Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 258 of 316
Found at i:85361153 original size:23 final size:23
Alignment explanation
Indices: 85361110--85361159 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
85361100 CTGTATTTGA
85361110 GCATGCCATGTTATATGTATGTC
1 GCATGCCATGTTATATGTATGTC
*
85361133 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTC
85361156 GCAT
1 GCAT
85361160 TGCATGGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTC
Found at i:85361504 original size:35 final size:35
Alignment explanation
Indices: 85361464--85361556 Score: 143
Period size: 35 Copynumber: 2.7 Consensus size: 35
85361454 TACTGCACTA
85361464 ATTACTATTACTGAAATGGGCTAAAACCCAGACTG
1 ATTACTATTACTGAAATGGGCTAAAACCCAGACTG
* *
85361499 ATTACTATTACTAAAATGGGATAAAACCCAGACTG
1 ATTACTATTACTGAAATGGGCTAAAACCCAGACTG
* *
85361534 -CTACTGTTACTGAAATGGGCTAA
1 ATTACTATTACTGAAATGGGCTAA
85361557 GGCCCAGATT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 19 0.37
35 33 0.63
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (35 bp):
ATTACTATTACTGAAATGGGCTAAAACCCAGACTG
Found at i:85361587 original size:34 final size:34
Alignment explanation
Indices: 85361466--85361588 Score: 149
Period size: 34 Copynumber: 3.6 Consensus size: 34
85361456 CTGCACTAAT
*
85361466 TACTATTACTGAAATGGGCTAAAACCCAGACTGAT
1 TACTATTACTGAAATGGGCTAAAACCCAGACTG-C
* *
85361501 TACTATTACTAAAATGGGATAAAACCCAGACTGC
1 TACTATTACTGAAATGGGCTAAAACCCAGACTGC
* ** *
85361535 TACTGTTACTGAAATGGGCTAAGGCCCAGATTGC
1 TACTATTACTGAAATGGGCTAAAACCCAGACTGC
*
85361569 CACTATTACT-AATATGGGCT
1 TACTATTACTGAA-ATGGGCT
85361589 TAGGCCCCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
33 2 0.03
34 43 0.57
35 31 0.41
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (34 bp):
TACTATTACTGAAATGGGCTAAAACCCAGACTGC
Found at i:85370654 original size:26 final size:26
Alignment explanation
Indices: 85370588--85370654 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
85370578 GGCATAGCAG
* * * *
85370588 GCTTTTTGCTGGTGTATTTTTAGCAG
1 GCTTTGTGCTGGTGTATATTTAGAAA
* * *
85370614 GCTTCGAGCTAGTGTATATTTAGAAA
1 GCTTTGTGCTGGTGTATATTTAGAAA
85370640 GCTTTGTGCTGGTGT
1 GCTTTGTGCTGGTGT
85370655 TGTATTAGCA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.43
Consensus pattern (26 bp):
GCTTTGTGCTGGTGTATATTTAGAAA
Found at i:85370711 original size:34 final size:34
Alignment explanation
Indices: 85370667--85370734 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
85370657 TATTAGCAGG
85370667 CACTACGTGTTAGTGTTTTATTTAGAATGTACTA
1 CACTACGTGTTAGTGTTTTATTTAGAATGTACTA
* *
85370701 CACTATGTGTTAGTGTTTTATTTAGCATGTACTA
1 CACTACGTGTTAGTGTTTTATTTAGAATGTACTA
85370735 TGTACCGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.46
Consensus pattern (34 bp):
CACTACGTGTTAGTGTTTTATTTAGAATGTACTA
Found at i:85370735 original size:29 final size:29
Alignment explanation
Indices: 85370651--85370737 Score: 77
Period size: 34 Copynumber: 2.9 Consensus size: 29
85370641 CTTTGTGCTG
* * * *
85370651 GTGTTGTA-TTAGCAGGCACTACGTGTTA
1 GTGTTTTATTTAGCATGTACTATGTGTTA
*
85370679 GTGTTTTATTTAGAATGTACTACACTATGTGTTA
1 GTGTTTTATTTAGCATG---T--ACTATGTGTTA
85370713 GTGTTTTATTTAGCATGTACTATGT
1 GTGTTTTATTTAGCATGTACTATGT
85370738 ACCGATGATG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
28 7 0.15
29 13 0.28
31 1 0.02
34 26 0.55
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.45
Consensus pattern (29 bp):
GTGTTTTATTTAGCATGTACTATGTGTTA
Found at i:85374924 original size:20 final size:20
Alignment explanation
Indices: 85374899--85374943 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
85374889 CTAATGGTAC
85374899 AGGCAATTAACCAAGTCTAA
1 AGGCAATTAACCAAGTCTAA
85374919 AGGCAATTAACCAAGTCTAA
1 AGGCAATTAACCAAGTCTAA
85374939 AGGCA
1 AGGCA
85374944 TAAAGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (20 bp):
AGGCAATTAACCAAGTCTAA
Found at i:85380806 original size:29 final size:29
Alignment explanation
Indices: 85380764--85380828 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
85380754 GTGTCTCAGC
*
85380764 CGTGTGTGCCACACGGCCTAGAACACAGG
1 CGTGTGTGCCACACGACCTAGAACACAGG
85380793 CGTGTGTGCCACACGACCTAGAACACAGG
1 CGTGTGTGCCACACGACCTAGAACACAGG
85380822 CGTGTGT
1 CGTGTGT
85380829 CTTGGCTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.23, C:0.29, G:0.31, T:0.17
Consensus pattern (29 bp):
CGTGTGTGCCACACGACCTAGAACACAGG
Found at i:85390952 original size:13 final size:13
Alignment explanation
Indices: 85390934--85390962 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85390924 AATTTTAGGT
85390934 CATACCACACGCC
1 CATACCACACGCC
85390947 CATACCACACGCC
1 CATACCACACGCC
85390960 CAT
1 CAT
85390963 GGGGGTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.52, G:0.07, T:0.10
Consensus pattern (13 bp):
CATACCACACGCC
Found at i:85397648 original size:26 final size:26
Alignment explanation
Indices: 85397619--85397675 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
85397609 GCACTCTCTC
85397619 GAGCCATATAA-CAGGAAACTCACAAA
1 GAGCCAT-TAATCAGGAAACTCACAAA
*
85397645 GAGCCATTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAACTCACAAA
85397671 GAGCC
1 GAGCC
85397676 TATCAAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAACTCACAAA
Found at i:85397685 original size:23 final size:25
Alignment explanation
Indices: 85397619--85397687 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
85397609 GCACTCTCTC
* * *
85397619 GAGCCATATAACAGGAAACTCACAAA
1 GAGCCATA-ATCAAGAAGCTCACAAA
*
85397645 GAGCCATTAATCAGGAAGCTCACAAA
1 GAGCCA-TAATCAAGAAGCTCACAAA
85397671 GAGCC-T-ATCAAGAAGCT
1 GAGCCATAATCAAGAAGCT
85397688 TGTCCAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.26
24 1 0.03
26 26 0.67
27 2 0.05
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.14
Consensus pattern (25 bp):
GAGCCATAATCAAGAAGCTCACAAA
Found at i:85399612 original size:21 final size:21
Alignment explanation
Indices: 85399576--85399617 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
85399566 TGTATGGAAT
*
85399576 GTTAATTTAATGGTATCAAAG
1 GTTAATTTAATAGTATCAAAG
*
85399597 GTTAATTTACTAGTATCAAAG
1 GTTAATTTAATAGTATCAAAG
85399618 CTACAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (21 bp):
GTTAATTTAATAGTATCAAAG
Found at i:85403448 original size:46 final size:46
Alignment explanation
Indices: 85403381--85403555 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
85403371 TGTAACCCGC
* *
85403381 CCATAAGTGAATTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
85403427 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * *
85403477 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
85403520 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
85403556 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 62 0.56
47 27 0.25
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:85403575 original size:46 final size:44
Alignment explanation
Indices: 85403386--85403575 Score: 118
Period size: 46 Copynumber: 4.1 Consensus size: 44
85403376 CCCGCCCATA
* * * ** ** *
85403386 AGTGAATTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
85403431 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
85403481 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
85403524 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
85403571 AGTGA
1 AGTGA
85403576 CATGTCACTT
Statistics
Matches: 113, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 64 0.57
47 28 0.25
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:85408602 original size:13 final size:13
Alignment explanation
Indices: 85408584--85408608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85408574 CACTATCAAC
85408584 AGGATCAAGGATT
1 AGGATCAAGGATT
85408597 AGGATCAAGGAT
1 AGGATCAAGGAT
85408609 ACTTCCAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.32, T:0.20
Consensus pattern (13 bp):
AGGATCAAGGATT
Found at i:85411560 original size:30 final size:29
Alignment explanation
Indices: 85411513--85411593 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
85411503 AATGATAAAA
*
85411513 AATAACAATTATA-AAATATATTAAATTTT
1 AATAAAAATTA-AGAAATATATTAAATTTT
**
85411542 AATAAAAATATAAGAAATAT-TTATTTTTT
1 AATAAAAAT-TAAGAAATATATTAAATTTT
* * *
85411571 ATTAAAAATTAGGAAAAATATTA
1 AATAAAAATTAAGAAATATATTA
85411594 TAAATTATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 8 0.19
29 27 0.63
30 8 0.19
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.40
Consensus pattern (29 bp):
AATAAAAATTAAGAAATATATTAAATTTT
Found at i:85411611 original size:20 final size:20
Alignment explanation
Indices: 85411586--85411640 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
85411576 AAATTAGGAA
*
85411586 AAATATTATAAATTATATAG
1 AAATATTATAAAATATATAG
* *
85411606 AAATATAGAAAAAAATATATAG
1 AAATAT--TATAAAATATATAG
*
85411628 AAATTTTATAAAA
1 AAATATTATAAAA
85411641 CTGTAAGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATATTATAAAATATATAG
Found at i:85411996 original size:26 final size:26
Alignment explanation
Indices: 85411967--85412016 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
85411957 TTTTTATATT
85411967 TTTATTAAAGTTTAATTTTTATAACA
1 TTTATTAAAGTTTAATTTTTATAACA
* ** *
85411993 TTTATTGATTTTTATTTTTTATAA
1 TTTATTAAAGTTTAATTTTTATAA
85412017 TTTTTTTGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTATTAAAGTTTAATTTTTATAACA
Found at i:85412603 original size:26 final size:25
Alignment explanation
Indices: 85412552--85412601 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
85412542 TACAACCAAA
* *
85412552 AAATTTTTTTAAAAGTTTATTTTTT
1 AAATCTTTTTAAAAGATTATTTTTT
85412577 AAATCTTTTTAAAAGATTATTTTTT
1 AAATCTTTTTAAAAGATTATTTTTT
85412602 TACTTTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
AAATCTTTTTAAAAGATTATTTTTT
Found at i:85412662 original size:26 final size:26
Alignment explanation
Indices: 85412634--85412684 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
85412624 AATTTGTGAG
* *
85412634 AAATTTAAAATAATTTAAAATATATGA
1 AAATTTAAAA-AATTAAAAAAATATGA
*
85412661 AAATTTTAAAAATTAAAAAAATAT
1 AAATTTAAAAAATTAAAAAAATAT
85412685 TATTTTCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATTTAAAAAATTAAAAAAATATGA
Found at i:85416999 original size:46 final size:46
Alignment explanation
Indices: 85416947--85417122 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
85416937 TATTTGGGCA
* *
85416947 TCCGAACTCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * *
85416993 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
85417040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * **
85417086 -CCTAAGCTCGTTGAGTTGAGTCCAAGTTTGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85417123 TCGGGTTACA
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 5 0.05
46 62 0.60
47 36 0.35
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:85417053 original size:93 final size:93
Alignment explanation
Indices: 85416943--85417113 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
85416933 TCGATATTTG
* *
85416943 GGCATCCGAACTCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAA-CTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAAGCTCGTTGA
*
85417007 GTTGAGTCCGAGTTCGTGAAATGTAACTA
65 GTTGAGTCCAAGTTCGTGAAATGTAACTA
*
85417036 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTAAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCGAAGCTCGTTGAG
85417101 TTGAGTCCAAGTT
66 TTGAGTCCAAGTT
85417114 TGCTTATGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCGAAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAAATGTAACTA
Found at i:85419019 original size:39 final size:39
Alignment explanation
Indices: 85418968--85419046 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
85418958 ACCTGAAGAG
85418968 TGCTTGAAGTGTGCTATATCATTGCTGAGGGATTCGGCT
1 TGCTTGAAGTGTGCTATATCATTGCTGAGGGATTCGGCT
85419007 TGCTTGAAGTGTGCTATATCATTGCTGAGGGATTCGGCT
1 TGCTTGAAGTGTGCTATATCATTGCTGAGGGATTCGGCT
85419046 T
1 T
85419047 ATCATTGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.37
Consensus pattern (39 bp):
TGCTTGAAGTGTGCTATATCATTGCTGAGGGATTCGGCT
Found at i:85423226 original size:27 final size:27
Alignment explanation
Indices: 85423195--85423372 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
85423185 TAAATTGTAC
85423195 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
85423222 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85423248 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
85423276 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
85423304 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85423331 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85423358 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85423373 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:85423309 original size:82 final size:81
Alignment explanation
Indices: 85423196--85423351 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
85423186 AAATTGTACA
* *
85423196 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85423260 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
85423277 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85423342 TGCGAGTTGA
65 TGCGAATTGA
85423352 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85423363 original size:82 final size:81
Alignment explanation
Indices: 85423192--85423372 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
85423182 GATTAAATTG
* *
85423192 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
85423257 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
85423273 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
85423337 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
85423355 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
85423373 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85425613 original size:43 final size:43
Alignment explanation
Indices: 85425548--85425800 Score: 377
Period size: 43 Copynumber: 5.9 Consensus size: 43
85425538 GTCTAAACTC
* *
85425548 ACTCACCAGCATTACT--CCTGCTAGGCTCGAAGCCCAATATTA
1 ACTCACCGGCATTA-TAGCCTGCTAGGCTCGAAGCCCGATATTA
* ** *
85425590 AATCACTAGCATTATAGCCTGCTAGGTTCGAAGCCCGATATTA
1 ACTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTA
*
85425633 ACTCATCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTA
1 ACTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTA
*
85425676 ACTCACCGGCATTATAGCATGCTAGGCTCGAAGCCCGATATTA
1 ACTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTA
*
85425719 ACTCACCGGCATTATAGACAT-CTAGGCTCGAAGCCCGATATTA
1 ACTCACCGGCATTATAG-CCTGCTAGGCTCGAAGCCCGATATTA
85425762 ACTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 ACTCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGA
85425801 ATAGTACCGT
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
41 1 0.01
42 14 0.07
43 170 0.88
44 9 0.05
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
ACTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTA
Found at i:85429363 original size:49 final size:49
Alignment explanation
Indices: 85429307--85429617 Score: 521
Period size: 47 Copynumber: 6.5 Consensus size: 49
85429297 TGAATAAATA
85429307 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
85429356 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
85429405 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
85429452 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
85429501 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
85429548 TGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGGATG
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
85429595 TGAAAGTGTATA-A-ATGTGATAAG
1 TGAAAGTGTATATATATGTGATAAG
85429618 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
47 148 0.59
48 1 0.00
49 103 0.41
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:85429436 original size:96 final size:96
Alignment explanation
Indices: 85429307--85429617 Score: 536
Period size: 96 Copynumber: 3.2 Consensus size: 96
85429297 TGAATAAATA
85429307 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
*
85429372 TGTGATAAGGCCTAATGGCCAATGTGATGAATG
64 TGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
85429405 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
85429470 TGATAAGGCCTAATGGCCGATGTGATGAATG
66 TGATAAGGCCTAATGGCCGATGTGATGAATG
85429501 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
* *
85429564 TGATAAGGCCTAATAGCCGATGTGATGGATG
66 TGATAAGGCCTAATGGCCGATGTGATGAATG
*
85429595 TGAAAGTGTATAAATGTGATAAG
1 TGAAAGTGTATATATGTGATAAG
85429618 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 59 0.29
96 138 0.67
98 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
TGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:85437414 original size:43 final size:43
Alignment explanation
Indices: 85437346--85437467 Score: 185
Period size: 43 Copynumber: 2.8 Consensus size: 43
85437336 CTAAACTCAT
*
85437346 TCACCGGCATTACT-G-CTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATT-CTAGCCTGCTAGGCTCGAAGCCCGATATTAAC
85437388 TCACCGGCATTCTAGCCTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTCTAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* *
85437431 TCACCGACATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGCATTCTAGCCTGCTAGGCTCGAA-GCCCGA
85437468 ATAGTTCCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 2 0.03
42 12 0.16
43 54 0.73
44 6 0.08
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (43 bp):
TCACCGGCATTCTAGCCTGCTAGGCTCGAAGCCCGATATTAAC
Found at i:85439537 original size:46 final size:46
Alignment explanation
Indices: 85439470--85439688 Score: 271
Period size: 46 Copynumber: 4.7 Consensus size: 46
85439460 TTGGGCATCT
*
85439470 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
85439516 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * * * * * *
85439562 GAACTCATTGAGTTGAGTCTGAGTTC-GTGAAATGTA-ACTAAGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAA-CGTCC
*
85439609 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
85439655 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85439689 TCGGGTTACA
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 108 0.75
47 34 0.24
48 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:85456672 original size:55 final size:54
Alignment explanation
Indices: 85456579--85456730 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 54
85456569 TTAAATTGTA
* * ** *
85456579 CAGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * **
85456633 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
85456688 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
85456731 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 38 0.46
55 45 0.54
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:85456710 original size:27 final size:27
Alignment explanation
Indices: 85456580--85456730 Score: 167
Period size: 27 Copynumber: 5.6 Consensus size: 27
85456570 TAAATTGTAC
* *
85456580 AGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85456607 GGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
85456634 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
85456662 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85456689 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
85456716 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85456731 GACTCAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 89 0.79
28 23 0.21
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:85456721 original size:82 final size:82
Alignment explanation
Indices: 85456580--85456730 Score: 185
Period size: 82 Copynumber: 1.8 Consensus size: 82
85456570 TAAATTGTAC
* * * *
85456580 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
85456645 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
* ** * * ** * *
85456662 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 AGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
85456727 TGCG
66 TGCG
85456731 GACTCAATAT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
82 56 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:85459443 original size:122 final size:122
Alignment explanation
Indices: 85459226--85459471 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
85459216 TAGTTTGCTC
85459226 TCTCCATTTCTACCCATATTTCATGCTAGGGTTCATGTTAAAAAATTTACCCATGCATGAGTTAT
1 TCTCCATTTCTACCCATATTTCATGCTAGGGTTCATGTTAAAAAATTTACCCATGCATGAGTTAT
85459291 TGGTATTTTGATGGATTATGGAAGAATATGAAAGATAAATGTGTGTTAAACATCTTT
66 TGGTATTTTGATGGATTATGGAAGAATATGAAAGATAAATGTGTGTTAAACATCTTT
*
85459348 TCTCCATTTCTACCCATATTTCATGCTAGGGTTCATGTTCAAAAATTTACCCATGCATGAGTTAT
1 TCTCCATTTCTACCCATATTTCATGCTAGGGTTCATGTTAAAAAATTTACCCATGCATGAGTTAT
85459413 TGGTATTTTGATGGATTATGGAAGAATATGAAAGATAAATGTGTGTTAAACATCTTT
66 TGGTATTTTGATGGATTATGGAAGAATATGAAAGATAAATGTGTGTTAAACATCTTT
85459470 TC
1 TC
85459472 CAGGTTGGTT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (122 bp):
TCTCCATTTCTACCCATATTTCATGCTAGGGTTCATGTTAAAAAATTTACCCATGCATGAGTTAT
TGGTATTTTGATGGATTATGGAAGAATATGAAAGATAAATGTGTGTTAAACATCTTT
Found at i:85470780 original size:17 final size:18
Alignment explanation
Indices: 85470749--85470785 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
85470739 TTTGAGTCCC
*
85470749 TTTATTTTAATTTTTATT
1 TTTATTTTAAATTTTATT
85470767 TTTA-TTTAAATTTTATT
1 TTTATTTTAAATTTTATT
85470784 TT
1 TT
85470786 CTCTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTAAATTTTATT
Found at i:85476167 original size:32 final size:32
Alignment explanation
Indices: 85476125--85476236 Score: 90
Period size: 32 Copynumber: 3.6 Consensus size: 32
85476115 AGCTTTGGAT
85476125 AGGAAAGCCTTTGTGGCAAGTACTAAACGTAA
1 AGGAAAGCCTTTGTGGCAAGTACTAAACGTAA
* * * * *
85476157 AGGAATGCCTTTATGGCAA--A--AATCTGGAT
1 AGGAAAGCCTTTGTGGCAAGTACTAAAC-GTAA
* * * *
85476186 AGGAAAGCCTCTGTAGCAAGTACTGAATGTAA
1 AGGAAAGCCTTTGTGGCAAGTACTAAACGTAA
85476218 A-GAAATGCCTTTGTGGCAA
1 AGGAAA-GCCTTTGTGGCAA
85476237 AACTCTAGAC
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
28 3 0.05
29 17 0.29
30 1 0.02
31 5 0.09
32 31 0.53
33 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (32 bp):
AGGAAAGCCTTTGTGGCAAGTACTAAACGTAA
Found at i:85476185 original size:61 final size:61
Alignment explanation
Indices: 85476105--85476335 Score: 268
Period size: 61 Copynumber: 3.8 Consensus size: 61
85476095 TAAGAATGTG
** * * *
85476105 TTTGTGGCAAAGCTTTGGATAGGAAAGCCTTTGTGGCAAGTACTAAACGTAAAGGAATGCC
1 TTTGTGGCAAAAATCTGGATAGGAAAGCCTTTGTGGCAAGTACTGAATGTAAAGGAATGCC
* * * *
85476166 TTTATGGCAAAAATCTGGATAGGAAAGCCTCTGTAGCAAGTACTGAATGTAAAGAAATGCC
1 TTTGTGGCAAAAATCTGGATAGGAAAGCCTTTGTGGCAAGTACTGAATGTAAAGGAATGCC
* * * * * * *
85476227 TTTGTGGCAAAACTCTAGACAAGAAAACCTTTGTGGCAAGCATTGAATGTAAAGGAATGCC
1 TTTGTGGCAAAAATCTGGATAGGAAAGCCTTTGTGGCAAGTACTGAATGTAAAGGAATGCC
* *
85476288 TTCGTGG-AAAAACTCTGGATAGGAAAGCCTTTGTCGCGAA-TACTGAAT
1 TTTGTGGCAAAAA-TCTGGATAGGAAAGCCTTTGTGGC-AAGTACTGAAT
85476336 CATGGCGCAA
Statistics
Matches: 139, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
60 4 0.03
61 133 0.96
62 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (61 bp):
TTTGTGGCAAAAATCTGGATAGGAAAGCCTTTGTGGCAAGTACTGAATGTAAAGGAATGCC
Found at i:85486009 original size:17 final size:18
Alignment explanation
Indices: 85485983--85486016 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85485973 TTTTTGTTTA
85485983 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
85486000 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
85486017 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:85494182 original size:43 final size:43
Alignment explanation
Indices: 85494121--85494324 Score: 345
Period size: 43 Copynumber: 4.7 Consensus size: 43
85494111 GAAAAAATGT
*
85494121 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACGC
*
85494164 CGCTAAAGAACATGACCTTTAGCGGCGCTTTCACCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACGC
*
85494207 TGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACGC
* *
85494250 CACTAAAGAACATGACCTTTAGCGGCGCTCTTACCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACGC
* *
85494293 CGCTAAAGAACATGTCCTTTAGCGGCACTTTT
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTT
85494325 TGTCACAAAT
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 150 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACGC
Found at i:85495863 original size:23 final size:23
Alignment explanation
Indices: 85495814--85495863 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
85495804 ACCCCATGCA
*
85495814 ATGCAACGTAATATTATACATGG
1 ATGCAACATAATATTATACATGG
85495837 ATGCAACATACATA-TA-ACATGG
1 ATGCAACATA-ATATTATACATGG
85495859 CATGC
1 -ATGC
85495864 TCAAATACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (23 bp):
ATGCAACATAATATTATACATGG
Found at i:85495936 original size:27 final size:26
Alignment explanation
Indices: 85495898--85495987 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 26
85495888 GAACAAATCT
*
85495898 GTCATTTTACCTTACTGGGGTATTAC
1 GTCATTTTACCTTACTGGGGTATTTC
*
85495924 AGTCATTTTACCTTACAGGGGTATTTC
1 -GTCATTTTACCTTACTGGGGTATTTC
* *
85495951 GATCATTCTACCCTA-TGGAGGTATTTC
1 G-TCATTTTACCTTACTGG-GGTATTTC
85495978 GGTCATTTTA
1 -GTCATTTTA
85495988 TTACATAAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.06
27 50 0.93
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCTTACTGGGGTATTTC
Found at i:85496009 original size:27 final size:27
Alignment explanation
Indices: 85495979--85496596 Score: 812
Period size: 27 Copynumber: 22.7 Consensus size: 27
85495969 AGGTATTTCG
* * *
85495979 GTCATTTTATTACATAAGGGAAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496006 GTCATTTTATCACATAAGAGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496033 GTCATTTTATCATATAAGGG-AAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496059 GCCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496086 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
85496113 ATCATTTTATAACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496140 ATCATTTTATCACATAAAGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496167 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496194 GTCATTTTATCACATGAA-GGAAAAATC
1 GTCATTTTATCACAT-AAGGGCAAAATC
85496221 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
85496248 GTCATTTTATCACATGAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496275 GTCA-TTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496301 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496328 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496355 ATCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496382 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496409 ATCATTTTATCACATATCACATGAGGGAAAAATC
1 GTCATTTTATCAC--AT---A--AGGGCAAAATC
* *
85496443 ATCATTTGATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
85496470 ATCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496497 GTCATTTTATCACATGAGGG-AAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496523 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
85496550 ATCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
85496577 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
85496597 TTCAGGTACC
Statistics
Matches: 534, Mismatches: 45, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
26 77 0.14
27 427 0.80
28 1 0.00
29 3 0.01
32 3 0.01
34 23 0.04
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:85496121 original size:107 final size:108
Alignment explanation
Indices: 85495979--85496596 Score: 846
Period size: 107 Copynumber: 5.7 Consensus size: 108
85495969 AGGTATTTCG
* * ** * **
85495979 GTCATTTTATTACATAAGGGAAAAATTGTCATTTTATCACATAAGAGCAAAATTGTCATTTTATC
1 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATC
* * *
85496044 ATATAAGGG-AAAATTGCCATTTTATCACATAAGGGCAAAATC
66 ACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATC
* * *
85496086 GTCATTTTATCACATGAGGGCAAAATCATCATTTTATAACATGAGGGCAAAATCATCATTTTATC
1 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATC
* *
85496151 ACATAAAGGCAAAATCGTCATTTTATCACATGAGGGCAAAATC
66 ACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATC
* * *
85496194 GTCATTTTATCACATGAAGGAAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATC
* * *
85496259 ACATGAGGGTAAAATTGTCA-TTTATCACATGAGGGCAAAATT
66 ACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATC
* * ** *
85496301 GTCATTTTATCACATAAGGGTAAAATTGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
1 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATC
* *
85496366 ACATAAGGGCAAAATTGTCATTTTATCACATAAGGGAAAAATC
66 ACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATC
* *
85496409 ATCATTTTATCACATATCACATGAGGGAAAAATCATCATTTGATCACATAAGGGCAAAATCATCA
1 GTCA--TT-T----TATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCA
* *
85496474 TTTTATCACATGAGGGCAAAATCGTCATTTTATCACATGAGGG-AAAATC
59 TTTTATCACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATC
* *
85496523 GTCATTTTATCACATGAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATC
85496588 ACATAAGGG
66 ACATAAGGG
85496597 TTCAGGTACC
Statistics
Matches: 450, Mismatches: 52, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
107 223 0.50
108 127 0.28
110 2 0.00
111 2 0.00
112 2 0.00
114 9 0.02
115 85 0.19
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (108 bp):
GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATC
ACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATC
Found at i:85496436 original size:34 final size:34
Alignment explanation
Indices: 85496389--85496458 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
85496379 ATTGTCATTT
*
85496389 TATCACATAAGGGAAAAATCATCATTTTATCACA
1 TATCACATAAGGGAAAAATCATCATTTGATCACA
*
85496423 TATCACATGAGGGAAAAATCATCATTTGATCACA
1 TATCACATAAGGGAAAAATCATCATTTGATCACA
85496457 TA
1 TA
85496459 AGGGCAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (34 bp):
TATCACATAAGGGAAAAATCATCATTTGATCACA
Found at i:85496484 original size:88 final size:87
Alignment explanation
Indices: 85496335--85496592 Score: 377
Period size: 88 Copynumber: 3.0 Consensus size: 87
85496325 ATTGTCATTT
**
85496335 TATCACATGAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAG
1 TATCACATGAGGG-AAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAG
* *
85496400 GGAAAAATCATCATTTTATCACA
65 GGCAAAATCGTCATTTTATCACA
* *
85496423 TATCACATGAGGGAAAAATCATCATTTGATCACATAAGGGCAAAATCATCATTTTATCACATGAG
1 TATCACATGAGGG-AAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAG
85496488 GGCAAAATCGTCA--TT-T----
65 GGCAAAATCGTCATTTTATCACA
* *
85496504 TATCACATGAGGGAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATCACATAAGG
1 TATCACATGAGGGAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGG
85496569 GCAAAATCGTCATTTTATCACA
66 GCAAAATCGTCATTTTATCACA
85496591 TA
1 TA
85496593 AGGGTTCAGG
Statistics
Matches: 152, Mismatches: 11, Indels: 15
0.85 0.06 0.08
Matches are distributed among these distances:
80 60 0.39
81 13 0.09
82 2 0.01
83 1 0.01
85 1 0.01
86 2 0.01
87 2 0.01
88 71 0.47
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (87 bp):
TATCACATGAGGGAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGG
GCAAAATCGTCATTTTATCACA
Found at i:85498590 original size:13 final size:14
Alignment explanation
Indices: 85498564--85498592 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85498554 ACTAATGACA
85498564 AATTAAACCATTAT
1 AATTAAACCATTAT
85498578 AATTAAA-CATTAT
1 AATTAAACCATTAT
85498591 AA
1 AA
85498593 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:85501896 original size:12 final size:12
Alignment explanation
Indices: 85501879--85501904 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85501869 ACCATCCTCT
85501879 TCATCAGATTCA
1 TCATCAGATTCA
85501891 TCATCAGATTCA
1 TCATCAGATTCA
85501903 TC
1 TC
85501905 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:85503097 original size:49 final size:47
Alignment explanation
Indices: 85502972--85503254 Score: 449
Period size: 47 Copynumber: 5.9 Consensus size: 47
85502962 CCCTTCGGGA
* * * * * *
85502972 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85503019 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85503066 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85503115 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85503162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85503211 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
85503255 CGCCATACTA
Statistics
Matches: 220, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 127 0.58
49 93 0.42
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85503134 original size:96 final size:96
Alignment explanation
Indices: 85502972--85503254 Score: 480
Period size: 96 Copynumber: 3.0 Consensus size: 96
85502962 CCCTTCGGGA
* * * * * * *
85502972 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
85503035 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
85503066 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
85503131 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
85503162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
85503227 ACTTTCACATTCATCACATCGGCCATTA
66 ACTTTCACATTCATCACATCGGCCATTA
85503255 CGCCATACTA
Statistics
Matches: 179, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 10 0.06
95 1 0.01
96 168 0.94
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85506827 original size:9 final size:9
Alignment explanation
Indices: 85506805--85506900 Score: 92
Period size: 9 Copynumber: 11.0 Consensus size: 9
85506795 TTGATATATA
85506805 TAAGTTAT-
1 TAAGTTATG
85506813 TAAGTTATG
1 TAAGTTATG
85506822 TAAGTTATG
1 TAAGTTATG
*
85506831 TGAGTTATG
1 TAAGTTATG
*
85506840 TAAATTATG
1 TAAGTTATG
* * *
85506849 ATATGATATA
1 -TAAGTTATG
*
85506859 T-ACTTATG
1 TAAGTTATG
85506867 T-A-TTATG
1 TAAGTTATG
85506874 TAAGTTATG
1 TAAGTTATG
*
85506883 TAAATTATG
1 TAAGTTATG
85506892 TAAGTTATG
1 TAAGTTATG
85506901 AAATTTAAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
7 6 0.08
8 14 0.20
9 46 0.65
10 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:85507038 original size:20 final size:20
Alignment explanation
Indices: 85507014--85507052 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
85507004 TCTGTTTTGG
85507014 TTATA-ATATGTTT-TGAAT
1 TTATATATATGTTTATGAAT
*
85507032 TTATATATATTTTTATGAAT
1 TTATATATATGTTTATGAAT
85507052 T
1 T
85507053 AAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TTATATATATGTTTATGAAT
Found at i:85507363 original size:21 final size:20
Alignment explanation
Indices: 85507339--85507383 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
85507329 TCTTGAAAAG
85507339 TCAAAATAGTATATAAAAATA
1 TCAAAATA-TATATAAAAATA
*
85507360 TC-AAATATTTATAAAAATA
1 TCAAAATATATATAAAAATA
85507379 -CAAAA
1 TCAAAA
85507384 AAAAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 5 0.23
21 2 0.09
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
TCAAAATATATATAAAAATA
Found at i:85509881 original size:14 final size:14
Alignment explanation
Indices: 85509864--85509890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85509854 GGGGGAACTG
85509864 ATTTGGGGAAAATT
1 ATTTGGGGAAAATT
85509878 ATTTGGGGAAAAT
1 ATTTGGGGAAAAT
85509891 GTTAGGGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (14 bp):
ATTTGGGGAAAATT
Found at i:85511042 original size:7 final size:7
Alignment explanation
Indices: 85511017--85511101 Score: 82
Period size: 7 Copynumber: 11.9 Consensus size: 7
85511007 CTTCTCCAAT
85511017 CCCTAAC
1 CCCTAAC
*
85511024 CCCTTAAA
1 CCC-TAAC
85511032 CCCTAAC
1 CCCTAAC
85511039 CCCTAA-
1 CCCTAAC
85511045 CCCTAAC
1 CCCTAAC
** *
85511052 CTTTTAAA
1 C-CCTAAC
*
85511060 CCTTAAC
1 CCCTAAC
85511067 CCCTAAC
1 CCCTAAC
*
85511074 CCCTTAAA
1 CCC-TAAC
85511082 CCCTAAC
1 CCCTAAC
85511089 CCCTAAC
1 CCCTAAC
85511096 CCCTAA
1 CCCTAA
85511102 AAACATAAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
6 6 0.09
7 42 0.66
8 16 0.25
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:85511043 original size:22 final size:22
Alignment explanation
Indices: 85511017--85511099 Score: 103
Period size: 22 Copynumber: 3.5 Consensus size: 22
85511007 CTTCTCCAAT
85511017 CCCTAACCCCTTAAACCCTAAC
1 CCCTAACCCCTTAAACCCTAAC
*
85511039 CCCTAACCCTAACCTTTTAAACCTTAAC
1 CCCTAA-CC---CC--TTAAACCCTAAC
85511067 CCCTAACCCCTTAAACCCTAAC
1 CCCTAACCCCTTAAACCCTAAC
85511089 CCCTAACCCCT
1 CCCTAACCCCT
85511100 AAAAACATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
22 28 0.53
23 2 0.04
24 2 0.04
26 2 0.04
27 2 0.04
28 17 0.32
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCTAACCCCTTAAACCCTAAC
Found at i:85511396 original size:42 final size:42
Alignment explanation
Indices: 85511334--85511460 Score: 177
Period size: 42 Copynumber: 3.1 Consensus size: 42
85511324 ACATGAGGCA
* *
85511334 TTTTTCAAAAAGCGCAGCTAATGCTGGATCTATAGTGGCGTT
1 TTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGCGGCGTT
* * *
85511376 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC--A
1 TTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGCGGCGTT
* *
85511416 TTTTTCAAAAAGCACTGCTAATGCTCGATCTATAGCGGCGTT
1 TTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGCGGCGTT
85511458 TTT
1 TTT
85511461 AAAAAAGCGC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 36 0.49
42 38 0.51
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (42 bp):
TTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGCGGCGTT
Found at i:85511436 original size:40 final size:40
Alignment explanation
Indices: 85511330--85511479 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
85511320 ATAAACATGA
* * *
85511330 GGCATTTTTCAAAAAGCGCAGCTAATGCTGGATCTATAGT
1 GGCATTTTTCAAAAAGCGCTGCTAATGCTCGATCTATAGC
* * *
85511370 GGCGTTTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC
1 GGC--ATTTTTCAAAAAGCGCTGCTAATGCTCGATCTATAGC
*
85511412 GGCATTTTTCAAAAAGCACTGCTAATGCTCGATCTATAGC
1 GGCATTTTTCAAAAAGCGCTGCTAATGCTCGATCTATAGC
* * *
85511452 GGCGTTTTTAAAAAAGCGCTACTAATGC
1 GGCATTTTTCAAAAAGCGCTGCTAATGC
85511480 CATTAAAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
40 60 0.63
42 35 0.37
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (40 bp):
GGCATTTTTCAAAAAGCGCTGCTAATGCTCGATCTATAGC
Found at i:85511684 original size:40 final size:40
Alignment explanation
Indices: 85511580--85511685 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
85511570 AAATGCCATG
* * * * *
85511580 AATGCTCCATCTATAGCGACATTTTTCATAAAGCATCGCT
1 AATGCTCGATCTATAGCGGCGTTTTTCAAAAACCATCGCT
* * *
85511620 GATGCTCGATCTATAGCGGTGTTTTTCAAAAACCGTCGCT
1 AATGCTCGATCTATAGCGGCGTTTTTCAAAAACCATCGCT
*
85511660 AATGCTCGATCTATAGTGGCGTTTTT
1 AATGCTCGATCTATAGCGGCGTTTTT
85511686 ATTTAAGCAC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
AATGCTCGATCTATAGCGGCGTTTTTCAAAAACCATCGCT
Found at i:85513915 original size:25 final size:25
Alignment explanation
Indices: 85513881--85513938 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
85513871 GAGATATGTG
* * *
85513881 ACAAAAGCAATATGCAAAATACGCC
1 ACAAAGGCAACATACAAAATACGCC
* *
85513906 ACAAAGGCAACATACAAAATATGCT
1 ACAAAGGCAACATACAAAATACGCC
85513931 ACAAAGGC
1 ACAAAGGC
85513939 CAAAAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.52, C:0.22, G:0.14, T:0.12
Consensus pattern (25 bp):
ACAAAGGCAACATACAAAATACGCC
Found at i:85515106 original size:18 final size:17
Alignment explanation
Indices: 85515083--85515118 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
85515073 ACATATTTTA
*
85515083 TATTAATTCATGTTAATT
1 TATTAATGCATG-TAATT
85515101 TATTAATGCATGTAATT
1 TATTAATGCATGTAATT
85515118 T
1 T
85515119 TCACTGTGTA
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:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (17 bp):
TATTAATGCATGTAATT
Found at i:85516464 original size:14 final size:13
Alignment explanation
Indices: 85516441--85516472 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
85516431 GGGATATCAA
85516441 AACAATAATTAAG
1 AACAATAATTAAG
85516454 AACACATAATTAAG
1 AACA-ATAATTAAG
85516468 AACAA
1 AACAA
85516473 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:85524498 original size:293 final size:293
Alignment explanation
Indices: 85523964--85524526 Score: 840
Period size: 293 Copynumber: 1.9 Consensus size: 293
85523954 CCAAAAATAC
* *
85523964 CATTGTGATTCAAGATGAAGAAGTGAAAGAGAGGTTTGATTCAATCTTCAAGAATCAACCTATGA
1 CATTGTGATTCAAGATGAAGAAGTGAAAGAGAGGTCTGAATCAATCTTCAAGAATCAACCTATGA
*
85524029 TGCCAGAAAAAGATTTCAACTTCGAAAGCACTAATAAATGGTTGTGCCTTTGCCAATTCGAAAGA
66 TGCCAGAAAAAGATTTCAACTTCGAAAGCAATAATAAATGGTTGTGCCTTTGCCAATTCGAAAGA
* * * *
85524094 CGATTGATGCCCTTAATTGGAATTATTTTTGCGATACACAATGATTACCCGATAAGGAGTTAGTT
131 CAATTGATGCCCTCAATTGGAATTATTTTTGCAATACACAATGATTACCCGATAAGAAGTTAGTT
** * * * *
85524159 TGAGAGTTCTATGCCAATTTTACTAAGCCAGATGCTACTAAAGTTCTTGTTGGCAAGAAGAAAGT
196 CAAGAGTTCTACGCCAATTTGACTAAGCCAGATGCTACTAAAGTTCTTGTTGGCAAAAAGAAAGC
85524224 ACCCCTAACTTCTAAGACCTCTTCCGAAGATAG
261 ACCCCTAACTTCTAAGACCTCTTCCGAAGATAG
*
85524257 CATTGTGATTCAAGATGAAGAAGTGAAAGAGAGGTCTGAATCAATCTTTAAGAATCAACCTATGA
1 CATTGTGATTCAAGATGAAGAAGTGAAAGAGAGGTCTGAATCAATCTTCAAGAATCAACCTATGA
* * * * * * *
85524322 TGCCGGAAAAAGGTTTCAACTTGGAAAGTAATGATAAGATGGTTGTGCC-TTGCCGATTTGAAAG
66 TGCCAGAAAAAGATTTCAACTTCGAAAGCAATAATAA-ATGGTTGTGCCTTTGCCAATTCGAAAG
** ** * *
85524386 ACAATTGATGCCCTCAATTGGAATTATTTTTGCAATGTAGGATTATTACCCGATGAGAAGTTAGT
130 ACAATTGATGCCCTCAATTGGAATTATTTTTGCAATACACAATGATTACCCGATAAGAAGTTAGT
* * *
85524451 TCAAGAGTTCTACGCCAATTTGACTAAGCCATATGCTACTGAAGTTCTTGTTGGCAAAAAGAAGG
195 TCAAGAGTTCTACGCCAATTTGACTAAGCCAGATGCTACTAAAGTTCTTGTTGGCAAAAAGAAAG
85524516 CACCCCTAACT
260 CACCCCTAACT
85524527 AATAAGTCCA
Statistics
Matches: 239, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
293 228 0.95
294 11 0.05
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (293 bp):
CATTGTGATTCAAGATGAAGAAGTGAAAGAGAGGTCTGAATCAATCTTCAAGAATCAACCTATGA
TGCCAGAAAAAGATTTCAACTTCGAAAGCAATAATAAATGGTTGTGCCTTTGCCAATTCGAAAGA
CAATTGATGCCCTCAATTGGAATTATTTTTGCAATACACAATGATTACCCGATAAGAAGTTAGTT
CAAGAGTTCTACGCCAATTTGACTAAGCCAGATGCTACTAAAGTTCTTGTTGGCAAAAAGAAAGC
ACCCCTAACTTCTAAGACCTCTTCCGAAGATAG
Found at i:85532400 original size:27 final size:26
Alignment explanation
Indices: 85532352--85532411 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
85532342 GCGAGGCTGC
*
85532352 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
85532379 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
85532405 CAGATAT
1 CAGATAT
85532412 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:85542467 original size:43 final size:43
Alignment explanation
Indices: 85542321--85542471 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
85542311 TGTTACCGAG
* **
85542321 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATCAAT
* * **
85542363 ATTGTGATTACGTGTAAGACCATGTCTGGGAAATTGACATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGACATCAAT
** * * * *
85542407 AAT-CAATTTCATATAAGACCCTGTCTGGGACAGTGACATCAAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATCAAT
*
85542450 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
85542472 ATTTGGTATA
Statistics
Matches: 84, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 3 0.04
43 78 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATCAAT
Found at i:85544641 original size:56 final size:56
Alignment explanation
Indices: 85544580--85544879 Score: 395
Period size: 56 Copynumber: 5.4 Consensus size: 56
85544570 AGACAAGGTT
* * * * * * *
85544580 TTACTCGTAAACATATATCGGAATCACCTATCGATACCAACGTATTAAATGTGGCC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
* *
85544636 TTACTCGCACATACATATCGGAATCTCATATCGATGCCAACGTATTAAACGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
** * *
85544692 TTACTCATACATACATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
* * *
85544748 TTACTCACACACACATATCGGAATCACATATCGATGCCAATGCATTAAACGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
* * *
85544804 TTAATCGCACACACATATCGGAATCACATATCGATGCCAACATATTAAATGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
* *
85544860 TTAGTCGTA-ATCACATATCG
1 TTACTCGCACA-CACATATCG
85544880 ATGCCAACGT
Statistics
Matches: 217, Mismatches: 26, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
55 1 0.00
56 216 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
Found at i:85544901 original size:43 final size:43
Alignment explanation
Indices: 85544825--85544920 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
85544815 CACATATCGG
** * *
85544825 AATCACATATCGATGCCAACATATTAAATGTGGTCTTA-GTCGT
1 AATCACATATCGATGCCAACATACCAAACGTGGTCTTACAT-GT
* * *
85544868 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACATGT
1 AATCACATATCGATGCCAACATACCAAACGTGGTCTTACATGT
85544911 AATCACATAT
1 AATCACATAT
85544921 AAGAAATCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
AATCACATATCGATGCCAACATACCAAACGTGGTCTTACATGT
Found at i:85548615 original size:42 final size:43
Alignment explanation
Indices: 85548556--85548668 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
85548546 TTTCGAACTT
* * * *
85548556 GTTGAGTGGTCCAAGTTCATGA-GATATGTG-GCATCCGGGCTC
1 GTTGAGTGGTCCGAGTTCATGATG-GATGCGAGCATCCGAGCTC
* *
85548598 GTTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCTGAGCTC
1 GTTGAGTGGTCCGAGTTCATGATGGATGCGAGCATCCGAGCTC
*
85548641 ATTGAGTGGTCCGAGTTCATTG-TGGATG
1 GTTGAGTGGTCCGAGTTCA-TGATGGATG
85548669 TGATGCCTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 24 0.40
43 35 0.58
44 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.31
Consensus pattern (43 bp):
GTTGAGTGGTCCGAGTTCATGATGGATGCGAGCATCCGAGCTC
Found at i:85553193 original size:43 final size:43
Alignment explanation
Indices: 85553145--85553294 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
85553135 GTTACCGAGA
85553145 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
85553188 TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
** * * * **
85553232 T-CAATTTCATGTAAGAGCC-TGTCTGGGACAGTGACA-TCAAT
1 TGTGATTACATGTAAGA-CCATGTCTGGGACATTGGCATTGTAT
*
85553273 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
85553295 ATTTGGTATA
Statistics
Matches: 83, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 74 0.89
44 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:85555413 original size:56 final size:56
Alignment explanation
Indices: 85555351--85555597 Score: 365
Period size: 56 Copynumber: 4.4 Consensus size: 56
85555341 TCCCAGACAG
* * * *
85555351 GGTCTTACTCGTAAACACATATCAAAATCACCTATCGATGCCAATGTATTAAACAT
1 GGTCTTACTCGTACACACATATCGAAATCACATATCGATGCCAATGTATTAAACGT
* *
85555407 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGTACACACATATCGAAATCACATATCGATGCCAATGTATTAAACGT
*
85555463 GGTCTTACTCGTACACACATATCGAAATCAGATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGTACACACATATCGAAATCACATATCGATGCCAATGTATTAAACGT
* * * *
85555519 GGTTTTACTCG--CACACACATCGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGTACACACATATCGAAATCACATATCGATGCCAATGTATTAAACGT
85555573 GGTCTTACTCGTA-ATCACATATCGA
1 GGTCTTACTCGTACA-CACATATCGA
85555598 TGCCAACGTC
Statistics
Matches: 172, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
54 49 0.28
55 1 0.01
56 122 0.71
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGTACACACATATCGAAATCACATATCGATGCCAATGTATTAAACGT
Found at i:85557358 original size:85 final size:85
Alignment explanation
Indices: 85557222--85557385 Score: 319
Period size: 85 Copynumber: 1.9 Consensus size: 85
85557212 CATGAGCATG
*
85557222 GGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGA
1 GGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCACTATGTAAGGA
85557287 TTAATAAAATAAAGAGCACA
66 TTAATAAAATAAAGAGCACA
85557307 GGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCACTATGTAAGGA
1 GGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCACTATGTAAGGA
85557372 TTAATAAAATAAAG
66 TTAATAAAATAAAG
85557386 GGCATGGGCA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (85 bp):
GGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCACTATGTAAGGA
TTAATAAAATAAAGAGCACA
Found at i:85558713 original size:47 final size:47
Alignment explanation
Indices: 85558659--85559253 Score: 849
Period size: 47 Copynumber: 12.6 Consensus size: 47
85558649 TATTTGAATA
* * *
85558659 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
85558706 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85558753 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85558800 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
85558849 AATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
85558896 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85558945 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85558992 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85559039 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
85559086 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85559133 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
85559180 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
85559227 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
85559254 TCCCGAAGGG
Statistics
Matches: 516, Mismatches: 26, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 423 0.82
49 91 0.18
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:85561747 original size:38 final size:38
Alignment explanation
Indices: 85561683--85561757 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
85561673 AATCCGAGTT
*
85561683 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
85561721 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
85561758 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:85561875 original size:40 final size:40
Alignment explanation
Indices: 85561811--85562171 Score: 535
Period size: 40 Copynumber: 9.1 Consensus size: 40
85561801 AGGTCTCGAC
85561811 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
85561850 GATGTATCTGGGCTAAGTTCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
85561890 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
85561930 GATGTATCCGGGTTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
85561970 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
85562010 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
85562050 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** ** *
85562090 GATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
85562130 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
85562170 GA
1 GA
85562172 CGTGTATTCG
Statistics
Matches: 291, Mismatches: 30, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 287 0.99
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:85564133 original size:47 final size:47
Alignment explanation
Indices: 85564062--85565215 Score: 1890
Period size: 47 Copynumber: 24.3 Consensus size: 47
85564052 CCCTTCGGGA
* * * * * *
85564062 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564109 CCTATCACATATATACACTTTCACATTCATCACATC-GCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564201 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564248 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564295 CTTATCACATATATAACAC-TTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564342 CTTATCACATATATACACTTTCACATTCATCACATCGG-TATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564388 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564435 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85564482 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCACTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564531 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564578 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564627 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564676 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564770 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85564817 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564866 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85564913 CTTATCACATATATATACACTTTCACGTTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85564962 CTTATCACATATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
85565011 CTTATCACATATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGC
85565061 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85565107 CTTATCACATATAT-CACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85565152 CTTATCACATATATATATACACTTTCACATTCATCACATCGCCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85565203 CTTATCACATATA
1 CTTATCACATATA
85565216 CTATCATGTA
Statistics
Matches: 1057, Mismatches: 27, Indels: 46
0.94 0.02 0.04
Matches are distributed among these distances:
45 76 0.07
46 83 0.08
47 524 0.50
48 10 0.01
49 278 0.26
50 64 0.06
51 22 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85564547 original size:96 final size:94
Alignment explanation
Indices: 85564062--85565215 Score: 1890
Period size: 96 Copynumber: 12.1 Consensus size: 94
85564052 CCCTTCGGGA
* * * * * * *
85564062 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
85564127 TTTCACATTCATCACATC-GCCATTA-GC
66 TTTCACATTCATCACATCGGCCATTAGGC
85564154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
85564219 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
85564248 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-ACA
*
85564313 C-TTCACATTCACCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
85564342 CTTATCACATATATACACTTTCACATTCATCACATCGG-TATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
85564406 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
85564435 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
85564500 ACTTTCACATTCACCACATCGGCCACTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
85564531 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
85564596 ACTTTCACATTCACCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
85564627 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
85564692 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
85564723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
85564788 TTTCACATTCACCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
85564817 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
85564882 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
85564913 CTTATCACATATATATACACTTTCACGTTCACCACATCGGCCATTAGGCCTTATCACATATATAA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--
85564978 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
85565011 CTTATCACATATATATAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCAC--ATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
85565076 CACTTTCACATTCATCACATCGG-CATTAGGC
63 CACTTTCACATTCATCACATCGGCCATTAGGC
85565107 CTTATCACATATAT-CACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT
*
85565170 ACACTTTCACATTCATCACATCGCCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
85565203 CTTATCACATATA
1 CTTATCACATATA
85565216 CTATCATGTA
Statistics
Matches: 1013, Mismatches: 30, Indels: 34
0.94 0.03 0.03
Matches are distributed among these distances:
91 16 0.02
92 103 0.10
93 92 0.09
94 238 0.23
95 33 0.03
96 367 0.36
97 24 0.02
98 95 0.09
99 45 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:85564813 original size:335 final size:334
Alignment explanation
Indices: 85564062--85565215 Score: 2024
Period size: 335 Copynumber: 3.5 Consensus size: 334
85564052 CCCTTCGGGA
* * * * * * *
85564062 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
85564127 TTTCACATTCATCACATC-GCCATTA-GCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
85564188 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
85564253 CAC--ATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAACAC-T
196 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAACACTT
85564315 TCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
261 TCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
85564380 -TATTAGGC
326 CTATTAGGC
85564388 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
85564453 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
66 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
*
85564518 TCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
85564583 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACT
196 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATA-ACACT
85564648 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
260 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
85564713 GCTATTAGGC
325 GCTATTAGGC
85564723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
85564788 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
66 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
85564853 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
85564918 CACATATATATACACTTTCACGTTCACCACATCGGCCATTAGGCCTTATCACATATATAAACACT
196 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATAT-AACACT
*
85564983 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAACACTTTCACATTCATCACA
260 TTCACATTCACCACATCGGCCATTAGGCCTTATCAC--ATATAT-ACACTTTCACATTCATCACA
*
85565048 TCGGCCATTAGGC
322 TCGGCTATTAGGC
85565061 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATAT-CAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
85565124 TTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TTTCACATTCACCACATCGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCACCA
*
85565188 CATCGCCCATTAGGCCTTATCACATATA
129 CATCGGCCATTAGGCCTTATCACATATA
85565216 CTATCATGTA
Statistics
Matches: 796, Mismatches: 17, Indels: 19
0.96 0.02 0.02
Matches are distributed among these distances:
326 75 0.09
327 7 0.01
328 10 0.01
330 92 0.12
332 54 0.07
333 4 0.01
334 66 0.08
335 315 0.40
336 23 0.03
337 80 0.10
338 70 0.09
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (334 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAACACTT
TCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CTATTAGGC
Found at i:85581275 original size:39 final size:40
Alignment explanation
Indices: 85581230--85581397 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
85581220 CGGGGTTTAG
* * *
85581230 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
85581269 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
85581309 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
85581349 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
85581390 CCGGATAT
1 CCGGATAT
85581398 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:85581380 original size:41 final size:40
Alignment explanation
Indices: 85581253--85581397 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
85581243 CTCGCACAAG
* * * * *
85581253 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
85581293 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
85581333 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
85581374 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
85581398 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:85590611 original size:40 final size:40
Alignment explanation
Indices: 85590567--85590755 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
85590557 GCTACTTGCT
*
85590567 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
85590607 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
85590647 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
85590687 CAAATGCCTTCGGGACTTAGCCCGAATT-TAGTCTCTAGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCA
85590727 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
85590756 CATCCGAATA
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 136 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:85604453 original size:96 final size:96
Alignment explanation
Indices: 85604287--85604473 Score: 302
Period size: 96 Copynumber: 1.9 Consensus size: 96
85604277 TTCTTTTTAC
* * *
85604287 TCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCAAGCCAAGCTTCTTGGGCTCCTTGTTT
1 TCCTCTTTGCCCTCTTGGCTTCGGCTCTTCCCTTGCTCAAACCAAGCTTCTTAGGCTCCTTGTTT
* *
85604352 CCTCTATCATTCCCTTTGATGACAGATGTGT
66 ACTCTATCATTCCCTTCGATGACAGATGTGT
* *
85604383 TCCTCTTTTCCCTCTTGGCTTCTGCTCTTCCCTTGCTCAAACCAAGCTTCTTAGGCTCCTTGTTT
1 TCCTCTTTGCCCTCTTGGCTTCGGCTCTTCCCTTGCTCAAACCAAGCTTCTTAGGCTCCTTGTTT
*
85604448 ACTCTATCATTCCCTTCGATTACAGA
66 ACTCTATCATTCCCTTCGATGACAGA
85604474 CTTCCTCGGA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.12, C:0.33, G:0.14, T:0.41
Consensus pattern (96 bp):
TCCTCTTTGCCCTCTTGGCTTCGGCTCTTCCCTTGCTCAAACCAAGCTTCTTAGGCTCCTTGTTT
ACTCTATCATTCCCTTCGATGACAGATGTGT
Found at i:85605270 original size:16 final size:17
Alignment explanation
Indices: 85605239--85605277 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
85605229 TGTGTAATGC
85605239 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
**
85605255 CCCAAAAATCTTGAAAT
1 CCCAAAAATCCCGAAAT
85605272 CCCAAA
1 CCCAAA
85605278 CTTTCTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:85606371 original size:16 final size:15
Alignment explanation
Indices: 85606347--85606377 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
85606337 ATGTATAGGA
85606347 AAAATCCGAAAAGCC
1 AAAATCCGAAAAGCC
85606362 AAAATGCCGAAAAGCC
1 AAAAT-CCGAAAAGCC
85606378 GAAACGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.26, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAATCCGAAAAGCC
Found at i:85606668 original size:29 final size:29
Alignment explanation
Indices: 85606636--85606698 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
85606626 CCTAATGGGA
*
85606636 CATATAAATGTGATTTGGGAATAATAGGC
1 CATATAAAGGTGATTTGGGAATAATAGGC
* ** *
85606665 CATATACAGGTGATTTGGGCCTAATGGGC
1 CATATAAAGGTGATTTGGGAATAATAGGC
85606694 CATAT
1 CATAT
85606699 GAATATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (29 bp):
CATATAAAGGTGATTTGGGAATAATAGGC
Found at i:85610436 original size:20 final size:20
Alignment explanation
Indices: 85610408--85610451 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
85610398 TACCAACTTG
* *
85610408 CAACTTACTATAATCTTTGA
1 CAACATACTATAATCTTTCA
*
85610428 CAACATACTATAGTCTTTCA
1 CAACATACTATAATCTTTCA
85610448 CAAC
1 CAAC
85610452 TTAAACATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (20 bp):
CAACATACTATAATCTTTCA
Found at i:85610649 original size:42 final size:42
Alignment explanation
Indices: 85610530--85610658 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
85610520 CACATAGCAC
* * * *
85610530 CATACCAATGCCATATCCCAAATATGGTCTTACATGAGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
* * * *
85610572 CATTTCAATGCCAATAGCCTAGCTATGGTCTTACACGAAATCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAAATCT
*
85610615 CATATCGATGCCATATCCCAGATATGGTCTTACAC-ATAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGA-AATCT
85610657 CA
1 CA
85610659 ACTCACCCTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 37 0.51
43 34 0.47
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
Found at i:85615302 original size:27 final size:27
Alignment explanation
Indices: 85615266--85615322 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
85615256 CCTAGACCCT
*
85615266 CTACATGGTAAAATGACTGAAATTCCC
1 CTACATGGTAAAATGACTGAAATGCCC
*
85615293 CTACATGGTAAAATGACTGATATGCCC
1 CTACATGGTAAAATGACTGAAATGCCC
85615320 CTA
1 CTA
85615323 TGAGATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (27 bp):
CTACATGGTAAAATGACTGAAATGCCC
Found at i:85621157 original size:27 final size:27
Alignment explanation
Indices: 85621125--85621426 Score: 315
Period size: 27 Copynumber: 11.2 Consensus size: 27
85621115 AAAGTACTCC
85621125 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** ** * *
85621152 TAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
85621179 CGATTTACAAAATTACCATTTTACCC-
1 CGATTTACAGAATTACTGTTTTACCCT
* *
85621205 CCAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
85621233 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
85621260 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* *
85621287 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** *
85621314 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* * *
85621341 TGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
85621368 C-AGTTTACAAAATTA-TCGTTTTACCCT
1 CGA-TTTACAGAATTACT-GTTTTACCCT
** *
85621395 CGATTTTTAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
85621422 TGATT
1 CGATT
85621427 GTGAAATTAC
Statistics
Matches: 231, Mismatches: 36, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
26 5 0.02
27 222 0.96
28 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:85621183 original size:54 final size:54
Alignment explanation
Indices: 85621125--85621421 Score: 373
Period size: 54 Copynumber: 5.5 Consensus size: 54
85621115 AAAGTACTCC
* * * ** *
85621125 CGATTTACAGAATTACTGTTTTACCCTTAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
* * * * *
85621179 CGATTTACAAAATTACCATTTTACCCCCAGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
*
85621233 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
* **
85621287 CGATTTATAGAATTACCGTTTTACCCTC-GATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAAAATTACTGTTTTACCCT
* * * *
85621341 TGATTTATAGAATTACTGGTTTACCCTCAGTTTACAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACT-GTTTTACCCT
**
85621395 CGATTTTTAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
85621422 TGATTGTGAA
Statistics
Matches: 212, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
53 2 0.01
54 209 0.99
55 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
Found at i:85621216 original size:81 final size:81
Alignment explanation
Indices: 85621128--85621426 Score: 370
Period size: 81 Copynumber: 3.7 Consensus size: 81
85621118 GTACTCCCGA
** *
85621128 TTTACAGAATTACTGTTTTACCCTTAATTTTTAAAATTACCGTTTTACCCTCGATTTACAAAATT
1 TTTACAGAATTACTGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATT
** *
85621193 ACCATTTTACCCCCAG
66 ACTGTTTTACCCTCAG
* ** *
85621209 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAAT
1 TTTACAGAATTACTGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGA-TTTACAGAAT
85621273 TACTGTTTTACCCTC-G
65 TACTGTTTTACCCTCAG
* * * * * *
85621289 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTATAGAAT
1 -TTTACAGAATTACTGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAAT
*
85621354 TACTGGTTTACCCTCAG
65 TACTGTTTTACCCTCAG
* * *
85621371 TTTACAAAATTA-TCGTTTTACCCTCGATTTTTAGAATTACCGTTTTACCCTTGATT
1 TTTACAGAATTACT-GTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATT
85621427 GTGAAATTAC
Statistics
Matches: 187, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 183 0.98
82 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (81 bp):
TTTACAGAATTACTGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATT
ACTGTTTTACCCTCAG
Found at i:85621461 original size:27 final size:27
Alignment explanation
Indices: 85621431--85621625 Score: 187
Period size: 27 Copynumber: 7.2 Consensus size: 27
85621421 TTGATTGTGA
*
85621431 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * * * *
85621458 AATTTCCGAAATACCCCTATGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
85621485 AATTACTAAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** * *
85621512 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
85621539 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* *
85621566 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
85621593 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCTTGTAGGGTAG
85621620 AATTAC
1 AATTAC
85621626 CATTTTGCCC
Statistics
Matches: 138, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:85621499 original size:54 final size:54
Alignment explanation
Indices: 85621430--85621626 Score: 227
Period size: 54 Copynumber: 3.6 Consensus size: 54
85621420 CTTGATTGTG
* * *
85621430 AAATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATGGGGTA
1 AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTA
* * * *
85621484 AAATTACTAAAATACCCTTATAGGATAGAATTACCAAAATACCCCTATAGGGTA
1 AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTA
* * * *
85621538 GAATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTA
1 AAATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTA
* * * *
85621592 GAATTA-TCGAGATACCCTTGTGGGGTAAAATTACC
1 AAATTACT-GAAATACCCTTGTAGGGTAGAATTACC
85621627 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTA
Found at i:85621618 original size:81 final size:82
Alignment explanation
Indices: 85621439--85621624 Score: 216
Period size: 81 Copynumber: 2.3 Consensus size: 82
85621429 GAAATTACTG
* *
85621439 AAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATGGGGTAAAATTACTAAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCTT
85621503 ATAGGATAGAATTACCA
66 ATAGGATAGAATTACCA
* * * *
85621520 AAATACCCCTATAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCT
1 AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTA-AAATTACCAAAATACCCT
* * * *
85621583 TGTAGGGTAGAATTATCG
65 TATAGGATAGAATTACCA
* * * *
85621601 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
85621625 CCATTTTGCC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 84 0.95
82 4 0.05
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (82 bp):
AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCTT
ATAGGATAGAATTACCA
Found at i:85621863 original size:27 final size:26
Alignment explanation
Indices: 85621825--85621907 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
85621815 CGGAGGAAGC
*
85621825 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
85621852 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
85621878 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
85621905 GTT
1 GTT
85621908 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:85622443 original size:6 final size:6
Alignment explanation
Indices: 85622434--85622510 Score: 104
Period size: 6 Copynumber: 12.8 Consensus size: 6
85622424 CTGTCACGTA
* *
85622434 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
85622482 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
85622511 CATTTTGGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.06
6 56 0.89
7 3 0.05
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:85622531 original size:30 final size:30
Alignment explanation
Indices: 85622409--85622510 Score: 159
Period size: 30 Copynumber: 3.4 Consensus size: 30
85622399 TTGCATTCAC
* *
85622409 ATTCTGGTTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
85622440 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
85622470 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
85622500 ATTCTGATTCT
1 ATTCTGATTCT
85622511 CATTTTGGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 46 0.70
31 20 0.30
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:85628074 original size:46 final size:46
Alignment explanation
Indices: 85628024--85628144 Score: 170
Period size: 46 Copynumber: 2.6 Consensus size: 46
85628014 TGGTTGAGCA
* * *
85628024 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATCCAAATG
* * *
85628070 TCCGAACTCGTTGAGTTGAGTCTGAGTTTACTCATAGATCCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATCCAAATG
* *
85628116 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
85628145 GCTTATGGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATCCAAATG
Found at i:85630260 original size:12 final size:12
Alignment explanation
Indices: 85630243--85630267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85630233 AATAGTAAAA
85630243 TATCATTCAACT
1 TATCATTCAACT
85630255 TATCATTCAACT
1 TATCATTCAACT
85630267 T
1 T
85630268 CCAAAGCCAT
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:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TATCATTCAACT
Found at i:85640402 original size:29 final size:29
Alignment explanation
Indices: 85640339--85640453 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 29
85640329 TACATACATG
* * * *
85640339 CATATAGCCCACTAGGCCCAA-CCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
85640367 CAAATGGCCCATTTGGCCTAATTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * **
85640396 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
85640425 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
85640454 ATACTCATGC
Statistics
Matches: 67, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
28 16 0.24
29 51 0.76
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:85640451 original size:58 final size:56
Alignment explanation
Indices: 85640345--85640453 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 56
85640335 CATGCATATA
* * *
85640345 GCCCACTAGGCCCAACCTTATTCAAATGGCCCATTTGGCCTAATTCATATTCTTATG
1 GCCCACTAGGCCCAA-CTTATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
*
85640402 GCCCACTAGGCCCAA-TTCACCTTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAACTT-A--TTCAAATGGCCCATTAGGCCCAAATCATATT
85640454 ATACTCATGC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
55 2 0.04
56 1 0.02
57 15 0.33
58 27 0.60
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (56 bp):
GCCCACTAGGCCCAACTTATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
Found at i:85640559 original size:19 final size:19
Alignment explanation
Indices: 85640525--85640572 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
85640515 ATGGGCCCAA
*
85640525 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCTGGCCCATT
85640543 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCTGGCCCATT
* *
85640562 TGGCCAATTCT
1 TAGCCCATTCT
85640573 AAACCCAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.19, C:0.35, G:0.17, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCTGGCCCATT
Found at i:85640705 original size:15 final size:16
Alignment explanation
Indices: 85640675--85640711 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
85640665 CAACTTTTGT
85640675 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
85640691 CTTTTCGG-TTTTCGA
1 CTTTTCGGCATTTCGA
85640706 CTTTTC
1 CTTTTC
85640712 AACTTTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:85641981 original size:16 final size:16
Alignment explanation
Indices: 85641956--85641988 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
85641946 AAAAATTCAA
*
85641956 GATTTTGGGATTTTTG
1 GATTTCGGGATTTTTG
85641972 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
85641988 G
1 G
85641989 GGCGTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.52
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:85646769 original size:33 final size:33
Alignment explanation
Indices: 85646732--85646798 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
85646722 AATGTTGATC
85646732 ATGCAAAAGAAATGTGAAAGTAATGAATTCATG
1 ATGCAAAAGAAATGTGAAAGTAATGAATTCATG
85646765 ATGCAAAAGAAATGTGAAAGTAATGAATTCATG
1 ATGCAAAAGAAATGTGAAAGTAATGAATTCATG
85646798 A
1 A
85646799 CTATGTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (33 bp):
ATGCAAAAGAAATGTGAAAGTAATGAATTCATG
Found at i:85651713 original size:27 final size:27
Alignment explanation
Indices: 85651683--85651772 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
85651673 TGGGTTCGCT
*
85651683 AGTTCGTTTGGCGAGCTAGGGTTTACC
1 AGTTGGTTTGGCGAGCTAGGGTTTACC
* * *
85651710 AGTTGGTTTGGCAAGCTGGGGTTTGCC
1 AGTTGGTTTGGCGAGCTAGGGTTTACC
* * **
85651737 AGTTGGTTTGGTGAGCTAAGGTTCGCC
1 AGTTGGTTTGGCGAGCTAGGGTTTACC
85651764 AGTTGGTTT
1 AGTTGGTTT
85651773 ATCAAACTAG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.13, C:0.14, G:0.37, T:0.36
Consensus pattern (27 bp):
AGTTGGTTTGGCGAGCTAGGGTTTACC
Found at i:85651786 original size:27 final size:27
Alignment explanation
Indices: 85651674--85651787 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 27
85651664 ATTACAAGTT
* * * *
85651674 GGGTTCGCTAGTTCGTTTGGCGAGCTA
1 GGGTTCGCCAGTTGGTTTGTCAAGCTA
** * *
85651701 GGGTTTACCAGTTGGTTTGGCAAGCTG
1 GGGTTCGCCAGTTGGTTTGTCAAGCTA
* *
85651728 GGGTTTGCCAGTTGGTTTGGT-GAGCTA
1 GGGTTCGCCAGTTGGTTT-GTCAAGCTA
* * *
85651755 AGGTTCGCCAGTTGGTTTATCAAACTA
1 GGGTTCGCCAGTTGGTTTGTCAAGCTA
85651782 GGGTTC
1 GGGTTC
85651788 TGTAAGATCC
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 67 0.97
28 1 0.01
ACGTcount: A:0.15, C:0.16, G:0.35, T:0.34
Consensus pattern (27 bp):
GGGTTCGCCAGTTGGTTTGTCAAGCTA
Found at i:85651786 original size:54 final size:54
Alignment explanation
Indices: 85651674--85651787 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
85651664 ATTACAAGTT
* * * * * *
85651674 GGGTTCGCTAGTTCGTTTGGCGAGCTAGGGTTTACCAGTTGGTTTGGCAAGCTG
1 GGGTTCGCCAGTTCGTTTGGCGAGCTAAGGTTCACCAGTTGGTTTAGCAAACTA
* * * * *
85651728 GGGTTTGCCAGTTGGTTTGGTGAGCTAAGGTTCGCCAGTTGGTTTATCAAACTA
1 GGGTTCGCCAGTTCGTTTGGCGAGCTAAGGTTCACCAGTTGGTTTAGCAAACTA
85651782 GGGTTC
1 GGGTTC
85651788 TGTAAGATCC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.15, C:0.16, G:0.35, T:0.34
Consensus pattern (54 bp):
GGGTTCGCCAGTTCGTTTGGCGAGCTAAGGTTCACCAGTTGGTTTAGCAAACTA
Found at i:85664640 original size:18 final size:18
Alignment explanation
Indices: 85664617--85664651 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
85664607 ACATGGGCTC
85664617 AAGGCACGAGCGTGTCCA
1 AAGGCACGAGCGTGTCCA
*
85664635 AAGGCACGGGCGTGTCC
1 AAGGCACGAGCGTGTCC
85664652 TAAGCCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.37, T:0.11
Consensus pattern (18 bp):
AAGGCACGAGCGTGTCCA
Found at i:85667468 original size:14 final size:14
Alignment explanation
Indices: 85667436--85667474 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
85667426 TCTAAGACTT
*
85667436 TGTTTTTTAGGTTA
1 TGTTTTTTATGTTA
85667450 T-TTTTTTATGTTA
1 TGTTTTTTATGTTA
*
85667463 TGTTTTATATGT
1 TGTTTTTTATGT
85667475 ACTCCTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (14 bp):
TGTTTTTTATGTTA
Found at i:85672404 original size:22 final size:20
Alignment explanation
Indices: 85672347--85672416 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
85672337 AAAATAAGAA
85672347 GTGCCTCTATTTGCACTTCG
1 GTGCCTCTATTTGCACTTCG
* *
85672367 ATGCCTCTGTTTGCACTTCG
1 GTGCCTCTATTTGCACTTCG
*
85672387 GTGCCTCTATATTTGCACTACG
1 GTGCCTC--TATTTGCACTTCG
85672409 GTGCCTCT
1 GTGCCTCT
85672417 GTTAGTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 25 0.58
22 18 0.42
ACGTcount: A:0.11, C:0.30, G:0.20, T:0.39
Consensus pattern (20 bp):
GTGCCTCTATTTGCACTTCG
Found at i:85674433 original size:9 final size:9
Alignment explanation
Indices: 85674419--85674444 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
85674409 ACTAAACCGA
85674419 GAACTTTCG
1 GAACTTTCG
85674428 GAACTTTCG
1 GAACTTTCG
85674437 GAACTTTC
1 GAACTTTC
85674445 ATGTCACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (9 bp):
GAACTTTCG
Found at i:85677089 original size:34 final size:35
Alignment explanation
Indices: 85676981--85677154 Score: 269
Period size: 35 Copynumber: 5.0 Consensus size: 35
85676971 TATATGAACC
85676981 TTGTATAATCGGCCATATGTGATGATATATTGAAT
1 TTGTATAATCGGCCATATGTGATGATATATTGAAT
*
85677016 TTGTATAATCGACCATATGTGATGATATATTGAAT
1 TTGTATAATCGGCCATATGTGATGATATATTGAAT
* * *
85677051 TTGTATATTCGGCTATATGTGATGGTATA-TGAAT
1 TTGTATAATCGGCCATATGTGATGATATATTGAAT
* *
85677085 TTGTATATTCGGCTATATGTGATGATATATTGAATT
1 TTGTATAATCGGCCATATGTGATGATATATTGAA-T
*
85677121 TTGTATAATCAGCCATATGTGATGATATATTGAA
1 TTGTATAATCGGCCATATGTGATGATATATTGAA
85677155 CATTTAATAT
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
34 33 0.26
35 63 0.49
36 32 0.25
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (35 bp):
TTGTATAATCGGCCATATGTGATGATATATTGAAT
Found at i:85691031 original size:6 final size:6
Alignment explanation
Indices: 85691020--85691099 Score: 85
Period size: 6 Copynumber: 13.5 Consensus size: 6
85691010 TTGTACCTCC
* *
85691020 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTAT TTTCCCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT-TCT
**
85691069 CTTTTC- TTCACT TTTTC- TTTTC- TTTTCT TTT
1 -TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
85691100 CTTAATTTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
5 13 0.21
6 44 0.71
7 2 0.03
8 3 0.05
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:85691764 original size:228 final size:228
Alignment explanation
Indices: 85691305--85692113 Score: 1046
Period size: 228 Copynumber: 3.5 Consensus size: 228
85691295 GTTTTCTCTT
* * **
85691305 AAGCTTGTTTGGCTTCCTAGAAAATCTGAGTTTTCTTCCTTCCCTCTTTTTTTTTTCTTTTTTTA
1 AAGCTTGTTTGGCTTCCTAGAAAATCTGGGTTTTCTTCCTTCCCTC---TTTTTTTCTTTTCTCG
* * * * * *
85691370 ATCTTATTTTTTTTCTCGCCAGCCAAACAGGCTTTCACTAGTTCTCTTTTTCTTTTTGTTATGCA
63 TTC-T-TTTTTTTCCTTGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCA
* ** *
85691435 TCATCATATTTTTTAGTTCTTTAGGAAAGAAAAGAAACCTTTTTCATCAACTAAAAACTCAAGAG
126 TCATCATATTTTTTAGTTCTTTAGAAAAGAAAAG-AACCTCCTTCATCAACTGAAAACTCAAGAG
* *
85691500 AAACCATGAATGAGATGGAAAAGAACATGTTCTTTTAGG
190 AAACCATGAATGAGATGGAAAAGAACAAGCTCTTTTAGG
* *
85691539 AAGCTTGTTTGGCTTCCTAGTAAATCTGGGTTTTATTCCTTCCCTCGTTTTTTTCTTTTCTCGTT
1 AAGCTTGTTTGGCTTCCTAGAAAATCTGGGTTTTCTTCCTTCCCTC-TTTTTTTCTTTTCTCGTT
*
85691604 CTTTTTTTTCCTTGCTAGCCAAACAGGCTTTCACCAATCCTCTTTTTCTTTTTGTTATGCATCAT
65 CTTTTTTTTCCTTGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCAT
* *
85691669 C-TATTTTTTAGTTCTTTAGAAAAGAAAAGAACCTCCTTCATCAACTGAAAACTCAAAAGAAGCC
130 CATATTTTTTAGTTCTTTAGAAAAGAAAAGAACCTCCTTCATCAACTGAAAACTCAAGAGAAACC
85691733 ATGAATGAGATGGAAAAGAACAAGCTCTTTTAGG
195 ATGAATGAGATGGAAAAGAACAAGCTCTTTTAGG
* * * * *
85691767 CAGTTTGTTTGGCTTCCTAGAAAATCTGGATTTTCTTTCTTCCCTCTTTTTTTCTTTTCTTGTTC
1 AAGCTTGTTTGGCTTCCTAGAAAATCTGGGTTTTCTTCCTTCCCTCTTTTTTTCTTTTCTCGTTC
* * * *
85691832 -TTTTTTTCCTTACTAGCCAAATAAGCTTTCACCAGTCCTCTTTTTCTTTTTGTTTTGCATCATC
66 TTTTTTTTCCTTGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCATC
* * * *
85691896 GTACTTTTTAGTTCTTT-GAAAAAGAAAAAAAACC-CTCTTCAAT-AACTGAAAAATCAAGAGAA
131 ATATTTTTTAGTTCTTTAG-AAAAG-AAAAGAACCTC-CTTC-ATCAACTGAAAACTCAAGAGAA
** * *
85691958 ATTATGAATGAGATGGAAAAGAACAAGCCCTTCTAGG
192 ACCATGAATGAGATGGAAAAGAACAAGCTCTTTTAGG
* * *
85691995 AAGCTTGTTTGGCTTCTTAGAAAATTTGGGTTTTCTTCC-T---TCTTTTTTTCTTTTCTC-CT-
1 AAGCTTGTTTGGCTTCCTAGAAAATCTGGGTTTTCTTCCTTCCCTCTTTTTTTCTTTTCTCGTTC
* * *
85692054 TTTTTTTTCCTTCCTAGCCAAACAGGCTTTCACTAGTCCTCTTTTTATTTTTGTTATGCA
66 TTTTTTTTCCTTGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCA
85692114 ATTAATAATG
Statistics
Matches: 512, Mismatches: 57, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
223 54 0.11
224 16 0.03
226 60 0.12
227 40 0.08
228 196 0.38
229 29 0.06
230 58 0.11
231 1 0.00
232 15 0.03
234 43 0.08
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.43
Consensus pattern (228 bp):
AAGCTTGTTTGGCTTCCTAGAAAATCTGGGTTTTCTTCCTTCCCTCTTTTTTTCTTTTCTCGTTC
TTTTTTTTCCTTGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCATC
ATATTTTTTAGTTCTTTAGAAAAGAAAAGAACCTCCTTCATCAACTGAAAACTCAAGAGAAACCA
TGAATGAGATGGAAAAGAACAAGCTCTTTTAGG
Found at i:85692045 original size:15 final size:15
Alignment explanation
Indices: 85692025--85692066 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
85692015 AAAATTTGGG
85692025 TTTTCTTCCTTCTTT
1 TTTTCTTCCTTCTTT
* *
85692040 TTTTCTTTTCTCCTTT
1 TTTTC-TTCCTTCTTT
85692056 TTTT-TTCCTTC
1 TTTTCTTCCTTC
85692067 CTAGCCAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 5 0.23
15 5 0.23
16 12 0.55
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTTCCTTCTTT
Found at i:85703419 original size:23 final size:23
Alignment explanation
Indices: 85703393--85703438 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
85703383 TAAAAATTAA
*
85703393 TATAAATTTAACGCAAATATACC
1 TATAAATTTAACACAAATATACC
85703416 TATAAATTTAACACAAATATACC
1 TATAAATTTAACACAAATATACC
85703439 AAAACATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.30
Consensus pattern (23 bp):
TATAAATTTAACACAAATATACC
Found at i:85704086 original size:38 final size:38
Alignment explanation
Indices: 85704035--85704121 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
85704025 ATAAATAACT
*
85704035 TTGGCCACCTACTCCACCACCCTTTTTGGCCACCCACA
1 TTGGCCACCTACTCCACCACCCTTGTTGGCCACCCACA
*
85704073 TTGGCCACCTACTCCACCACCCTTGTTGGCCACCCACC
1 TTGGCCACCTACTCCACCACCCTTGTTGGCCACCCACA
*
85704111 TAGGCCACCTA
1 TTGGCCACCTA
85704122 AACCACCCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.18, C:0.47, G:0.13, T:0.22
Consensus pattern (38 bp):
TTGGCCACCTACTCCACCACCCTTGTTGGCCACCCACA
Found at i:85704593 original size:3 final size:3
Alignment explanation
Indices: 85704579--85704661 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
85704569 GAGCTTTGTT
* *
85704579 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
85704622 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
85704662 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:85704648 original size:12 final size:12
Alignment explanation
Indices: 85704582--85704661 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
85704572 CTTTGTTTTA
*
85704582 TTATTTTATTAT
1 TTATATTATTAT
* *
85704594 TTTTACTATTAT
1 TTATATTATTAT
85704606 TTATATTATTA-
1 TTATATTATTAT
* *
85704617 TTAT-TTCTCAT
1 TTATATTATTAT
85704628 GTATATATTATTAT
1 -T-TATATTATTAT
85704642 TTATATTATTA-
1 TTATATTATTAT
85704653 TTATATTAT
1 TTATATTAT
85704662 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.24
12 29 0.53
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:85707489 original size:19 final size:19
Alignment explanation
Indices: 85707467--85707513 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
85707457 CTTCCTTTCT
85707467 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
85707486 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
85707505 TTTGCATTA
1 TTTGCATTA
85707514 AACTTTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Done.