-AA-ATGTGTGCATTGTGGATTTAG-CCGAACGAG
57747811 TAATCCGATTAGGGTCTAAATTTAGCCTGGACTGGTAATTCAAATCCGAGCTCATTAAG
63 TAATCCGATTAGGGTCTAAATTTAGCCTGGACTGGTAATTCAAATCCGAGCTCATTAAG
57747870 GGTG
1 GGTG
57747874 GTTGTCGCTA
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
121 29 0.25
122 1 0.01
123 21 0.18
124 66 0.56
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (121 bp):
GGTGTTCCTTGAGTGATCGAGCCTCCCAAAAAATGTGTGCATTGTGGATTTAGCCGAACGAGTAA
TCCGATTAGGGTCTAAATTTAGCCTGGACTGGTAATTCAAATCCGAGCTCATTAAG
Found at i:57760592 original size:40 final size:40
Alignment explanation
Indices: 57760544--57760709 Score: 219
Period size: 40 Copynumber: 4.2 Consensus size: 40
57760534 GGACTAAGAT
57760544 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
57760584 TCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
* * * *
57760624 CCGAAGGCATTTGTGCTAGTGACTATGTCCAGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
* * * * *
57760664 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGATTATATCCGGGCTAAGTC
57760703 CCGAAGG
1 CCGAAGG
57760710 TACTTGGGTT
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.13
40 98 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
Found at i:57762375 original size:12 final size:11
Alignment explanation
Indices: 57762323--57762389 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 11
57762313 ATCTTTCACA
57762323 TTTTCTTTTCT
1 TTTTCTTTTCT
* *
57762334 TTTTC-TCTCA
1 TTTTCTTTTCT
*
57762344 TTTTC--CTCT
1 TTTTCTTTTCT
*
57762353 TTTTCAATTTCT
1 TTTTC-TTTTCT
57762365 TTTTCTTTTTCT
1 TTTTC-TTTTCT
*
57762377 TTCTCTTTTCT
1 TTTTCTTTTCT
57762388 TT
1 TT
57762390 CAATTCTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 8 0.17
10 8 0.17
11 13 0.28
12 17 0.37
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:57762402 original size:29 final size:29
Alignment explanation
Indices: 57762356--57762427 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
57762346 TTCCTCTTTT
57762356 TCAATTTCTTT--TTC--TTTTTCTT-TC
1 TCAATTTCTTTAATTCTTTTTTTCTTCTC
*
57762380 TC-TTTTCTTTCAATTCTTTTTTTCTTCTC
1 TCAATTTCTTT-AATTCTTTTTTTCTTCTC
*
57762409 TCAATTTCTTTTATTCTTT
1 TCAATTTCTTTAATTCTTT
57762428 GATCATTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 7 0.18
24 2 0.05
26 3 0.08
28 8 0.21
29 11 0.29
30 7 0.18
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (29 bp):
TCAATTTCTTTAATTCTTTTTTTCTTCTC
Found at i:57762407 original size:20 final size:21
Alignment explanation
Indices: 57762384--57762426 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
57762374 TCTTTCTCTT
* *
57762384 TTCTTTCAA-TTCTTTTTTTC
1 TTCTCTCAATTTCTTTTATTC
57762404 TTCTCTCAATTTCTTTTATTC
1 TTCTCTCAATTTCTTTTATTC
57762425 TT
1 TT
57762427 TGATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTCTCAATTTCTTTTATTC
Found at i:57773873 original size:39 final size:39
Alignment explanation
Indices: 57773812--57773980 Score: 250
Period size: 39 Copynumber: 4.3 Consensus size: 39
57773802 TTTGAGGGTT
* *
57773812 GTGATATATGCTTGAATATTATGTGATTATATGAGTATT
1 GTGATATATGCTTGAATGTTATGTGATTATATGAGTATG
* * *
57773851 ATGATATATGCTTGAGTGTTATGTGATTATATGATTATG
1 GTGATATATGCTTGAATGTTATGTGATTATATGAGTATG
*
57773890 GTGATATATGATTGAATGTTATGTGATTATATGAGTATG
1 GTGATATATGCTTGAATGTTATGTGATTATATGAGTATG
* *
57773929 GTGATATATGCTTAAATGTTATGTGATTATATGTGTAAT-
1 GTGATATATGCTTGAATGTTATGTGATTATATGAGT-ATG
57773968 GTGATATATGCTT
1 GTGATATATGCTT
57773981 AAGAGTGAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 115 0.98
40 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (39 bp):
GTGATATATGCTTGAATGTTATGTGATTATATGAGTATG
Found at i:57773885 original size:8 final size:8
Alignment explanation
Indices: 57773869--57773961 Score: 52
Period size: 8 Copynumber: 11.9 Consensus size: 8
57773859 TGCTTGAGTG
*
57773869 TTATGTGA
1 TTATATGA
57773877 TTATATGA
1 TTATATGA
*
57773885 TTATGGTGA
1 TTAT-ATGA
57773894 -TATATGA
1 TTATATGA
57773901 TTGA-ATG-
1 TT-ATATGA
*
57773908 TTATGTGA
1 TTATATGA
57773916 TTATATGA
1 TTATATGA
* *
57773924 GTATGGTGA
1 TTAT-ATGA
*
57773933 -TATATGC
1 TTATATGA
*
57773940 TTAAATG-
1 TTATATGA
*
57773947 TTATGTGA
1 TTATATGA
57773955 TTATATG
1 TTATATG
57773962 TGTAATGTGA
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.02
7 14 0.22
8 42 0.66
9 7 0.11
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (8 bp):
TTATATGA
Found at i:57773912 original size:23 final size:22
Alignment explanation
Indices: 57773885--57773961 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 22
57773875 GATTATATGA
57773885 TTATGGTGATATATGATTGAATG
1 TTAT-GTGATATATGATTGAATG
57773908 TTATGTGAT-TAT-A-TG-A-G
1 TTATGTGATATATGATTGAATG
* *
57773925 -TATGGTGATATATGCTTAAATG
1 TTAT-GTGATATATGATTGAATG
57773947 TTATGTGATTATATG
1 TTATGTGA-TATATG
57773962 TGTAATGTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
16 3 0.07
17 6 0.14
18 4 0.09
19 2 0.05
20 2 0.05
21 4 0.09
22 10 0.23
23 13 0.30
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.45
Consensus pattern (22 bp):
TTATGTGATATATGATTGAATG
Found at i:57775200 original size:53 final size:54
Alignment explanation
Indices: 57775117--57775253 Score: 206
Period size: 53 Copynumber: 2.6 Consensus size: 54
57775107 TTCCTTAAAA
*
57775117 TTTCCTATATGATGCCATAACCCACCAGTTACAGTCTGACACAATATAGTCTT-
1 TTTCCAATATGATGCCATAACCCACCAGTTACAGTCTGACACAATATAGTCTTC
* * * * *
57775170 TTTCCCATATGATGCCATAACCCACTAGTTACGGTCTTACACAATATGGTCTTC
1 TTTCCAATATGATGCCATAACCCACCAGTTACAGTCTGACACAATATAGTCTTC
57775224 TTT-CAATATGATGCCATAACCCACCAGTTA
1 TTTCCAATATGATGCCATAACCCACCAGTTA
57775254 TGGTCATACA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 73 0.96
54 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (54 bp):
TTTCCAATATGATGCCATAACCCACCAGTTACAGTCTGACACAATATAGTCTTC
Found at i:57775270 original size:53 final size:52
Alignment explanation
Indices: 57775117--57775277 Score: 198
Period size: 53 Copynumber: 3.0 Consensus size: 52
57775107 TTCCTTAAAA
* * *
57775117 TTTCCTATATGATGCCATAACCCACCAGTTACAGTCTGACACAATATAGTCTT
1 TTTCCAATATGATGCCATAACCCACCAGTTACGGTCT-ACACAATATGGTCTT
* *
57775170 TTTCCCATATGATGCCATAACCCACTAGTTACGGTCTTACACAATATGGTCTT
1 TTTCCAATATGATGCCATAACCCACCAGTTACGGTC-TACACAATATGGTCTT
* **
57775223 CTTT-CAATATGATGCCATAACCCACCAGTTATGGTCATACATGATATGGTTCTT
1 -TTTCCAATATGATGCCATAACCCACCAGTTACGGTC-TACACAATATGG-TCTT
57775277 T
1 T
57775278 AGCGCCATGG
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
53 87 0.92
54 8 0.08
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (52 bp):
TTTCCAATATGATGCCATAACCCACCAGTTACGGTCTACACAATATGGTCTT
Found at i:57778071 original size:29 final size:28
Alignment explanation
Indices: 57778029--57778083 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
57778019 GTGACAAAAA
*
57778029 CTGATTTGGCTTCGGGCCATGCATATCGG
1 CTGATTTCGCTTCGGGCCATG-ATATCGG
57778058 CTGATTTCGCTTCGGGCCATGATATC
1 CTGATTTCGCTTCGGGCCATGATATC
57778084 AATATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.33
Consensus pattern (28 bp):
CTGATTTCGCTTCGGGCCATGATATCGG
Found at i:57780076 original size:20 final size:20
Alignment explanation
Indices: 57780026--57780076 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
57780016 AGATAGGGGT
*
57780026 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGA
* *
57780046 ACACGCTCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
57780066 ACATGCCCGTG
1 ACATGCCCGTG
57780077 GGCAGATTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.14, C:0.31, G:0.35, T:0.20
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:57780607 original size:13 final size:13
Alignment explanation
Indices: 57780589--57780625 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
57780579 AGATAATTAG
57780589 CAAATCATACATA
1 CAAATCATACATA
57780602 CAAATCATACATA
1 CAAATCATACATA
*
57780615 TAAATTCATAC
1 CAAA-TCATAC
57780626 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:57781033 original size:37 final size:39
Alignment explanation
Indices: 57780946--57781042 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
57780936 CACACCAGAA
*
57780946 TGGCGACCAACGCCTCATCGGATAGTTTGAAGCAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGTCTGAAGC-AATAAG
** * *
57780986 TGATGACCAACGTCTCATCGGCTAAG-CTGAAGC-A-AAG
1 TGGCGACCAACGCCTCATCGGAT-AGTCTGAAGCAATAAG
57781023 TGGCGACCAACGCCTCATCG
1 TGGCGACCAACGCCTCATCG
57781043 AATCTATCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 20 0.42
38 1 0.02
40 25 0.52
41 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.19
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGTCTGAAGCAATAAG
Found at i:57784282 original size:40 final size:40
Alignment explanation
Indices: 57784220--57784483 Score: 338
Period size: 40 Copynumber: 6.6 Consensus size: 40
57784210 CGGATGATAA
* * *
57784220 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
*
57784260 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
57784300 CCGAGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
*
57784340 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
57784380 CCGGGCTAAGTCCCGAAGGCGTTTGTGCAAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
57784419 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
57784459 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57784484 AGCTAGTGGC
Statistics
Matches: 206, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.17
40 166 0.81
41 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:57786823 original size:40 final size:40
Alignment explanation
Indices: 57786729--57786912 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
57786719 TATTCGAATG
* *
57786729 ATATCCGGGCTAAG-TCCCTAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
57786770 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
57786810 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
57786850 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
57786890 ATATCC-GGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
57786913 CTTGTGCAAG
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 16 0.13
40 75 0.62
41 28 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:57786892 original size:80 final size:81
Alignment explanation
Indices: 57786729--57786911 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
57786719 TATTCGAATG
* * ** *
57786729 ATATCCGGGCTAAGTCCCTAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
57786794 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
57786810 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
57786873 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
57786890 ATATCC-GGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGG
57786912 CCTTGTGCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 19 0.21
80 41 0.46
81 30 0.33
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:57790347 original size:47 final size:46
Alignment explanation
Indices: 57790232--57790599 Score: 218
Period size: 47 Copynumber: 7.9 Consensus size: 46
57790222 TGATTTGTGC
* ** *
57790232 CAAG-GCCAGTGTAAGACATGTCTGGGACATGCTTCGGC-CATATTA
1 CAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCCA-GA
** * *
57790277 TGAGATCCAGTGTAAGACTATGTCTGGGGCATGGCATCGGCACCCAGA
1 CAAGAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCACCCAGA
* * * * *
57790325 CAAGGGCTAGTGTAAGACATGTCTGGGACATACAT---CAGCCATA
1 CAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCCAGA
* **
57790368 CTATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGA
1 C-A--AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACCCAGA
** * *
57790419 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTC-GA
1 CAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCCAGA
* *
57790463 CAGAGATAGCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA---AGA
1 CA-AG--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACCCAGA
*** * * * **
57790510 GTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGC-GTA
1 CAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCCAG-A
* *
57790556 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 CA--AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
57790600 ATATATCCCA
Statistics
Matches: 246, Mismatches: 51, Indels: 47
0.72 0.15 0.14
Matches are distributed among these distances:
43 8 0.03
44 33 0.13
45 6 0.02
46 37 0.15
47 86 0.35
48 49 0.20
49 15 0.06
50 8 0.03
51 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
CAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCCAGA
Found at i:57790404 original size:94 final size:92
Alignment explanation
Indices: 57790239--57790599 Score: 394
Period size: 94 Copynumber: 3.9 Consensus size: 92
57790229 TGCCAAGGCC
* * * * *
57790239 AGTGTAAGACATGTCTGGGACATGCTTCGGCCATATTATGAGATCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
57790304 GGCATGGCATCGGCACCCAGACAAGGGCT
66 GACATGGCATCGGCA--CAGACAAGTGCT
* *
57790333 AGTGTAAGACATGTCTGGGACATACATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
57790398 GACATGGCATCGGCACAGAGATGAGTGCC
66 GACATGGCATCGGCACAGACA--AGTGCT
* *
57790427 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
* ***
57790488 CTGGGACA-CGCATCGGCTA-AGAGTTGTGCT
62 CTGGGACATGGCATCGGC-ACAGACAAGTGCT
*
57790518 AGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTATATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC---TATGAGAGCCAGTGTAAGACCATGTC
*
57790582 TAGGACATGGCATCGGCA
63 TGGGACATGGCATCGGCA
57790600 ATATATCCCA
Statistics
Matches: 228, Mismatches: 24, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 34 0.15
92 18 0.08
93 28 0.12
94 131 0.57
95 15 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCACAGACAAGTGCT
Found at i:57790489 original size:141 final size:137
Alignment explanation
Indices: 57790236--57790599 Score: 382
Period size: 141 Copynumber: 2.6 Consensus size: 137
57790226 TTGTGCCAAG
* *
57790236 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGC-CATATTATGAGAT-CCAGTGTAAGACTATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGA-TATGAG-TGCCAGTGTAAGAC-ATG
* * * *
57790299 TCTGGGGCATGGCATCGGCACCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATACATCAGC
63 TCTGGGACATGGCATCGGCACCCAGACAAGAGCCAGTGTAAGACATGTCTGGGACACACATCAGC
* *
57790364 -CATACTATGAT
128 TAAGACT-TG-T
*
57790375 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACATG
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGATATGAGTGCCAGTGTAAGACATG
* * *
57790440 TCTGGGACAT-GCATCGGC-CTC-GACAGAGATAGCCAGTGTAAGACGTGTCTGGGACACGCATC
63 TCTGGGACATGGCATCGGCACCCAGACA-AG--AGCCAGTGTAAGACATGTCTGGGACACACATC
* *
57790502 GGCTAAGAGTTGT
125 AGCTAAGACTTGT
* * *
57790515 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGC-GTATATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAG-ATATGAGTGCCAGTGTAAGA-CAT
*
57790579 GTCTAGGACATGGCATCGGCA
62 GTCTGGGACATGGCATCGGCA
57790600 ATATATCCCA
Statistics
Matches: 191, Mismatches: 19, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
137 8 0.04
138 19 0.10
139 34 0.18
140 34 0.18
141 66 0.35
142 27 0.14
143 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (137 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGATATGAGTGCCAGTGTAAGACATGTCT
GGGACATGGCATCGGCACCCAGACAAGAGCCAGTGTAAGACATGTCTGGGACACACATCAGCTAA
GACTTGT
Found at i:57794997 original size:29 final size:29
Alignment explanation
Indices: 57794965--57795096 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
57794955 ATAGTGAATC
57794965 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
57794994 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
57795024 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
57795053 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
57795082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57795097 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:57795106 original size:59 final size:59
Alignment explanation
Indices: 57794965--57795096 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
57794955 ATAGTGAATC
57794965 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
57795024 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
57795082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57795097 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:57798257 original size:21 final size:21
Alignment explanation
Indices: 57798233--57798275 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
57798223 TCAAAAGGAG
57798233 TTGAATTTGAGGCAACGTCGA
1 TTGAATTTGAGGCAACGTCGA
57798254 TTGAATTTGAGGCAACGTCGA
1 TTGAATTTGAGGCAACGTCGA
57798275 T
1 T
57798276 GGTTAGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAATTTGAGGCAACGTCGA
Found at i:57800717 original size:28 final size:28
Alignment explanation
Indices: 57800652--57800752 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
57800642 ATAGTGAATC
*
57800652 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
57800681 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57800709 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
57800739 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57800753 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57808641 original size:28 final size:28
Alignment explanation
Indices: 57808576--57808676 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
57808566 ATAGTGAATC
*
57808576 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
57808605 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57808633 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
57808663 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57808677 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57812141 original size:47 final size:46
Alignment explanation
Indices: 57811984--57812353 Score: 247
Period size: 47 Copynumber: 7.9 Consensus size: 46
57811974 TGATTTGTGC
* * * *
57811984 GCCAGTGTAAGACGTGTGTGGGACATGCTTCGGCCACAT-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATATATGATA
* * * * * * **
57812030 GCTAGTGTAAGACTATGTCTGGGGCATGGCATCAGCATC-CAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA-CATATATGATA
* *
57812078 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATA-TATGATA
* * * *
57812124 GCCAATGTAAGAGCATGTCTGGGACATGGTATCGGCACAGAGATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATATATGA-TA
* * * *
57812172 GCAAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAC-ATATATGATA
* * *
57812219 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAGT-TG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACATA-TATGATA
* * * * *
57812263 GCTAGTGTAAGACATGTCTGGGACATGCATCAGTACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCACATATATGATA
*
57812311 GCCGGTGTAAGACCATGTCTGGGACATGGCATCGGCA-ATATAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATATAT
57812354 CCCATGTTGA
Statistics
Matches: 254, Mismatches: 46, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
44 29 0.11
45 6 0.02
46 46 0.18
47 91 0.36
48 58 0.23
49 19 0.07
50 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATATATGATA
Found at i:57812152 original size:94 final size:92
Alignment explanation
Indices: 57811987--57812347 Score: 349
Period size: 94 Copynumber: 3.9 Consensus size: 92
57811977 TTTGTGCGCC
* * * * * * *
57811987 AGTGTAAGACGTGTGTGGGACATGCTTCGGCCACATTATGAGAGCTAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGAC-ATGTCTGG
* * * *
57812052 GGCATGGCATCAGCATCCAGACGAGGGCT
65 GACATGGCATCGGCATCAAGA-GAGTGCT
* *
57812081 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAATGTAAGAGCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGA-CATGTCTGG
* *
57812146 GACATGGTATCGGCA-CAGAGATGAGTGCA
65 GACATGGCATCGGCATCA-AGA-GAGTGCT
* * * *
57812175 AGTGTAAGACATGTCTGGGACATGCATCGGCC-T-CGAAAGAGATAGCCAGTGTAAGACGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC-TATGAG--AGCCAGTGTAAGACATGTCT
* *
57812238 GGGACA-CGCATCGGC-T-AAGAGTTGTGCT
63 GGGACATGGCATCGGCATCAAGAG-AGTGCT
* *
57812266 AGTGTAAGACATGTCTGGGACATGCATCAGTACGCGTA-TATGAGAGCCGGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGA-CATGTC
57812330 TGGGACATGGCATCGGCA
62 TGGGACATGGCATCGGCA
57812348 ATATATCCCA
Statistics
Matches: 220, Mismatches: 32, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
90 1 0.00
91 36 0.16
92 14 0.06
93 25 0.11
94 130 0.59
95 14 0.06
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGGCATCGGCATCAAGAGAGTGCT
Found at i:57813171 original size:29 final size:29
Alignment explanation
Indices: 57813129--57813186 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
57813119 TAAATAAATT
57813129 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
57813158 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
57813187 TCGGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTTTTTGGAACTACATAGATCTATGGAA
Found at i:57818787 original size:21 final size:21
Alignment explanation
Indices: 57818727--57818787 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
57818717 CATATATATA
*
57818727 CTTATATTAAGCTTTAA-TTAGT
1 CTTA-ATTAA-CTTTAATTTAAT
* **
57818749 -TTAATTAACTATGTTTTAAT
1 CTTAATTAACTTTAATTTAAT
57818769 CTTAATTAACTTTAATTTA
1 CTTAATTAACTTTAATTTA
57818788 CTAATTAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
19 3 0.10
20 9 0.30
21 18 0.60
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.52
Consensus pattern (21 bp):
CTTAATTAACTTTAATTTAAT
Found at i:57840246 original size:40 final size:40
Alignment explanation
Indices: 57840189--57840374 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
57840179 TCGAATGATG
* * * *
57840189 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
57840229 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
57840269 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
57840309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
57840350 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
57840375 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57840381 original size:80 final size:79
Alignment explanation
Indices: 57840242--57840397 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
57840232 GGACTAAGAT
* **
57840242 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
57840306 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
57840322 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
57840385 TATATCCGGTTAA
64 TAAATCCGGTTAA
57840398 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:57849660 original size:49 final size:49
Alignment explanation
Indices: 57849570--57849750 Score: 143
Period size: 49 Copynumber: 3.7 Consensus size: 49
57849560 AACATTGGTT
* * * * *
57849570 GAGATGCCGACGCCATGTCCCAGACATGGTCTTATACTGGCTTTCATATA
1 GAGAGGCCGATGCCATGTCCCAAACA-AGTCTTACACTGGCTTTCATATA
* * *
57849620 GAGAGGCCGATGCCATGTCACAAACAAGTCTTACACTGGCTCTCATCTA
1 GAGAGGCCGATGCCATGTCCCAAACAAGTCTTACACTGGCTTTCATATA
* * * * * * * *
57849669 TCAG-TGTCGATGCCATGTCCTAGACAAGTCTTATACTAGCTTGT-ATATC
1 -GAGAGGCCGATGCCATGTCCCAAACAAGTCTTACACTGGCTT-TCATATA
* * *
57849718 GTGAGGTCGATG-CATGTCCCAAACATGTCTTAC
1 GAGAGGCCGATGCCATGTCCCAAACAAGTCTTAC
57849751 TTTGGCTTAA
Statistics
Matches: 102, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
48 18 0.18
49 59 0.58
50 25 0.25
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (49 bp):
GAGAGGCCGATGCCATGTCCCAAACAAGTCTTACACTGGCTTTCATATA
Found at i:57849834 original size:46 final size:48
Alignment explanation
Indices: 57849674--57849850 Score: 173
Period size: 48 Copynumber: 3.7 Consensus size: 48
57849664 ATCTATCAGT
* * * ** *
57849674 GTCGATGCCATGTCCTAGACAAGTCTTATACTAGCTTGTATATCGTGA-G
1 GTCGATG-CATGTCCCAGACATGTCTTACACTAGCTTACATATC-TCATG
* ** * * *
57849723 GTCGATGCATGTCCCAAACATGTCTTACTTTGGCTTAAATATCTCAAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCTCATG
*
57849771 GTCGATGCATGTGCCAGACATGTCTTACACTAGCTCT-CATA-CT-ATG
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATATCTCATG
*
57849817 GTTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGC
57849851 ACCCATATCA
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
46 34 0.32
47 4 0.04
48 61 0.57
49 8 0.07
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (48 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCTCATG
Found at i:57851439 original size:13 final size:13
Alignment explanation
Indices: 57851421--57851456 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
57851411 GGAGAACGCA
57851421 TAAAACATATCTT
1 TAAAACATATCTT
*
57851434 TAAAACATAACTT
1 TAAAACATATCTT
*
57851447 TAAAAAATAT
1 TAAAACATAT
57851457 ATTGAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:57852173 original size:27 final size:27
Alignment explanation
Indices: 57852143--57852196 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57852133 CAAACTCCTC
** *
57852143 AGTTCAATGAAGTACTGGCGAACCCTT
1 AGTTCAATGAAACACTAGCGAACCCTT
*
57852170 AGTTCACTGAAACACTAGCGAACCCTT
1 AGTTCAATGAAACACTAGCGAACCCTT
57852197 TCTTTGAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (27 bp):
AGTTCAATGAAACACTAGCGAACCCTT
Found at i:57852582 original size:27 final size:27
Alignment explanation
Indices: 57852550--57852679 Score: 118
Period size: 27 Copynumber: 4.8 Consensus size: 27
57852540 AATACGTCAG
*
57852550 GAAAGAAAATCCTTTGTGGCGTAATAT
1 GAAAGAAAAGCCTTTGTGGCGTAATAT
* * * *
57852577 GAAAGAAAAGCCTTTATGGCATAAAAG
1 GAAAGAAAAGCCTTTGTGGCGTAATAT
* * *
57852604 GAAAGAAAAGCCTTTATGGTGTAATTT
1 GAAAGAAAAGCCTTTGTGGCGTAATAT
* * * *
57852631 GAAAGGAACATCTCTATG-GGCATAATAT
1 GAAA-GAAAAGC-CTTTGTGGCGTAATAT
*
57852659 GAAAGAATAGCCTTTGTGGCG
1 GAAAGAAAAGCCTTTGTGGCG
57852680 AACTTTGAAT
Statistics
Matches: 79, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
26 4 0.05
27 56 0.71
28 16 0.20
29 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGTAATAT
Found at i:57852612 original size:54 final size:55
Alignment explanation
Indices: 57852548--57852679 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 55
57852538 TAAATACGTC
* *
57852548 AGGAAAGAAAATCCTTTGTGGCGTAATATGAAA-GAAAAGCCTTTAT-GGCATAAA
1 AGGAAAGAAAAGCCTTTGTGGCGTAATATGAAAGGAAAA-CCTCTATGGGCATAAA
* * * * * *
57852602 AGGAAAGAAAAGCCTTTATGGTGTAATTTGAAAGGAACATCTCTATGGGCATAAT
1 AGGAAAGAAAAGCCTTTGTGGCGTAATATGAAAGGAAAACCTCTATGGGCATAAA
* *
57852657 ATGAAAGAATAGCCTTTGTGGCG
1 AGGAAAGAAAAGCCTTTGTGGCG
57852680 AACTTTGAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 34 0.53
55 30 0.47
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (55 bp):
AGGAAAGAAAAGCCTTTGTGGCGTAATATGAAAGGAAAACCTCTATGGGCATAAA
Found at i:57857844 original size:14 final size:14
Alignment explanation
Indices: 57857825--57857864 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
57857815 TCAATATTTT
57857825 AATTAAACTAATTA
1 AATTAAACTAATTA
57857839 AATT-AACTAACTTA
1 AATTAAACTAA-TTA
*
57857853 AATTAACCTAAT
1 AATTAAACTAAT
57857865 GGACTTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAACTAATTA
Found at i:57859784 original size:93 final size:93
Alignment explanation
Indices: 57859672--57859843 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57859662 CGCCCATAAG
* *
57859672 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57859737 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57859765 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57859830 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57859844 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57859840 original size:46 final size:46
Alignment explanation
Indices: 57859665--57859840 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57859655 TGTAACCCGC
* * *
57859665 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57859711 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57859761 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57859804 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57859841 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57867322 original size:93 final size:93
Alignment explanation
Indices: 57867210--57867381 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57867200 CGCCCATAAG
* *
57867210 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57867275 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57867303 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57867368 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57867382 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57867378 original size:46 final size:46
Alignment explanation
Indices: 57867203--57867378 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57867193 TGTAACCCGC
* * *
57867203 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57867249 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57867299 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57867342 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57867379 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57870229 original size:68 final size:68
Alignment explanation
Indices: 57870079--57870236 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 68
57870069 CTAGCCAATT
* * *
57870079 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGGATCACACATGCGACCTAGCTACA
**
57870144 TTTA
65 CATA
* * *
57870148 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGGATCACACATGCGACCTAGCTA
57870210 CTACATA
63 C-ACATA
57870217 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
57870237 ACACATGATG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
68 37 0.49
69 8 0.11
70 5 0.07
71 25 0.33
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATACTTCGGATCACACATGCGACCTAGCTACAC
ATA
Found at i:57871232 original size:21 final size:21
Alignment explanation
Indices: 57871189--57871229 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
57871179 TATGCTACTA
*
57871189 TGGCTCAACACAAGGTTGTTG
1 TGGCTCAACACAAGGATGTTG
57871210 TGGCTCAACACACAGGATGT
1 TGGCTCAACACA-AGGATGT
57871230 GTGTTACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (21 bp):
TGGCTCAACACAAGGATGTTG
Found at i:57871268 original size:21 final size:21
Alignment explanation
Indices: 57871244--57871298 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
57871234 TACAACATAG
*
57871244 ACATTGCGTGTTGTGCTACAC
1 ACATTACGTGTTGTGCTACAC
* *
57871265 ACATTTCGTGTTATGCTACAC
1 ACATTACGTGTTGTGCTACAC
*
57871286 ACATCACGTGTTG
1 ACATTACGTGTTG
57871299 CGCCACGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (21 bp):
ACATTACGTGTTGTGCTACAC
Found at i:57875228 original size:32 final size:32
Alignment explanation
Indices: 57875187--57875251 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
57875177 CCGTTTGATA
57875187 AATTTGATGTTATATTCGGTATGGATTGGTTG
1 AATTTGATGTTATATTCGGTATGGATTGGTTG
*
57875219 AATTTGATGTTATATTGGGTATGGATTGGTTG
1 AATTTGATGTTATATTCGGTATGGATTGGTTG
57875251 A
1 A
57875252 CAGATCATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (32 bp):
AATTTGATGTTATATTCGGTATGGATTGGTTG
Found at i:57886305 original size:30 final size:30
Alignment explanation
Indices: 57886271--57886332 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
57886261 CTTAACAAGC
*
57886271 AAATACCTCTAAAATAATAACAAAATTAAT
1 AAATACCTCTAAAACAATAACAAAATTAAT
* *
57886301 AAATATCTTTAAAACAATAACAAAATTAAT
1 AAATACCTCTAAAACAATAACAAAATTAAT
57886331 AA
1 AA
57886333 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAACAATAACAAAATTAAT
Found at i:57886375 original size:11 final size:11
Alignment explanation
Indices: 57886361--57886438 Score: 70
Period size: 11 Copynumber: 7.2 Consensus size: 11
57886351 ATATCCAAAC
*
57886361 AATAACAATAA
1 AATAATAATAA
*
57886372 AATAATAGTAA
1 AATAATAATAA
*
57886383 TATAATAATAA
1 AATAATAATAA
**
57886394 AATAATAGCAA
1 AATAATAATAA
57886405 AATAA-AGA-AA
1 AATAATA-ATAA
*
57886415 AATAATAAGAA
1 AATAATAATAA
*
57886426 AATAATATTAA
1 AATAATAATAA
57886437 AA
1 AA
57886439 AAATTTGTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
10 9 0.17
11 45 0.83
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (11 bp):
AATAATAATAA
Found at i:57886409 original size:22 final size:21
Alignment explanation
Indices: 57886361--57886438 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
57886351 ATATCCAAAC
*
57886361 AATAACAATAAAATAATAGTAA
1 AATAATAATAAAATAATAG-AA
*
57886383 TATAATAATAAAATAATAGCAA
1 AATAATAATAAAATAATAG-AA
57886405 AATAA-AGA-AAAATAATAAGAA
1 AATAATA-ATAAAATAAT-AGAA
*
57886426 AATAATATTAAAA
1 AATAATAATAAAA
57886439 AAATTTGTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
21 16 0.34
22 31 0.66
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
AATAATAATAAAATAATAGAA
Done.