Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 156 of 427
Found at i:42893808 original size:26 final size:27
Alignment explanation
Indices: 42893758--42893819 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
42893748 GGCTAAAATG
* *
42893758 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAATCGACGGCATTTCA
* **
42893785 GTAATTTTAC-AATCGACGGTATTTTG
1 GTAATTTTACAAATCGACGGCATTTCA
42893811 GTAATTTTA
1 GTAATTTTA
42893820 TAAACCGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGACGGCATTTCA
Found at i:42893831 original size:26 final size:26
Alignment explanation
Indices: 42893785--42893869 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
42893775 GGGCATTTCA
* *
42893785 GTAATTTTACAA-TCGACGGTATTTTG
1 GTAATTTTAAAACTCG-GGGTATTTTG
*
42893811 GTAATTTTATAAAC-CGGGGTACTTTG
1 GTAATTTTA-AAACTCGGGGTATTTTG
* * *
42893837 GTAATTTTACAACTGGGGGTATTTTA
1 GTAATTTTAAAACTCGGGGTATTTTG
42893863 GTAATTT
1 GTAATTT
42893870 GGTAAACTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.06
26 42 0.86
27 4 0.08
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (26 bp):
GTAATTTTAAAACTCGGGGTATTTTG
Found at i:42895660 original size:13 final size:13
Alignment explanation
Indices: 42895642--42895667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42895632 GATTTAGCGG
42895642 TCCCGAAACCACT
1 TCCCGAAACCACT
42895655 TCCCGAAACCACT
1 TCCCGAAACCACT
42895668 CGGTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (13 bp):
TCCCGAAACCACT
Found at i:42899449 original size:15 final size:16
Alignment explanation
Indices: 42899410--42899461 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
42899400 AAGTGAGTAA
42899410 TTATTTGTTATTGGTTATAT
1 TTATTT-TTATT--TTAT-T
42899430 TTATTTTTA-TTTATT
1 TTATTTTTATTTTATT
42899445 TTATTTTTATTTTATT
1 TTATTTTTATTTTATT
42899461 T
1 T
42899462 CATTCTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 10 0.32
16 11 0.35
18 1 0.03
19 3 0.10
20 6 0.19
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (16 bp):
TTATTTTTATTTTATT
Found at i:42903860 original size:21 final size:21
Alignment explanation
Indices: 42903836--42903889 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
42903826 GCCTTAGCAC
*
42903836 CACACAGGCGTGTGC-CTCTGT
1 CACACAGGCGTGTGCACCCT-T
42903857 CACAC-GGCCGTGTGCTACCCTT
1 CACACAGG-CGTGTGC-ACCCTT
42903879 CACACAGGCGT
1 CACACAGGCGT
42903890 ATGGACCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.07
21 12 0.43
22 9 0.32
23 5 0.18
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (21 bp):
CACACAGGCGTGTGCACCCTT
Found at i:42906526 original size:41 final size:41
Alignment explanation
Indices: 42906481--42906598 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
42906471 TGAAAGATAA
42906481 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
42906522 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42906552 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42906593 ATGTAG
1 ATGTAG
42906599 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:42906537 original size:71 final size:71
Alignment explanation
Indices: 42906449--42906612 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
42906439 GAGATGTATC
42906449 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42906514 AGGACA
66 AGGACA
42906520 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42906585 AGGACA
66 AGGACA
42906591 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
42906613 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:42914109 original size:41 final size:41
Alignment explanation
Indices: 42914064--42914181 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
42914054 TGAAAGATAA
42914064 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
42914105 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42914135 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42914176 ATGTAG
1 ATGTAG
42914182 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:42914120 original size:71 final size:71
Alignment explanation
Indices: 42914032--42914195 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
42914022 GAGATGTATC
42914032 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42914097 AGGACA
66 AGGACA
42914103 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42914168 AGGACA
66 AGGACA
42914174 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
42914196 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:42917218 original size:40 final size:40
Alignment explanation
Indices: 42917152--42917318 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
42917142 AAATTGAATG
* * *
42917152 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
42917191 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
42917231 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
42917271 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
42917311 ATATCCGG
1 ATATCCGG
42917319 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:42924329 original size:17 final size:18
Alignment explanation
Indices: 42924287--42924335 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
42924277 AGTTGAAAAG
42924287 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
42924306 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
42924323 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
42924336 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:42925224 original size:40 final size:40
Alignment explanation
Indices: 42925158--42925324 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
42925148 AAATTGAATG
* * *
42925158 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
42925197 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
42925237 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
42925277 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
42925317 ATATCCGG
1 ATATCCGG
42925325 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:42931923 original size:40 final size:40
Alignment explanation
Indices: 42931866--42932051 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
42931856 TCGAATGATG
* * * *
42931866 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
42931906 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
42931946 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
42931986 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
42932027 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
42932052 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:42932058 original size:80 final size:79
Alignment explanation
Indices: 42931919--42932074 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
42931909 GGACTAAGAT
* **
42931919 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
42931983 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
42931999 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
42932062 TATATCCGGTTAA
64 TAAATCCGGTTAA
42932075 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:42939950 original size:40 final size:40
Alignment explanation
Indices: 42939893--42940078 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
42939883 TCGAATGATG
* * * *
42939893 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
42939933 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
42939973 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
42940013 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
42940054 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
42940079 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:42940085 original size:80 final size:79
Alignment explanation
Indices: 42939946--42940101 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
42939936 GGACTAAGAT
* **
42939946 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
42940010 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
42940026 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
42940089 TATATCCGGTTAA
64 TAAATCCGGTTAA
42940102 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:42945564 original size:21 final size:23
Alignment explanation
Indices: 42945522--42945632 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 23
42945512 GCAAGAAAAG
42945522 TTTAAAATAATATATATAAAGAAA
1 TTTAAAATAA-ATATATAAAGAAA
**
42945546 TTTAAAATAAATAT-T-AAGAGG
1 TTTAAAATAAATATATAAAGAAA
* * *
42945567 CTCAAAATAACAATATGTAAAAGAAA
1 TTTAAAAT-A-AATATAT-AAAGAAA
*
42945593 TTTAAAATAAATAATGTACAAGAAAA
1 TTTAAAATAAAT-ATATA-AAG-AAA
*
42945619 TTTTAAAGTAAATA
1 -TTTAAAATAAATA
42945633 ACATATAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
21 10 0.14
22 2 0.03
23 9 0.13
24 15 0.22
25 8 0.12
26 14 0.20
27 11 0.16
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.30
Consensus pattern (23 bp):
TTTAAAATAAATATATAAAGAAA
Found at i:42945615 original size:25 final size:27
Alignment explanation
Indices: 42945581--42945633 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
42945571 AAATAACAAT
42945581 ATGTAAAAG-AAA-TTTAAAATAAATA
1 ATGTAAAAGAAAATTTTAAAATAAATA
* *
42945606 ATGTACAAGAAAATTTTAAAGTAAATA
1 ATGTAAAAGAAAATTTTAAAATAAATA
42945633 A
1 A
42945634 CATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 3 0.12
27 13 0.54
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
ATGTAAAAGAAAATTTTAAAATAAATA
Found at i:42945727 original size:28 final size:28
Alignment explanation
Indices: 42945696--42945768 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
42945686 TACACAAAGA
* **
42945696 TTTAAAATAAATCATATGTGGAAAAAAT
1 TTTAAAATAAATAATATGTAAAAAAAAT
*
42945724 TTTAAAATAATTAATATGTAAAAAAAAT
1 TTTAAAATAAATAATATGTAAAAAAAAT
* *
42945752 TTAAAAATACATAATAT
1 TTTAAAATAAATAATAT
42945769 ATATATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (28 bp):
TTTAAAATAAATAATATGTAAAAAAAAT
Found at i:42946044 original size:2 final size:2
Alignment explanation
Indices: 42946037--42946084 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
42946027 AAGTATGTGC
*
42946037 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42946079 AT AT AT
1 AT AT AT
42946085 TAATTTAGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42950147 original size:2 final size:2
Alignment explanation
Indices: 42950140--42950194 Score: 94
Period size: 2 Copynumber: 27.5 Consensus size: 2
42950130 ACTCAACATC
42950140 AT AT AT AT AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42950182 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
42950195 GCCGAACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 49 0.96
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42954009 original size:18 final size:18
Alignment explanation
Indices: 42953986--42954023 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
42953976 ATACAACATG
*
42953986 GCCTAGAAAATTGACTTT
1 GCCTAGAAAATTAACTTT
42954004 GCCTAGAAAATTAACTTT
1 GCCTAGAAAATTAACTTT
42954022 GC
1 GC
42954024 TTAACTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (18 bp):
GCCTAGAAAATTAACTTT
Found at i:42966138 original size:43 final size:42
Alignment explanation
Indices: 42966048--42966169 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
42966038 TAGGGTTAGT
*
42966048 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGACA
** * *
42966090 TGAGATTTTGTGTAAGACCATAGT-TGGGCTATTGGCATTGACA
1 TGAGATTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGACA
** * * *
42966133 TGAGATCCCATGCAAGACCATATATGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
42966170 TAGTATGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGACA
Found at i:42970461 original size:23 final size:23
Alignment explanation
Indices: 42970433--42970481 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
42970423 TGAAAGATTG
42970433 ATTTAATGACTGAATCATAATTA
1 ATTTAATGACTGAATCATAATTA
42970456 ATTTAATGACTGAATCATAATTA
1 ATTTAATGACTGAATCATAATTA
42970479 ATT
1 ATT
42970482 AGTTTGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (23 bp):
ATTTAATGACTGAATCATAATTA
Found at i:42974218 original size:40 final size:40
Alignment explanation
Indices: 42974163--42974372 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42974153 GAACATTGAA
42974163 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42974203 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42974243 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42974283 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42974322 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42974363 CTATATCCGG
1 ATATATCCGG
42974373 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42982353 original size:40 final size:40
Alignment explanation
Indices: 42982298--42982507 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42982288 AACATTGGAA
42982298 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42982338 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42982378 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42982418 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42982457 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42982498 CTATATCCGG
1 ATATATCCGG
42982508 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42993975 original size:25 final size:25
Alignment explanation
Indices: 42993947--42994025 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
42993937 ACTCGGCCCT
42993947 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
42993972 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
42993994 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
42994019 ATCACAT
1 ATCACAT
42994026 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:42994079 original size:49 final size:48
Alignment explanation
Indices: 42993897--42994217 Score: 477
Period size: 49 Copynumber: 6.7 Consensus size: 48
42993887 CCCTTCGGGA
* * * * *
42993897 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42993944 CCTATCACATA-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
42993991 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42994038 CTTATCACATATGTATACGCTTTCACATTCATCACAGCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42994087 CTTATCACATATATATACACTTTCACCTTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
42994136 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42994185 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA-TTATACACTTTCACATTCATC
42994218 GCGTAGAATC
Statistics
Matches: 254, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 97 0.38
49 156 0.61
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43007333 original size:40 final size:38
Alignment explanation
Indices: 43007289--43007456 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 38
43007279 GGGACTTTAA
*
43007289 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATAT-AC-ACTTGCACAAATGCCTTCGGGTCTTAG
* *
43007329 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATAT-AC-ACTTGCACAAATGCCTTCGGGTCTTAG
* * *
43007369 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATA-C-ACTTGCACAAATGCCTTCGGGTCTTAG
* * *
43007409 CCCGGATATA-A-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATACACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
43007448 CCCGGATAT
1 CCCGGATAT
43007457 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
36 3 0.03
37 3 0.03
38 1 0.01
39 23 0.21
40 77 0.72
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (38 bp):
CCCGGATATACACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:43007452 original size:39 final size:40
Alignment explanation
Indices: 43007306--43007456 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
43007296 ATCACGATTT
* * * *
43007306 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
43007346 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
43007386 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
43007425 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
43007457 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:43017314 original size:93 final size:93
Alignment explanation
Indices: 43017202--43017372 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43017192 GCCCATAAGT
* *
43017202 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43017267 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
43017295 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
43017360 CGAGTTCGGATGC
66 CGAGCTCGGATGC
43017373 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43017369 original size:46 final size:46
Alignment explanation
Indices: 43017194--43017369 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
43017184 TGTAACCCGC
* *
43017194 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43017240 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
43017286 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43017333 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43017370 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43022787 original size:46 final size:46
Alignment explanation
Indices: 43022720--43022894 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
43022710 TGTAACCCGC
*
43022720 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
43022766 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCG-TAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
* *** * ** *
43022812 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
43022859 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
43022895 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 32 0.31
48 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:43022841 original size:93 final size:93
Alignment explanation
Indices: 43022728--43022898 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
43022718 GCCCATAAGT
* ** *
43022728 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
43022793 CGAGCTCGGATGCGTAGTTACATCTCTC
66 CGAGCTCGGATGCGTAGTTACATCTCTC
* *
43022821 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
43022886 CGAGTTCGGATGC
66 CGAGCTCGGATGC
43022899 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCGTAGTTACATCTCTC
Found at i:43022914 original size:46 final size:46
Alignment explanation
Indices: 43022725--43022914 Score: 117
Period size: 46 Copynumber: 4.1 Consensus size: 46
43022715 CCCGCCCATA
* ** * *
43022725 AGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
*
43022770 AAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCGT-AGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-TCA---ACCATC-CT
* * * * * * *
43022820 --CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCTCAACCATCCT
*
43022864 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
43022910 AGTGA
1 AGTGA
43022915 CATGTCACTT
Statistics
Matches: 110, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
44 9 0.08
46 62 0.56
47 29 0.26
49 4 0.04
50 5 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:43028139 original size:50 final size:49
Alignment explanation
Indices: 43028036--43028187 Score: 180
Period size: 50 Copynumber: 3.1 Consensus size: 49
43028026 AAATGCAGGA
* * * *
43028036 TACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGC
1 TACTACGTGTATCGGATAATTGGTCACATGTATAGCACTAAGTGCAAGC
** *
43028085 TACTACGTGTATCGGATGGTTAGGTCACGTGTATAGCACTAAGTGCAAGC
1 TACTACGTGTATCGGATAATT-GGTCACATGTATAGCACTAAGTGCAAGC
* * * * *
43028135 TACTACGTGTACCGGATAATT-GTCGCATGTGTAGTACTAAGTGCAGGC
1 TACTACGTGTATCGGATAATTGGTCACATGTATAGCACTAAGTGCAAGC
43028183 TACTA
1 TACTA
43028188 TGCATACCAG
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 27 0.31
49 19 0.22
50 41 0.47
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TACTACGTGTATCGGATAATTGGTCACATGTATAGCACTAAGTGCAAGC
Found at i:43042973 original size:43 final size:42
Alignment explanation
Indices: 43042903--43043007 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
43042893 AATGCCACAT
* * *
43042903 CCCAGATATGGTCTTGCATGTAA-TCTCGTATCGATGCCAATAG
1 CCCAGATATAGTCTTACACG-AAGTCTCGTATCGATG-CAATAG
* *
43042946 CCCA-ACTATAGTCTTACACGAAGTCTCGTATCGATGCTATAT
1 CCCAGA-TATAGTCTTACACGAAGTCTCGTATCGATGCAATAG
*
43042988 CCCAGATATGGTCTTACACG
1 CCCAGATATAGTCTTACACG
43043008 TAATCTTAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (42 bp):
CCCAGATATAGTCTTACACGAAGTCTCGTATCGATGCAATAG
Found at i:43048354 original size:15 final size:16
Alignment explanation
Indices: 43048334--43048363 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43048324 TATTTCTTTA
43048334 AAAAAATAAA-AAAAT
1 AAAAAATAAATAAAAT
43048349 AAAAAATAAATAAAA
1 AAAAAATAAATAAAA
43048364 ATTTCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAATAAATAAAAT
Found at i:43049032 original size:28 final size:28
Alignment explanation
Indices: 43049000--43049184 Score: 194
Period size: 28 Copynumber: 6.5 Consensus size: 28
43048990 GAATTATGAG
* * * *
43049000 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
* * * * * *
43049028 GCACTATGTATGCCAGATCAGT-AGTTGA
1 GCACTATGTGTGCGAGTTC-TTCAATCGA
43049056 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 G-CACTATGTGTGCGAGTTCTTCAATCGA
43049085 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
* * *
43049113 GCACTATGTGTACGAGATTCGT-AATTGA
1 GCACTATGTGTGCGAG-TTCTTCAATCGA
*
43049141 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTCAATCGA
43049170 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
43049185 AATCAGTCAG
Statistics
Matches: 131, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
28 86 0.66
29 45 0.34
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTCAATCGA
Found at i:43049143 original size:85 final size:85
Alignment explanation
Indices: 43049000--43049184 Score: 273
Period size: 85 Copynumber: 2.2 Consensus size: 85
43048990 GAATTATGAG
* * * *
43049000 GCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTATGCCAGATCAGTAGTTGAGGCACTATG
1 GCACTATGTGTGCGAGCTCTTCAACCGAGCACTATGTATACCAGATCAGTAATTGAGGCACTATG
43049065 TGTGCGAGTTCTTCAATCGA
66 TGTGCGAGTTCTTCAATCGA
* * * *
43049085 GCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTACGAGATTC-GTAATTGAGGCACTAT
1 GCACTATGTGTGCGAGCTCTTCAACCGAGCACTATGTATACCAGA-TCAGTAATTGAGGCACTAT
*
43049149 GTGTGCGAGTTCTTTAATCGA
65 GTGTGCGAGTTCTTCAATCGA
43049170 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
43049185 AATCAGTCAG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 88 0.98
86 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (85 bp):
GCACTATGTGTGCGAGCTCTTCAACCGAGCACTATGTATACCAGATCAGTAATTGAGGCACTATG
TGTGCGAGTTCTTCAATCGA
Found at i:43049146 original size:57 final size:56
Alignment explanation
Indices: 43049057--43049180 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 56
43049047 AGTAGTTGAG
* *
43049057 GCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTACGAGTTCGTCAATCGAGCACTATGTGTGCGAGTTCTTCAATCGA
* *
43049113 GCACTATGTGTACGAGATTCGT-AATTGAGGCACTATGTGTGCGAGTTCTTTAATCGA
1 GCACTATGTGTACGAG-TTCGTCAATCGA-GCACTATGTGTGCGAGTTCTTCAATCGA
43049170 GCACTATGTGT
1 GCACTATGTGT
43049181 GCGAAATCAG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 20 0.32
57 42 0.68
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (56 bp):
GCACTATGTGTACGAGTTCGTCAATCGAGCACTATGTGTGCGAGTTCTTCAATCGA
Found at i:43057206 original size:29 final size:29
Alignment explanation
Indices: 43057150--43057222 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
43057140 ATATTCCTAT
*
43057150 GGCCCATTAGGCCCAAACCACCTGTATAC
1 GGCCCATTAGGCCCAAACCACATGTATAC
* * * *
43057179 GGCCCATTAGGCCTAAATCACATTTATAT
1 GGCCCATTAGGCCCAAACCACATGTATAC
* *
43057208 GGCCCGTTAAGCCCA
1 GGCCCATTAGGCCCA
43057223 GTCACATTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAACCACATGTATAC
Found at i:43057222 original size:58 final size:57
Alignment explanation
Indices: 43057112--43057222 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 57
43057102 AAGTTCACAT
* * * * *
43057112 ACCTGTATCCGGCCCATTAAACCCAATCATATTCCTATGGCCCATTAGGCCCAAACC
1 ACCTGTATACGGCCCATTAAACCAAATCACATTCATATGGCCCATTAAGCCCAAACC
** * *
43057169 ACCTGTATACGGCCCATTAGGCCTAAATCACATTTATATGGCCCGTTAAGCCCA
1 ACCTGTATACGGCCCATTAAACC-AAATCACATTCATATGGCCCATTAAGCCCA
43057223 GTCACATTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 20 0.45
58 24 0.55
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.24
Consensus pattern (57 bp):
ACCTGTATACGGCCCATTAAACCAAATCACATTCATATGGCCCATTAAGCCCAAACC
Found at i:43058717 original size:17 final size:16
Alignment explanation
Indices: 43058684--43058715 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43058674 AAGTTCAGGA
43058684 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
43058700 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
43058716 GTGTTACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:43061984 original size:21 final size:22
Alignment explanation
Indices: 43061945--43061986 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
43061935 TAGTATTGAA
43061945 ACAAGGCCTGATGTATCGAGAT
1 ACAAGGCCTGATGTATCGAGAT
* *
43061967 ACAAGGTCT-ATGTCTCGAGA
1 ACAAGGCCTGATGTATCGAGA
43061987 ATTGTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (22 bp):
ACAAGGCCTGATGTATCGAGAT
Found at i:43066555 original size:18 final size:20
Alignment explanation
Indices: 43066515--43066560 Score: 78
Period size: 18 Copynumber: 2.4 Consensus size: 20
43066505 GTTCCCAACT
43066515 CATTTCACAATTTCACATTC
1 CATTTCACAATTTCACATTC
43066535 CATTTCAC-ATTTCAC-TTC
1 CATTTCACAATTTCACATTC
43066553 CATTTCAC
1 CATTTCAC
43066561 GTCATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 11 0.42
19 7 0.27
20 8 0.31
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (20 bp):
CATTTCACAATTTCACATTC
Found at i:43068815 original size:30 final size:29
Alignment explanation
Indices: 43068750--43068816 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
43068740 CTTCTCAAAT
* **
43068750 TTAAAATTTAGTTCATGTACTTTTATTTC
1 TTAAAATTTAGTTCATCTACTTTTAGCTC
*
43068779 TAAAAATTTAG-TCTATCTACTTTTTAGCTC
1 TTAAAATTTAGTTC-ATCTAC-TTTTAGCTC
43068809 TTAAAATT
1 TTAAAATT
43068817 AAAATGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.06
29 15 0.48
30 14 0.45
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (29 bp):
TTAAAATTTAGTTCATCTACTTTTAGCTC
Found at i:43071352 original size:2 final size:2
Alignment explanation
Indices: 43071345--43071404 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
43071335 TATTTCTATC
43071345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43071387 AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT
43071405 CTTATTATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:43071437 original size:14 final size:14
Alignment explanation
Indices: 43071420--43071455 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
43071410 TATTTTTTTC
43071420 TTTAAAATGATGAA
1 TTTAAAATGATGAA
*
43071434 TTTAAAATGGTGAA
1 TTTAAAATGATGAA
*
43071448 ATTAAAAT
1 TTTAAAAT
43071456 TATCAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TTTAAAATGATGAA
Found at i:43090504 original size:71 final size:71
Alignment explanation
Indices: 43090418--43090581 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
43090408 CGATTTGTCT
43090418 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43090483 CTTTCA
66 CTTTCA
*
43090489 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43090554 CTTTCA
66 CTTTCA
43090560 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
43090582 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:43090619 original size:71 final size:70
Alignment explanation
Indices: 43090418--43090615 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
43090408 CGATTTGTCT
* * * * *
43090418 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGTGACCTAGCTACATTTAT
43090483 CTTTCA
65 CTTTCA
* * * *
43090489 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGTGACCTAGCTACATTTAT
43090554 CTTTCA
65 CTTTCA
*
43090560 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGTGACCTAGCTAC
43090616 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGTGACCTAGCTACATTTATC
TTTCA
Found at i:43104477 original size:18 final size:17
Alignment explanation
Indices: 43104433--43104474 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
43104423 GACAAGGACT
*
43104433 AAATTGAAA-ATGAAAA
1 AAATTAAAAGATGAAAA
*
43104449 TAATTAAAAGATGAAAA
1 AAATTAAAAGATGAAAA
43104466 AAATTAAAA
1 AAATTAAAA
43104475 AGACATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (17 bp):
AAATTAAAAGATGAAAA
Found at i:43111967 original size:40 final size:39
Alignment explanation
Indices: 43111922--43112051 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
43111912 CGGAATATAA
43111922 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
43111962 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43112002 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
43112042 CCGGATATAA
1 CCGGATATAA
43112052 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:43112066 original size:40 final size:40
Alignment explanation
Indices: 43111938--43112089 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
43111928 ATAACCATGT
* * *
43111938 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
43111978 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
43112018 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
43112058 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
43112090 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:43112072 original size:80 final size:80
Alignment explanation
Indices: 43111938--43112087 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
43111928 ATAACCATGT
*
43111938 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
43112002 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
43112018 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
43112081 CCCGGAT
64 CCCGGAT
43112088 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:43114037 original size:21 final size:22
Alignment explanation
Indices: 43114011--43114056 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
43114001 AGCACATGCA
* *
43114011 TGTCCC-AGGATCACATGGGCG
1 TGTCCCTAGGACCACACGGGCG
*
43114032 TGTCCCTTGGACCACACGGGCG
1 TGTCCCTAGGACCACACGGGCG
43114054 TGT
1 TGT
43114057 GAGCCTTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (22 bp):
TGTCCCTAGGACCACACGGGCG
Found at i:43114636 original size:16 final size:17
Alignment explanation
Indices: 43114615--43114648 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
43114605 ATAAGCTTAC
*
43114615 TTCTGTGT-GTTTGATG
1 TTCTGTGTAGATTGATG
43114631 TTCTGTGTAGATTGATG
1 TTCTGTGTAGATTGATG
43114648 T
1 T
43114649 GAATTTGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.06, G:0.29, T:0.53
Consensus pattern (17 bp):
TTCTGTGTAGATTGATG
Found at i:43116130 original size:43 final size:43
Alignment explanation
Indices: 43116054--43116278 Score: 148
Period size: 43 Copynumber: 5.3 Consensus size: 43
43116044 TTTAAAAAAA
* * * * * * *
43116054 GCCGCTAAAGGCCACGACCTTTAACTGCGCTTTTCCCGCAAAT
1 GCCGCTAAAGACCATGACCATTAGCGGCACTTTTCCCACAAAT
* **
43116097 GCCGCTAATGACCATGACCATTAGCGGCACTTTTTTCACAAAT
1 GCCGCTAAAGACCATGACCATTAGCGGCACTTTTCCCACAAAT
* * ** *
43116140 GCTGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCACAAAC
1 GCCGCTAAAGACCATGACCATTAGCGGCACTTTTCCCACAAAT
* * * * * * * * *
43116183 GCTGCTAAAGACCATGATCTTTAGTGCCGCTTTTTCCAAAAAC
1 GCCGCTAAAGACCATGACCATTAGCGGCACTTTTCCCACAAAT
* * * * * * *
43116226 GCCGCTATATA--ATAGACCTTTAGCAGCGCTTTTCTCACAAAC
1 GCCGCTAAAGACCAT-GACCATTAGCGGCACTTTTCCCACAAAT
43116268 GCCGCTAAAGA
1 GCCGCTAAAGA
43116279 ATATAACCTT
Statistics
Matches: 149, Mismatches: 32, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.01
42 30 0.20
43 117 0.79
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCATTAGCGGCACTTTTCCCACAAAT
Found at i:43117749 original size:18 final size:17
Alignment explanation
Indices: 43117728--43117763 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43117718 CCTTTAGGAT
*
43117728 TTTTTTTTTCTTCTTCTA
1 TTTTTTATTCTT-TTCTA
43117746 TTTTTTATTCTTTTCTA
1 TTTTTTATTCTTTTCTA
43117763 T
1 T
43117764 CCTTCTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTCTTTTCTA
Found at i:43119104 original size:20 final size:20
Alignment explanation
Indices: 43119074--43119118 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
43119064 CTATTTTATT
43119074 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
43119093 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
43119113 ATGGGC
1 ATGGGC
43119119 AAGACCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:43119248 original size:28 final size:27
Alignment explanation
Indices: 43119208--43119260 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
43119198 TATTGTAATA
* *
43119208 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAG-TTAACACTGATAT
43119236 GGGCTAAGGCCCAGTTAACACTGAT
1 GGGCTAAGGCCCAGTTAACACTGAT
43119261 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACACTGATAT
Found at i:43119274 original size:62 final size:61
Alignment explanation
Indices: 43119139--43119283 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 61
43119129 ATATCTCGAC
* * * * *
43119139 TTGTAATAGGGCTACGGCCTAGACTGATACTGATATGGACTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGACTAGGCCCAGTATACACTGATA
* *
43119200 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGACT-AGGCCCAGTAT-ACACTGATA
*
43119261 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
43119284 TAAAGCTTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 41 0.57
62 31 0.43
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGACTAGGCCCAGTATACACTGATA
Found at i:43125754 original size:13 final size:13
Alignment explanation
Indices: 43125722--43125759 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
43125712 CAATTAATTA
43125722 AATTAT-TTAATTT
1 AATTATATT-ATTT
43125735 AATTTATATTATTT
1 AA-TTATATTATTT
43125749 AATTATATTAT
1 AATTATATTAT
43125760 ATTGTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:43126724 original size:24 final size:24
Alignment explanation
Indices: 43126672--43126724 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
43126662 CTCAAATGCA
43126672 TCCTCCACCACCAATGTATCACCC
1 TCCTCCACCACCAATGTATCACCC
* * *
43126696 ACCTCCACCTCTC-ATGTATCATCC
1 TCCTCCACCAC-CAATGTATCACCC
43126720 TCCTC
1 TCCTC
43126725 AAATATATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.21, C:0.49, G:0.04, T:0.26
Consensus pattern (24 bp):
TCCTCCACCACCAATGTATCACCC
Found at i:43131254 original size:21 final size:21
Alignment explanation
Indices: 43131201--43131254 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
43131191 AATCCTTATT
*
43131201 CCTTAATCCCTAAACCATAAAC
1 CCTTAA-CCCTAAAACATAAAC
* * *
43131223 CATAAATCCTAAAACATAAAC
1 CCTTAACCCTAAAACATAAAC
43131244 CCTTAACCCTA
1 CCTTAACCCTA
43131255 GACCCCTAAC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
CCTTAACCCTAAAACATAAAC
Found at i:43131312 original size:21 final size:22
Alignment explanation
Indices: 43131240--43131343 Score: 83
Period size: 21 Copynumber: 4.9 Consensus size: 22
43131230 CCTAAAACAT
* *
43131240 AAACCCTT-AACCCTAGACCCC
1 AAACCCTTAAACCATAAACCCC
* *
43131261 TAACCCTTAACCCAT-AA--CC
1 AAACCCTTAAACCATAAACCCC
* *
43131280 ATAACCCCTAAACCTTAAACCCC
1 A-AACCCTTAAACCATAAACCCC
*
43131303 -AACCCTTAAACCATAATCCCC
1 AAACCCTTAAACCATAAACCCC
* *
43131324 AAACCCATAATCCATAAACC
1 AAACCCTTAAACCATAAACC
43131344 TTAAAATAGT
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.03
20 11 0.17
21 28 0.44
22 20 0.32
23 2 0.03
ACGTcount: A:0.39, C:0.42, G:0.01, T:0.17
Consensus pattern (22 bp):
AAACCCTTAAACCATAAACCCC
Found at i:43134548 original size:154 final size:155
Alignment explanation
Indices: 43134266--43134585 Score: 554
Period size: 154 Copynumber: 2.1 Consensus size: 155
43134256 GTTTAAATAA
*
43134266 TTAATTTCAAATCATGCAATTAAGATAATTCATTTTGCTAATATTGATGAGTTTATATCTCAGTA
1 TTAATTTCAAATCATGCAATTAAGATAATTCATTTTGATAATATTGATGAGTTTATATCTCAGTA
* ** *
43134331 TTTTTATTGATTGAGTTTGAAAAACTTTTGTAAAAGTTTGTTATTTATGTGCATAATAGTTTAGA
66 CTTTTATTGATTGAGTTTGAAAAACTTTTGTAAAAGTTTGTTATTTATGCACATAACAGTTTAGA
43134396 GAAATTATTGATTGAACGCCTCTGG
131 GAAATTATTGATTGAACGCCTCTGG
*
43134421 TTAATTTCAGATCATGCAATTAAGATAATT-AGTTTTGATAATATTGATGAGTTTATATCTCAGT
1 TTAATTTCAAATCATGCAATTAAGATAATTCA-TTTTGATAATATTGATGAGTTTATATCTCAGT
43134485 -CTTTTATTGATTGAGTTTGAAAAACTTTTGTAAAAGTTTGTTATTTATGCACATAACAGTTTAG
65 ACTTTTATTGATTGAGTTTGAAAAACTTTTGTAAAAGTTTGTTATTTATGCACATAACAGTTTAG
43134549 AGAAATTATTGATTGAACGCCTCTGG
130 AGAAATTATTGATTGAACGCCTCTGG
*
43134575 TTAATGTCAAA
1 TTAATTTCAAA
43134586 ACTATTACTT
Statistics
Matches: 156, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
154 96 0.62
155 60 0.38
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (155 bp):
TTAATTTCAAATCATGCAATTAAGATAATTCATTTTGATAATATTGATGAGTTTATATCTCAGTA
CTTTTATTGATTGAGTTTGAAAAACTTTTGTAAAAGTTTGTTATTTATGCACATAACAGTTTAGA
GAAATTATTGATTGAACGCCTCTGG
Found at i:43136909 original size:13 final size:14
Alignment explanation
Indices: 43136881--43136910 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43136871 ATTTTGAATT
43136881 TTTAGAATTATTTA
1 TTTAGAATTATTTA
43136895 TTTAGAATT-TTTA
1 TTTAGAATTATTTA
43136908 TTT
1 TTT
43136911 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTAGAATTATTTA
Found at i:43139390 original size:5 final size:5
Alignment explanation
Indices: 43139376--43139421 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
43139366 TTTTTGGGAA
* *
43139376 AAAAT GAAAT AAAAT AAAAT AAAAT AATAAA AATAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAAAT AAAA
43139422 GCAAATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:43148582 original size:39 final size:39
Alignment explanation
Indices: 43148518--43148750 Score: 355
Period size: 39 Copynumber: 6.0 Consensus size: 39
43148508 AAAAAGCATG
* *
43148518 CGGGACTTTAAGCCCGGATATAATACCATCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAATACCAGCATAAATGCCTT
43148558 CGGGACTTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCATAAATGCCTT
* * *
43148598 TGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
43148637 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
* *
43148676 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
43148715 CGGGACTTAGCCC-GATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCT
43148751 GCGGACCACA
Statistics
Matches: 180, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
37 4 0.02
38 17 0.09
39 141 0.78
40 18 0.10
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
Found at i:43154493 original size:18 final size:18
Alignment explanation
Indices: 43154470--43154505 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
43154460 TAACATATAA
43154470 AAGTATATAATACATACC
1 AAGTATATAATACATACC
43154488 AAGTATATAATACATACC
1 AAGTATATAATACATACC
43154506 TGACCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:43154707 original size:39 final size:39
Alignment explanation
Indices: 43154638--43154870 Score: 355
Period size: 39 Copynumber: 6.0 Consensus size: 39
43154628 AAAAAGCATG
* * *
43154638 CGGGACTTTAAGCCTGGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCATAAATGCCTT
*
43154678 CGGGACTTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCATAAATGCCTT
*
43154718 CGGGACTTAGCCCGGATA-AACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCATAAATGCCTT
43154756 CGGGACTTAGCCCGGATATAACACCAGCATAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCATAAATGCCTT
*
43154795 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCATAAATGCCTT
*
43154834 CGGGACTTAGCCCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAACACCAGCATAAATGCCT
43154871 GTGGACCTCA
Statistics
Matches: 183, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 40 0.22
39 124 0.68
40 19 0.10
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCATAAATGCCTT
Found at i:43157266 original size:26 final size:26
Alignment explanation
Indices: 43157237--43157286 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
43157227 AGGGGAACAT
43157237 TATTATTATGTTTTG-TCTTTAGTTTG
1 TATTATTATGTTTTGTTC-TTAGTTTG
43157263 TATTATTATGTTTTGTTCTTAGTT
1 TATTATTATGTTTTGTTCTTAGTT
43157287 AGTAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (26 bp):
TATTATTATGTTTTGTTCTTAGTTTG
Found at i:43157332 original size:16 final size:17
Alignment explanation
Indices: 43157302--43157334 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
43157292 TAATAATTAG
43157302 TTATTATTTACTTATTT
1 TTATTATTTACTTATTT
*
43157319 TTATT-TTTATTTATTT
1 TTATTATTTACTTATTT
43157335 AACTGCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTATTTACTTATTT
Found at i:43162001 original size:30 final size:30
Alignment explanation
Indices: 43161967--43162034 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
43161957 GGGAGGGAAT
*
43161967 CGTGTGTCACACACGGCCTAGACACACACC
1 CGTGTGTCACACACAGCCTAGACACACACC
*
43161997 CGTGTGTCACACACAGCCTAGACACACGCC
1 CGTGTGTCACACACAGCCTAGACACACACC
43162027 CGTGTGTC
1 CGTGTGTC
43162035 TAACCATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.38, G:0.22, T:0.16
Consensus pattern (30 bp):
CGTGTGTCACACACAGCCTAGACACACACC
Found at i:43166765 original size:20 final size:19
Alignment explanation
Indices: 43166717--43166780 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
43166707 AGCACATATA
*
43166717 TTCATAAAATTTTAGAATT
1 TTCATAAAATTTTACAATT
* *
43166736 TTCCTAAAATTTTATAATTT
1 TTCATAAAATTTTACAA-TT
*
43166756 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAA-TT
43166776 TTCAT
1 TTCAT
43166781 TTTAGTCCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
19 15 0.39
20 23 0.61
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (19 bp):
TTCATAAAATTTTACAATT
Found at i:43184565 original size:40 final size:40
Alignment explanation
Indices: 43184506--43184697 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
43184496 CAATTGAATG
* * *
43184506 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* * **
43184546 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTAATT
* **
43184586 ACATCCGGGCTAAGACCCGAAGGCATTTGTG-TAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTAATT
* * * **
43184626 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* * *
43184666 CTATCTGGGCTAAGACCCGAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
43184698 ATGTGGTTAC
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.02
40 121 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
Found at i:43187999 original size:43 final size:43
Alignment explanation
Indices: 43187952--43188103 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 43
43187942 AACCTTAATT
* *
43187952 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATTAAATTTACAGATCTTAACC
* * **** **
43187995 CCCTAAGCAGTAGAGAAACAGATCGAAGGCGA-AGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGAT-TAAATTTACA-GATCTTAACC
* * * * *
43188039 CCCTAAGCAGCAGGGTAACAAACTGAATTTACAGATCTTAA-C
1 CCCTAAGCAGTAGGGAAACAGATTAAATTTACAGATCTTAACC
*
43188081 CCCTAAGTAGTAGGGAAACAGAT
1 CCCTAAGCAGTAGGGAAACAGAT
43188104 CGAAGATGAT
Statistics
Matches: 78, Mismatches: 28, Indels: 7
0.69 0.25 0.06
Matches are distributed among these distances:
42 19 0.24
43 29 0.37
44 30 0.38
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAAACAGATTAAATTTACAGATCTTAACC
Found at i:43188125 original size:86 final size:87
Alignment explanation
Indices: 43187924--43188144 Score: 309
Period size: 86 Copynumber: 2.6 Consensus size: 87
43187914 AGAATGGTGT
** ** * ***
43187924 AACAGATCGAAGACGAAGAACCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGCAGGGTAACAAACTAAATTTACAGATC
43187989 TTAACCCCCTAAGCAGTAGAGA
66 TTAACCCCCTAAGCAGTAGAGA
* *
43188011 AACAGATCGAAGGCGAAGGGCCTTAACCCCCTAAGCAGCAGGGTAACAAACTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGCAGGGTAACAAACTAAATTTACAGATC
* *
43188076 TTAA-CCCCTAAGTAGTAGGGA
66 TTAACCCCCTAAGCAGTAGAGA
* *
43188097 AACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCAGCAGGGTAACA
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGCAGGGTAACA
43188145 GGATTGAAAT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 60 0.50
87 59 0.50
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (87 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGCAGGGTAACAAACTAAATTTACAGATC
TTAACCCCCTAAGCAGTAGAGA
Found at i:43188145 original size:44 final size:44
Alignment explanation
Indices: 43187988--43188145 Score: 144
Period size: 44 Copynumber: 3.6 Consensus size: 44
43187978 ATTTACAGAT
* * **
43187988 CTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGGCGAAGGGC
1 CTTAACCCCCTAAGCAGCAGGGAAACAGATCGAAGATGAAGGGC
* * * * **
43188032 CTTAACCCCCTAAGCAGCAGGGTAACA-AACTGAA-TTTACA-GAT
1 CTTAACCCCCTAAGCAGCAGGGAAACAGATC-GAAGATGA-AGGGC
* * *
43188075 CTTAA-CCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGCAGGGAAACAGATCGAAGATGAAGGGC
*
43188118 CTTAACCCCCTAAGCAGCAGGGTAACAG
1 CTTAACCCCCTAAGCAGCAGGGAAACAG
43188146 GATTGAAATC
Statistics
Matches: 87, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
42 21 0.24
43 19 0.22
44 47 0.54
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.16
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGCAGGGAAACAGATCGAAGATGAAGGGC
Found at i:43188659 original size:44 final size:44
Alignment explanation
Indices: 43188607--43188973 Score: 603
Period size: 44 Copynumber: 8.4 Consensus size: 44
43188597 GAACAAGTTG
*
43188607 AAGATAGCAGATTTGGCGTCTCTGTATTAGCGGAGAGCAGATCA
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
*
43188651 AAGATAGCAGATTTGGCGTCTCCGTATTGGCGGAGAGCAGATC-
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
*
43188694 AAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCA
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
* *
43188738 AAGATAGCAGATTGGGCGTCTCCGTATTGGCGGAGAGCAGATCA
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
*
43188782 AAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCA
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
* *
43188826 AAGATAGCAGATTTGGCGTCT-TCGTATTGGTGGAGATCAGATCA
1 AAGATAGCAGATTTGGCGTCTCT-GTATTGGCGGAGAGCAGATCA
*
43188870 AAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCA
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
* * *
43188914 AAGATAGCAGATTTGGCATCTCCGTATTGGCGGAGAGCAGATCG
1 AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
43188958 AAGATAGCAGATTTGG
1 AAGATAGCAGATTTGG
43188974 TGTTCCTATG
Statistics
Matches: 300, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
43 42 0.14
44 257 0.86
45 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (44 bp):
AAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCA
Found at i:43193665 original size:40 final size:40
Alignment explanation
Indices: 43193621--43193826 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
43193611 TCGAATACAA
*
43193621 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
43193661 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
43193701 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
43193741 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
43193781 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
43193821 CCGGAT
1 CCGGAT
43193827 GTCATTCAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:43193761 original size:80 final size:80
Alignment explanation
Indices: 43193621--43193828 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
43193611 TCGAATACAA
* * * * *
43193621 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
43193686 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
43193701 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
43193765 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
43193781 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
43193829 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:43201626 original size:40 final size:40
Alignment explanation
Indices: 43201581--43201787 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
43201571 CGGAATACAA
*
43201581 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
43201621 CCGGATATAACGACTTGCACAAATGCCTTCGGGT-TTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
43201660 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
43201700 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
43201740 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
43201780 CCGGATAT
1 CCGGATAT
43201788 CATTCAATTG
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 39 0.27
40 102 0.71
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:43201699 original size:79 final size:80
Alignment explanation
Indices: 43201581--43201787 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 80
43201571 CGGAATACAA
* * *
43201581 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGAC-ACTAGCACAAAT
*
43201645 GCCTTCGGGT-TTAGC
65 GCCTTCGGGTCTTAAC
* * * *
43201660 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAATTG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGACACTAGCACAAATG
43201725 CCTTCGGGTCTTAAC
66 CCTTCGGGTCTTAAC
** ** * *
43201740 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATAT
43201788 CATTCAATTG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 67 0.61
80 42 0.39
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGACACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:43210763 original size:27 final size:27
Alignment explanation
Indices: 43210676--43210822 Score: 141
Period size: 27 Copynumber: 5.4 Consensus size: 27
43210666 GGGCATAATC
* * * *
43210676 GTCATTTTACCATATAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
43210703 GACACTTTATCCTACAGCGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
43210730 GTTATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
43210757 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
43210784 ATCATTTTACCCTGCAGGGGCACTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
43210811 ATCATTTTACCC
1 GTCATTTTACCC
43210823 ATTTTGGGGT
Statistics
Matches: 97, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:43210803 original size:54 final size:54
Alignment explanation
Indices: 43210664--43210822 Score: 162
Period size: 54 Copynumber: 2.9 Consensus size: 54
43210654 TACGAAACAT
* * * * * *
43210664 AAGGGCATAATCG-TCATTTTACCATATAGGGGTATTACAGACACTTTATCCTAC
1 AAGGGCATTA-CGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTAC
*
43210718 -AGCGGCATTAC-AGTTATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTAC
1 AAG-GGCATTACGA-TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTAC
** * * *
43210772 AAGGGCATTACGATCATTTTACCCTGCAGGGGCACTACGATCATTTTACCC
1 AAGGGCATTACGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCC
43210823 ATTTTGGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
53 3 0.03
54 81 0.93
55 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (54 bp):
AAGGGCATTACGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTAC
Found at i:43213106 original size:24 final size:24
Alignment explanation
Indices: 43213074--43213122 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
43213064 ACAACACAAG
*
43213074 TAAGCTTAATGAAGCTTAATAGGT
1 TAAGATTAATGAAGCTTAATAGGT
43213098 TAAGATTAATGAAGCTTAATAGGT
1 TAAGATTAATGAAGCTTAATAGGT
43213122 T
1 T
43213123 CATAGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (24 bp):
TAAGATTAATGAAGCTTAATAGGT
Found at i:43214723 original size:27 final size:26
Alignment explanation
Indices: 43214663--43214775 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
43214653 CATGGCTGCT
* *
43214663 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
43214689 AGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
43214717 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
43214744 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
43214771 AGAAC
1 AGAAC
43214776 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 3 0.04
27 58 0.74
28 17 0.22
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:43214753 original size:54 final size:54
Alignment explanation
Indices: 43214663--43214775 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
43214653 CATGGCTGCT
*
43214663 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
* * * *
43214717 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
43214771 AGAAC
1 AGAAC
43214776 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
Found at i:43216516 original size:46 final size:46
Alignment explanation
Indices: 43216466--43216641 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
43216456 TGGTTGAGCA
43216466 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43216512 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43216557 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43216605 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43216642 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43216622 original size:93 final size:93
Alignment explanation
Indices: 43216463--43216633 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
43216453 GGATGGTTGA
* *
43216463 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43216528 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43216556 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43216621 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43216634 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43219174 original size:26 final size:26
Alignment explanation
Indices: 43219138--43219299 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
43219128 CATGAAATTC
43219138 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
43219164 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
43219190 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
43219216 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
43219242 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
43219268 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
43219294 TTATCA
1 TTATCA
43219300 ATTTGTATCA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:43219271 original size:78 final size:78
Alignment explanation
Indices: 43219138--43219299 Score: 306
Period size: 78 Copynumber: 2.1 Consensus size: 78
43219128 CATGAAATTC
43219138 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
43219203 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
43219216 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
43219281 TTTACCTAACCTA
66 TTTACCTAACCTA
43219294 TTATCA
1 TTATCA
43219300 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:43224363 original size:27 final size:27
Alignment explanation
Indices: 43224328--43224459 Score: 151
Period size: 27 Copynumber: 4.9 Consensus size: 27
43224318 CTGCCAGAAT
*
43224328 AGAT-ATTGTGACAGAGTCACCAGATAC
1 AGATAATTGTGACAGAGCCACCAGAT-C
*
43224355 AGA-AATTGTGACAGAGCCACCAGAAC
1 AGATAATTGTGACAGAGCCACCAGATC
* * *
43224381 AGATATTTGTGGCAGAGCTACCAGATC
1 AGATAATTGTGACAGAGCCACCAGATC
* *
43224408 AGATATTTGTGGCAGAGCCACCAGATC
1 AGATAATTGTGACAGAGCCACCAGATC
* * *
43224435 AGATATTTGTGGCAAAGCCACCAGA
1 AGATAATTGTGACAGAGCCACCAGA
43224460 ACGCTTCCTC
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.04
27 91 0.96
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
AGATAATTGTGACAGAGCCACCAGATC
Found at i:43224418 original size:54 final size:54
Alignment explanation
Indices: 43224321--43224459 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
43224311 AGCATGGCTG
* *
43224321 CCAGAATAGATA-TTGTGACAGAG-TCACCAGATACAGAAATTGTGACAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCT-ACCAGATACAGAAATTGTGACAGAGCCA
* *
43224374 CCAGAACAGATATTTGTGGCAGAGCTACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCTACCAGATACAGA-AATTGTGACAGAGCCA
* * *
43224428 CCAGATCAGATATTTGTGGCAAAGCCACCAGA
1 CCAGAACAGATATTTGTGGCAGAGCTACCAGA
43224460 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 15 0.20
54 60 0.79
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATTTGTGGCAGAGCTACCAGATACAGAAATTGTGACAGAGCCA
Found at i:43226761 original size:49 final size:50
Alignment explanation
Indices: 43226694--43226937 Score: 276
Period size: 49 Copynumber: 4.9 Consensus size: 50
43226684 AGCTATTGTG
* * *
43226694 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * * *
43226744 -GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * * *
43226794 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
43226844 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
43226894 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
43226938 CAGCTTCGGC
Statistics
Matches: 160, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 77 0.48
50 47 0.29
51 36 0.22
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:43229633 original size:16 final size:15
Alignment explanation
Indices: 43229595--43229633 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
43229585 TGGATTCTCG
*
43229595 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
43229610 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
43229625 TATTCTTGG
1 TA-TCTTGG
43229634 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:43232227 original size:49 final size:49
Alignment explanation
Indices: 43232161--43232401 Score: 259
Period size: 49 Copynumber: 4.9 Consensus size: 49
43232151 GCTATTGTGA
*
43232161 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTT
* * * * *
43232210 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACT-TC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--A-AATTGTT
* * * * * *
43232261 GATCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTT
* ** **
43232310 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTT
* * *
43232360 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
43232402 GATAGCTTCG
Statistics
Matches: 159, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 76 0.48
50 43 0.27
51 36 0.23
52 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTT
Found at i:43232357 original size:101 final size:98
Alignment explanation
Indices: 43232163--43232401 Score: 325
Period size: 100 Copynumber: 2.4 Consensus size: 98
43232153 TATTGTGAGG
* *
43232163 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACT
* *
43232228 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* * * *
43232263 TCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT-GGTCACATGTGTAGTAC
* *
43232328 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * *
43232362 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
43232402 GATAGCTTCG
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 35 0.29
100 45 0.37
101 42 0.34
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:43233274 original size:42 final size:42
Alignment explanation
Indices: 43233227--43233311 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
43233217 CAAATGAGTT
43233227 AGTTTTATTGTGGGAAGTATGTTAGTAAATTGCTTATTATTA
1 AGTTTTATTGTGGGAAGTATGTTAGTAAATTGCTTATTATTA
43233269 AGTTTTATTGTGGGAAGTATGTTAGTAAATTGCTTATTATTA
1 AGTTTTATTGTGGGAAGTATGTTAGTAAATTGCTTATTATTA
43233311 A
1 A
43233312 TTCATGTGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (42 bp):
AGTTTTATTGTGGGAAGTATGTTAGTAAATTGCTTATTATTA
Found at i:43238796 original size:40 final size:39
Alignment explanation
Indices: 43238736--43238880 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 39
43238726 TTGGAATGAT
* * * * *
43238736 ATCCGGGCTAAGTCCTGAAGGCAATTATGCTAGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAA-TAA
* * *
43238776 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TAATAA
** **
43238816 ATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG-TAATAA
*
43238856 ATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCAAT
43238881 CGTGTTAATC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 80 0.92
41 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATAA
Found at i:43238836 original size:80 final size:80
Alignment explanation
Indices: 43238734--43238884 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
43238724 CATTGGAATG
* * * ** *
43238734 ATATCCGGGCTAAGTCCTGAAGGCAATTATGCTAGTAATTACATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
43238799 TTCGTGCGAGTTGAT
66 ATCGTGCGAGTTGAT
** * * *
43238814 ATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
43238879 ATCGTG
66 ATCGTG
43238885 TTAATCACTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGAT
Found at i:43244005 original size:27 final size:26
Alignment explanation
Indices: 43243903--43244006 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
43243893 TGCTAGAACT
* *
43243903 GATATTGTGACAGAGTCACCAGATACA
1 GATATTGTGGCAGAGCCACCAGAT-CA
* * * *
43243930 GATAATATGGCAGAGCCACCAAAACA
1 GATATTGTGGCAGAGCCACCAGATCA
* *
43243956 GATATTTGTGGCAAAACCACCAGATCA
1 GATA-TTGTGGCAGAGCCACCAGATCA
43243983 GATATTCGTGGCAGAGCCACCAGA
1 GATATT-GTGGCAGAGCCACCAGA
43244007 ACGCTTCCTC
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 8 0.13
27 53 0.87
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
GATATTGTGGCAGAGCCACCAGATCA
Found at i:43256053 original size:17 final size:17
Alignment explanation
Indices: 43256015--43256053 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
43256005 CTTTCATTAA
43256015 GTTTTTAAGATTCAATT
1 GTTTTTAAGATTCAATT
* *
43256032 ATTTTTAAGATTCATTT
1 GTTTTTAAGATTCAATT
43256049 GTTTT
1 GTTTT
43256054 CCTTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCAATT
Found at i:43262985 original size:16 final size:16
Alignment explanation
Indices: 43262964--43262997 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43262954 ATATATAGTT
43262964 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
43262980 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
43262996 AA
1 AA
43262998 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:43263241 original size:53 final size:53
Alignment explanation
Indices: 43263181--43263300 Score: 159
Period size: 53 Copynumber: 2.3 Consensus size: 53
43263171 ACTGTTACCA
*** * * * *
43263181 TTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTG
1 TTACTGTTACTGTTTCAAATTTATTCCGATAAGATACTCTGTGTACCGTAATG
*
43263234 TTACTGTTACTGTTTCAAATTTATTCCGATAAGATACTCTGTGTACTGTAATG
1 TTACTGTTACTGTTTCAAATTTATTCCGATAAGATACTCTGTGTACCGTAATG
*
43263287 CTACTGTTACTGTT
1 TTACTGTTACTGTT
43263301 ACTGTTACTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (53 bp):
TTACTGTTACTGTTTCAAATTTATTCCGATAAGATACTCTGTGTACCGTAATG
Found at i:43263299 original size:6 final size:6
Alignment explanation
Indices: 43263288--43263318 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
43263278 ACTGTAATGC
43263288 TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
43263319 TCGGCTTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:43263494 original size:18 final size:18
Alignment explanation
Indices: 43263434--43263594 Score: 74
Period size: 18 Copynumber: 8.5 Consensus size: 18
43263424 AAAGATCGAG
*
43263434 TGTTACTGAATAATTTAGT
1 TGTTACTGAATAATTGA-T
*
43263453 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAAT-TGAT
* *
43263471 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
43263489 TGTTACCGGATAACCAATCAATTGAT
1 TGTTA-C---T---GAAT-AATTGAT
* *
43263515 TGATACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
* *
43263533 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* * *
43263551 TGTTACCGAATAACTGAC
1 TGTTACTGAATAATTGAT
* * * *
43263569 TATTACTAAATAAATAAT
1 TGTTACTGAATAATTGAT
43263587 TGTT-CTGA
1 TGTTACTGA
43263595 TTGACTGATC
Statistics
Matches: 104, Mismatches: 28, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
17 3 0.03
18 67 0.64
19 18 0.17
22 2 0.02
25 4 0.04
26 10 0.10
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:43263581 original size:36 final size:36
Alignment explanation
Indices: 43263508--43263590 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
43263498 ATAACCAATC
* * * * *
43263508 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
43263544 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
* *
43263580 AAATAATTGTT
1 AATTGATTGTT
43263591 CTGATTGACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTAAAT
Found at i:43266239 original size:39 final size:40
Alignment explanation
Indices: 43266125--43266353 Score: 292
Period size: 40 Copynumber: 5.8 Consensus size: 40
43266115 GCTACTCATT
*
43266125 CAAATGCCTTCGGGACATAGCCCGG--TTAAAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATT--AGTAACTCGCA
* *
43266165 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
43266205 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
43266244 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
43266283 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
43266324 CAAA-GCCTTCGGGACTTAGCCCGGACATTA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTA
43266354 TTCGAATAAC
Statistics
Matches: 170, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 74 0.44
40 77 0.45
41 13 0.08
42 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:43266308 original size:118 final size:120
Alignment explanation
Indices: 43266125--43266353 Score: 308
Period size: 118 Copynumber: 1.9 Consensus size: 120
43266115 GCTACTCATT
43266125 CAAATGCCTTCGGGACATAGCCCGGTTAAAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTT-AAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
43266190 ATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
65 ATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGACATTAGTAACTCGCA
* **
43266244 CAAATGCCTTCGGG-CTTAGCCCGGAATT-AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGG--TTAAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
43266306 GGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGACATTA
63 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGACATTA
43266354 TTCGAATAAC
Statistics
Matches: 97, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
117 3 0.03
118 59 0.61
119 29 0.30
120 6 0.06
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTAAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGACATTAGTAACTCGCA
Found at i:43274361 original size:79 final size:79
Alignment explanation
Indices: 43274250--43274473 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
43274240 GCTACTCGTT
* * * *
43274250 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43274315 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
43274330 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
43274393 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * * *
43274408 CAAATGCCTTCGGATCTTAGTCCGGATAAAGTCACTTAGCATAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
43274472 GA
64 GA
43274474 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 58 0.46
80 32 0.25
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:43274364 original size:39 final size:40
Alignment explanation
Indices: 43274250--43274473 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
43274240 GCTACTCGTT
* * *
43274250 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
43274290 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
43274330 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
43274369 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
43274408 CAAATGCCTTC-GGATCTTAGTCCGG-ATAAAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
43274449 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43274474 CATCATTCGA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 76 0.46
41 12 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:43280842 original size:16 final size:16
Alignment explanation
Indices: 43280821--43280872 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
43280811 ATATATAGTT
43280821 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
43280837 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
*
43280853 AA--AATTGAAAAGTG
1 AATTAATTGAAAATTG
43280867 AATTAA
1 AATTAA
43280873 ATACCCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 13 0.41
16 14 0.44
17 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:43280998 original size:12 final size:12
Alignment explanation
Indices: 43280981--43281005 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43280971 GTTGACTACT
43280981 GTTACTGTTATC
1 GTTACTGTTATC
43280993 GTTACTGTTATC
1 GTTACTGTTATC
43281005 G
1 G
43281006 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (12 bp):
GTTACTGTTATC
Found at i:43281103 original size:47 final size:47
Alignment explanation
Indices: 43281036--43281136 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 47
43281026 GATATTGTTA
** * * **
43281036 CTGT-TACCGTTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTTACTGTTACTGTTCCGAATTTATTCCGAT-AAATACT
43281083 CTGTGTACCG-TACTGTTACTGTTCCGAATTTATTCCGATAAATACT
1 CTGTGTACCGTTACTGTTACTGTTCCGAATTTATTCCGATAAATACT
43281129 CTGTGTAC
1 CTGTGTAC
43281137 TCTAATGCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 13 0.28
47 29 0.62
48 5 0.11
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.42
Consensus pattern (47 bp):
CTGTGTACCGTTACTGTTACTGTTCCGAATTTATTCCGATAAATACT
Found at i:43281156 original size:6 final size:6
Alignment explanation
Indices: 43281145--43281175 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
43281135 ACTCTAATGC
*
43281145 TACTGT TACTGT TACTGT TAGTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
43281176 TCGGCTTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:43281349 original size:18 final size:18
Alignment explanation
Indices: 43281288--43281351 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
43281278 TGGAAAGATC
*
43281288 GACTGTTACTGAATAATT
1 GACTTTTACTGAATAATT
* * *
43281306 TAATTATTACTGTAT-ATCT
1 GACTT-TTACTGAATAAT-T
*
43281325 GATTTTTACTGAATAATT
1 GACTTTTACTGAATAATT
43281343 GACTTTTAC
1 GACTTTTAC
43281352 CGGATAATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
GACTTTTACTGAATAATT
Found at i:43281399 original size:18 final size:18
Alignment explanation
Indices: 43281375--43281438 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
43281365 AATTGATTGA
43281375 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
43281393 TATTGAATAATTGATTTT
1 TACTGAATAACTGATTAT
* *
43281411 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
*
43281429 TACTAAATAA
1 TACTGAATAA
43281439 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Done.