Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 211 of 438
Found at i:65435116 original size:28 final size:28
Alignment explanation
Indices: 65435085--65435150 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
65435075 CTCGTAAACT
65435085 AAGTGCCATACTCAATATCTCGCACACC
1 AAGTGCCATACTCAATATCTCGCACACC
* * * * * *
65435113 AAGTGCCATTCTTAATATTTTGTACACT
1 AAGTGCCATACTCAATATCTCGCACACC
65435141 AAGTGCCATA
1 AAGTGCCATA
65435151 TACATATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (28 bp):
AAGTGCCATACTCAATATCTCGCACACC
Found at i:65442593 original size:40 final size:40
Alignment explanation
Indices: 65442538--65442747 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65442528 AACATTGGAA
65442538 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65442578 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65442618 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65442658 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65442697 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65442738 CTATATCCGG
1 ATATATCCGG
65442748 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65450730 original size:40 final size:40
Alignment explanation
Indices: 65450675--65450884 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65450665 AACATTGGAA
65450675 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65450715 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65450755 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65450795 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65450834 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65450875 CTATATCCGG
1 ATATATCCGG
65450885 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65452933 original size:26 final size:26
Alignment explanation
Indices: 65452904--65452955 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
65452894 GCTGTAAGTA
65452904 AGATACATATTCGGCTAGGCTTGGGT
1 AGATACATATTCGGCTAGGCTTGGGT
65452930 AGATACATATTCGGCTAGGCTTGGGT
1 AGATACATATTCGGCTAGGCTTGGGT
65452956 TGGAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (26 bp):
AGATACATATTCGGCTAGGCTTGGGT
Found at i:65453735 original size:48 final size:48
Alignment explanation
Indices: 65453629--65453760 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 48
65453619 GGTTATGTGT
* * **
65453629 GAGCCAGTGTAAGACCATGTTTTGGACATGGCATCGGCATTGTTATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATAA
* * **
65453677 GATCTC-GTGTAAGACCATGCCTGGGACATGGCATCGGC-TTCAATATGC
1 GAGC-CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-AATATAA
* *
65453725 GAGCCAGTGTAAGACCATGTCTGAGACATGACATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
65453761 ACACTGATGT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
47 3 0.04
48 65 0.94
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATAA
Found at i:65455469 original size:39 final size:39
Alignment explanation
Indices: 65455422--65455604 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
65455412 AATGTTCGAG
65455422 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
65455461 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCCAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65455500 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
65455539 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65455579 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
65455605 GTTTGAACGA
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:65458647 original size:46 final size:45
Alignment explanation
Indices: 65458487--65458755 Score: 160
Period size: 46 Copynumber: 5.7 Consensus size: 45
65458477 GGGAAAGTAC
* * *
65458487 CGATGCCATGTCCCAGACACGGTCTTACACTAGCTCTCACCTATTCG-TGT
1 CGATG-CATGTCCCAGACA-TGTCTTACACTAGCT-T-A-CTCTT-GAGGT
**
65458537 CGATGCCATGTCCCAGACATGCTCTTACACT-GACACAACTCTT-A-GT
1 CGATG-CATGTCCCAGACATG-TCTTACACTAG-C-TTACTCTTGAGGT
*
65458583 CGGTGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTTGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTAC-TCTTGAGGT
* * *
65458629 CGATGCATGTCCTAGACATGTCTTACACTAGC--ACTCGTCTCA-AT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACTC-T-TGAGGT
* * * ** *
65458673 GCCAGTGCCATGTCCTAGACATGGTCTTACACTGGCTCTTA-TAATGTGG-
1 -CGA-TG-CATGTCCCAGACAT-GTCTTACACTAG--CTTACTCTTGAGGT
65458722 CTGATGCATGTCCCAGACATGTCTTACACTAGCT
1 C-GATGCATGTCCCAGACATGTCTTACACTAGCT
65458756 CACATAAATG
Statistics
Matches: 178, Mismatches: 21, Indels: 46
0.73 0.09 0.19
Matches are distributed among these distances:
43 4 0.02
44 20 0.11
45 21 0.12
46 51 0.29
47 27 0.15
48 18 0.10
49 5 0.03
50 30 0.17
51 1 0.01
52 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACTCTTGAGGT
Found at i:65458700 original size:94 final size:90
Alignment explanation
Indices: 65458490--65458754 Score: 245
Period size: 94 Copynumber: 2.8 Consensus size: 90
65458480 AAAGTACCGA
* *
65458490 TGCCATGTCCCAGACACGGTCTTACACTAGCTCTCACCTATTCGTGTCGATGCCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTAGCT-T-A-CTATT-GGGTCGATG-CATGTCCCAGAC
* * *
65458555 ATGCTCTTACACT-GACACAACTCTTAGTCGG
61 ATG-TCTTACACTAG-CACAACTCTAAGCCAG
* *
65458586 TG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTTGAGGTCGATGCATGTCCTAGACATG
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTAC-TATTG-GGTCGATGCATGTCCCAGACATG
*
65458649 TCTTACACTAGCAC-TCGTCTCAATGCCAG
64 TCTTACACTAGCACAAC-TCT-AA-GCCAG
* * *
65458678 TGCCATGTCCTAGACATGGTCTTACACTGGCTCTTA-TAATGTGG-CTGATGCATGTCCCAGACA
1 TGCCATGTCCCAGACATGGTCTTACACTAG--CTTACTATTG-GGTC-GATGCATGTCCCAGACA
65458741 TGTCTTACACTAGC
62 TGTCTTACACTAGC
65458755 TCACATAAAT
Statistics
Matches: 144, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
89 1 0.01
90 15 0.10
91 18 0.12
92 16 0.11
93 15 0.10
94 60 0.42
95 13 0.09
96 6 0.04
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (90 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTTACTATTGGGTCGATGCATGTCCCAGACATGTC
TTACACTAGCACAACTCTAAGCCAG
Found at i:65467798 original size:40 final size:39
Alignment explanation
Indices: 65467753--65467960 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
65467743 CGGAATACAA
*
65467753 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
65467793 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
65467833 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
65467873 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
65467913 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
65467953 CCGGATAT
1 CCGGATAT
65467961 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:65467893 original size:80 final size:81
Alignment explanation
Indices: 65467753--65467958 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
65467743 CGGAATACAA
* * *
65467753 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
65467817 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* *
65467833 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
65467896 GGCCTTCGGGTCTTAAC
65 GGCCTTCGGGTATTAAC
** * ** * *
65467913 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
65467959 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:65472043 original size:24 final size:24
Alignment explanation
Indices: 65472011--65472121 Score: 143
Period size: 24 Copynumber: 4.6 Consensus size: 24
65472001 AATCTCAAAT
*
65472011 GCACTATGTGTGCAATTTACTATG
1 GCACTATGTGTGCAATTTACTATA
*
65472035 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCAATTTACTATA
* *
65472059 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTACTATA
** *
65472083 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGC-AATTTACTATA
65472107 GCACTATGTGTGCAA
1 GCACTATGTGTGCAA
65472122 CGTTTGGTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
23 2 0.03
24 71 0.91
25 5 0.06
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCAATTTACTATA
Found at i:65472063 original size:48 final size:48
Alignment explanation
Indices: 65472011--65472121 Score: 170
Period size: 48 Copynumber: 2.3 Consensus size: 48
65472001 AATCTCAAAT
** *
65472011 GCACTATGTGTGCAATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCAATTTACTATGGCACTATGTGTGCGAACATAATA-A
*
65472059 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCAATTTACTATGGCACTATGTGTGCGAACATAATAA
65472107 GCACTATGTGTGCAA
1 GCACTATGTGTGCAA
65472122 CGTTTGGTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCAATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:65473987 original size:32 final size:32
Alignment explanation
Indices: 65473946--65474010 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65473936 ATTAATAAAG
65473946 TTAGCCTAATAATGAACACAAATATGTGCACA
1 TTAGCCTAATAATGAACACAAATATGTGCACA
65473978 TTAGCCTAATAATGAACACAAATATGTGCACA
1 TTAGCCTAATAATGAACACAAATATGTGCACA
65474010 T
1 T
65474011 AATTTATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.26
Consensus pattern (32 bp):
TTAGCCTAATAATGAACACAAATATGTGCACA
Found at i:65474574 original size:22 final size:22
Alignment explanation
Indices: 65474549--65474593 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
65474539 ATTATGTGTA
*
65474549 TTAATTCATAATTTAA-TTAATT
1 TTAATTCAT-ATTCAATTTAATT
*
65474571 TTAATTTATATTCAATTTAATT
1 TTAATTCATATTCAATTTAATT
65474593 T
1 T
65474594 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTCATATTCAATTTAATT
Found at i:65476863 original size:43 final size:43
Alignment explanation
Indices: 65476813--65476895 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
65476803 GATATATGTG
*
65476813 GCATCCGAGCTCGATGAGTGG-TCCAAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGATGAGTGGCT-CAAGTTCATAATGGATGCGA
* *
65476856 GCATCCGAGCTCGTTGAGTGGCTCGAGTTCATAATGGATG
1 GCATCCGAGCTCGATGAGTGGCTCAAGTTCATAATGGATG
65476896 TAATACATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCGATGAGTGGCTCAAGTTCATAATGGATGCGA
Found at i:65477743 original size:34 final size:34
Alignment explanation
Indices: 65477700--65477770 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
65477690 CTAATTGTTC
* **
65477700 ATGCATGCATGTCTCGATGCATTGATGGTGTTTT
1 ATGCATGCATGTCTCGATGCATTAATAATGTTTT
*
65477734 ATGCATGCATGTGTCGATGCATTAATAATGTTTT
1 ATGCATGCATGTCTCGATGCATTAATAATGTTTT
65477768 ATG
1 ATG
65477771 TGGTGGTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.41
Consensus pattern (34 bp):
ATGCATGCATGTCTCGATGCATTAATAATGTTTT
Found at i:65477755 original size:16 final size:16
Alignment explanation
Indices: 65477700--65477755 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
65477690 CTAATTGTTC
*
65477700 ATGCATGCATGTCTCG
1 ATGCATGCATGTGTCG
**
65477716 ATGCATTG-ATGGTGTTTT
1 ATGCA-TGCAT-GTG-TCG
65477734 ATGCATGCATGTGTCG
1 ATGCATGCATGTGTCG
65477750 ATGCAT
1 ATGCAT
65477756 TAATAATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 14 0.45
17 9 0.29
18 8 0.26
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.38
Consensus pattern (16 bp):
ATGCATGCATGTGTCG
Found at i:65482067 original size:21 final size:21
Alignment explanation
Indices: 65482041--65482266 Score: 202
Period size: 21 Copynumber: 9.9 Consensus size: 21
65482031 CATTTCCAAC
65482041 TGGTAATGGTCAAAATTGGAA
1 TGGTAATGGTCAAAATTGGAA
65482062 TGGTAATGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATT----GG--AA
*
65482089 TGGTACTGGTCAAAATTGGAA
1 TGGTAATGGTCAAAATTGGAA
65482110 TGGTAATGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATT----GG--AA
* *
65482137 TGGTACTGGTCAAAGTTGGAA
1 TGGTAATGGTCAAAATTGGAA
*
65482158 TGGTACTGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATT----GG--AA
** *
65482185 TTTTAATGGTCAAAATTGGGA
1 TGGTAATGGTCAAAATTGGAA
*
65482206 TGGTAATGGTCAAAATTGGCA
1 TGGTAATGGTCAAAATTGGAA
65482227 -GGCTAATGGTCAAAATTGGAA
1 TGG-TAATGGTCAAAATTGGAA
65482248 TGGTAATGGTCAAAATTGG
1 TGGTAATGGTCAAAATTGG
65482267 GGTGTCTTTT
Statistics
Matches: 172, Mismatches: 13, Indels: 40
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.01
21 105 0.61
22 2 0.01
23 6 0.03
25 6 0.03
27 51 0.30
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (21 bp):
TGGTAATGGTCAAAATTGGAA
Found at i:65482071 original size:27 final size:27
Alignment explanation
Indices: 65482060--65482236 Score: 174
Period size: 27 Copynumber: 7.2 Consensus size: 27
65482050 TCAAAATTGG
65482060 AATGGTAATGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
*
65482087 AATGGTACTGGTCAAAATT----GG--
1 AATGGTAATGGTCAAAATTGGCAGGCT
65482108 AATGGTAATGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
* *
65482135 AATGGTACTGGTCAAAGTT----GG--
1 AATGGTAATGGTCAAAATTGGCAGGCT
*
65482156 AATGGTACTGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
**
65482183 AATTTTAATGGTCAAAATT-G--GG--
1 AATGGTAATGGTCAAAATTGGCAGGCT
65482205 -ATGGTAATGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
65482231 AATGGT
1 AATGGT
65482237 CAAAATTGGA
Statistics
Matches: 122, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
21 52 0.43
22 1 0.01
23 4 0.03
24 4 0.03
25 4 0.03
26 1 0.01
27 56 0.46
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.28
Consensus pattern (27 bp):
AATGGTAATGGTCAAAATTGGCAGGCT
Found at i:65482112 original size:48 final size:48
Alignment explanation
Indices: 65482041--65482266 Score: 347
Period size: 48 Copynumber: 4.8 Consensus size: 48
65482031 CATTTCCAAC
65482041 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
*
65482089 TGGTACTGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
* * *
65482137 TGGTACTGGTCAAAGTTGGAATGGTACTGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
** *
65482185 TTTTAATGGTCAAAATTGGGATGGTAATGGTCAAAATTGGCAGGC---
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
65482230 ---TAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGG
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGG
65482267 GGTGTCTTTT
Statistics
Matches: 168, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
42 36 0.21
48 132 0.79
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (48 bp):
TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
Found at i:65482160 original size:69 final size:64
Alignment explanation
Indices: 65482041--65482268 Score: 210
Period size: 69 Copynumber: 3.3 Consensus size: 64
65482031 CATTTCCAAC
*
65482041 TGGTAATGGTCAAAATT-GGAATGGTAATGGTCAAAATTGGCAGGCTAATGGTACTGGTCAAAAT
1 TGGTAATGGTCAAAATTGGGGATGGTAATGGTCAAAATT----GG--AATGGTACTGGTCAAAAT
65482105 TGGAA
60 TGGAA
* *
65482110 TGGTAATGGTCAAAATTGGCAGGCTAATGGTACTGGTCAAAGTTGGAATGGTACTGGTCAAAATT
1 TGGTAATGGTCAAAATTGG--GG---ATGGTAATGGTCAAAATTGGAATGGTACTGGTCAAAATT
65482175 GGCAGGCTAA
61 ----GG--AA
** * *
65482185 TTTTAATGGTCAAAATT-GGGATGGTAATGGTCAAAATTGGCA-GGCTAATGGTCAAAATTGGAA
1 TGGTAATGGTCAAAATTGGGGATGGTAATGGTCAAAATTGGAATGG-TACTGGTCAAAATTGGAA
65482248 TGGTAATGGTCAAAATTGGGG
1 TGGTAATGGTCAAAATTGGGG
65482269 TGTCTTTTCT
Statistics
Matches: 134, Mismatches: 11, Indels: 33
0.75 0.06 0.19
Matches are distributed among these distances:
63 17 0.13
64 3 0.02
65 2 0.01
68 2 0.01
69 68 0.51
70 1 0.01
71 2 0.01
72 3 0.02
73 2 0.01
74 1 0.01
75 33 0.25
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (64 bp):
TGGTAATGGTCAAAATTGGGGATGGTAATGGTCAAAATTGGAATGGTACTGGTCAAAATTGGAA
Found at i:65486575 original size:40 final size:40
Alignment explanation
Indices: 65486475--65486616 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 40
65486465 ACATTCAAAT
* * * *
65486475 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACGAAA
* *
65486515 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAA
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAAA
** * *
65486555 GCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACGAAA
*
65486595 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAACCCGGAT
65486617 ATCATTCGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.04
40 73 0.86
41 9 0.11
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAAA
Found at i:65497754 original size:27 final size:27
Alignment explanation
Indices: 65497723--65497779 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
65497713 TAATTAACGA
65497723 TGTTACTTAATAAAATGTGTTGGCCTT
1 TGTTACTTAATAAAATGTGTTGGCCTT
65497750 TGTTACTTAATAAAATGTGTTGGCCTT
1 TGTTACTTAATAAAATGTGTTGGCCTT
65497777 TGT
1 TGT
65497780 GGTCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.46
Consensus pattern (27 bp):
TGTTACTTAATAAAATGTGTTGGCCTT
Found at i:65500552 original size:14 final size:14
Alignment explanation
Indices: 65500533--65500571 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
65500523 ATCTTTAATT
65500533 ATAAAAAATAAA-AA
1 ATAAAAAA-AAACAA
65500547 ATAAAAAAAAACAA
1 ATAAAAAAAAACAA
65500561 A-AAAAAAAAAC
1 ATAAAAAAAAAC
65500572 TTGCAGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (14 bp):
ATAAAAAAAAACAA
Found at i:65500557 original size:17 final size:16
Alignment explanation
Indices: 65500535--65500570 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
65500525 CTTTAATTAT
*
65500535 AAAAAATAAAAAATAAA
1 AAAAAACAAAAAA-AAA
65500552 AAAAAACAAAAAAAAA
1 AAAAAACAAAAAAAAA
65500568 AAA
1 AAA
65500571 CTTGCAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.92, C:0.03, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAACAAAAAAAAA
Found at i:65502659 original size:17 final size:18
Alignment explanation
Indices: 65502637--65502670 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65502627 AATTTTGAAA
65502637 TTTAT-AGTATCAATACT
1 TTTATAAGTATCAATACT
65502654 TTTATAAGTATCAATAC
1 TTTATAAGTATCAATAC
65502671 CAATTTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTATAAGTATCAATACT
Found at i:65504670 original size:48 final size:48
Alignment explanation
Indices: 65504599--65504722 Score: 176
Period size: 48 Copynumber: 2.6 Consensus size: 48
65504589 TGAGATCCCA
** * *
65504599 TGTAAGACCATGAGTGGGACATGGCATTGGCGTTGATATGTGTACCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTACCAG
* * *
65504647 TGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTACCAG
*
65504695 CGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
65504723 AGCACCGATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTACCAG
Found at i:65506754 original size:22 final size:22
Alignment explanation
Indices: 65506726--65506780 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
65506716 ACAGGGTCAC
65506726 ACGCCCGTGTGGACACATGGGG
1 ACGCCCGTGTGGACACATGGGG
65506748 ACGCCCGTGTGGACACATGGGG
1 ACGCCCGTGTGGACACATGGGG
65506770 ACGCCCGTGTG
1 ACGCCCGTGTG
65506781 CTATAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.29, G:0.40, T:0.15
Consensus pattern (22 bp):
ACGCCCGTGTGGACACATGGGG
Found at i:65509106 original size:49 final size:49
Alignment explanation
Indices: 65509050--65509241 Score: 312
Period size: 49 Copynumber: 3.9 Consensus size: 49
65509040 TACATATATG
* * *
65509050 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
65509099 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGCATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
65509148 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
65509197 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
65509242 GCCGATGTGG
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 136 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:65509242 original size:28 final size:28
Alignment explanation
Indices: 65509211--65509269 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
65509201 ATGAGGCCTA
65509211 ATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATGGCCGATGTGGTGAATGTGAAAGTGT
65509239 ATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATGGCCGATGTGGTGAATGTGAAAGTGT
65509267 ATG
1 ATG
65509270 TATATGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.39, T:0.29
Consensus pattern (28 bp):
ATGGCCGATGTGGTGAATGTGAAAGTGT
Found at i:65509453 original size:37 final size:36
Alignment explanation
Indices: 65509394--65509477 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 36
65509384 GGAATATGTT
*
65509394 CCGGGTGAGACCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCGATGACTACGTGTGGAGATTATGA
*
65509430 CCGGGTAAGACCTGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACC-GATGACTACGTGTGGAGATTATGA
65509467 CCGGGTAAGAC
1 CCGGGTAAGAC
65509478 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 11 0.24
37 34 0.76
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.23
Consensus pattern (36 bp):
CCGGGTAAGACCGATGACTACGTGTGGAGATTATGA
Found at i:65511098 original size:10 final size:10
Alignment explanation
Indices: 65511085--65511118 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
65511075 ATTTTAAACC
65511085 TTTTTTTTCT
1 TTTTTTTTCT
65511095 TTTTTTTTC-
1 TTTTTTTTCT
65511104 -TTTTTTTCT
1 TTTTTTTTCT
65511113 TTTTTT
1 TTTTTT
65511119 GAATAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:65512242 original size:47 final size:47
Alignment explanation
Indices: 65512171--65512426 Score: 406
Period size: 47 Copynumber: 5.4 Consensus size: 47
65512161 TATCATAGTT
* * * * *
65512171 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
* *
65512218 ATATACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
65512265 ATACACTTTCACATTCATCACATTGGCCATTCGCCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
65512312 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
65512359 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
65512408 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
65512427 GTAACAAAAT
Statistics
Matches: 196, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 171 0.87
48 2 0.01
49 23 0.12
ACGTcount: A:0.28, C:0.32, G:0.07, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:65516260 original size:40 final size:40
Alignment explanation
Indices: 65516211--65516378 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
65516201 TCTTCGGAAT
* * *
65516211 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
65516250 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
65516290 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
65516330 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
65516370 TTAGCCCGG
1 TTAGCCCGG
65516379 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:65523593 original size:28 final size:27
Alignment explanation
Indices: 65523540--65523623 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 27
65523530 CACTTTGTGC
65523540 TATTCTGCTGTGTTTTGGATGGATTATAT
1 TATTCTG-TGTGTTTTGGA-GGATTATAT
*
65523569 TATTCTAGTGTGTTTGGGAGGATTATAT
1 TATTCT-GTGTGTTTTGGAGGATTATAT
* *
65523597 GATACTTGTGTGTTTTGGAGGATTATA
1 TATTC-TGTGTGTTTTGGAGGATTATA
65523624 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 31 0.63
29 17 0.35
30 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (27 bp):
TATTCTGTGTGTTTTGGAGGATTATAT
Found at i:65523866 original size:23 final size:21
Alignment explanation
Indices: 65523828--65523932 Score: 104
Period size: 21 Copynumber: 5.0 Consensus size: 21
65523818 GCTATACTGA
* *
65523828 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTGTGTGTCG--TT
* * *
65523851 TTAGGCACCTTGTGTGTCATA
1 TCAGGCACCTTGTGTGTCGTT
* *
65523872 TCAGACACCTCGTGTGTCGTT
1 TCAGGCACCTTGTGTGTCGTT
*
65523893 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTTGTGTGTCGTT
*
65523914 TCAGGCA-CTTATGTGTCGT
1 TCAGGCACCTTGTGTGTCGT
65523933 CTACTGATCA
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.14
21 44 0.64
23 15 0.22
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (21 bp):
TCAGGCACCTTGTGTGTCGTT
Found at i:65525173 original size:46 final size:48
Alignment explanation
Indices: 65525015--65525201 Score: 154
Period size: 46 Copynumber: 3.9 Consensus size: 48
65525005 TCGTTGGACC
65525015 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * * *
65525061 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTAGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
65525114 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
65525160 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
65525202 TTTTACTATG
Statistics
Matches: 112, Mismatches: 16, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
45 1 0.01
46 32 0.29
47 8 0.07
48 18 0.16
49 13 0.12
50 1 0.01
51 7 0.06
52 5 0.04
53 26 0.23
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:65533513 original size:48 final size:48
Alignment explanation
Indices: 65533440--65533565 Score: 189
Period size: 48 Copynumber: 2.6 Consensus size: 48
65533430 TGAGATCCCA
* *
65533440 TGTAAGACCATGTCTGGGACATGGCATCGAAGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAAGATGATATGTGCGCCAG
* ** *
65533488 TGTAAGACCATGTCTGGGACTTGGCATCGGTGATGATATGTGCGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAAGATGATATGTGCGCCAG
*
65533536 TGTAAGACCATGTTTGGGACATGGCATCGA
1 TGTAAGACCATGTCTGGGACATGGCATCGA
65533566 CATCGATATG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGAAGATGATATGTGCGCCAG
Found at i:65537532 original size:16 final size:17
Alignment explanation
Indices: 65537507--65537551 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
65537497 AAAAGAAAGT
*
65537507 GAAAATGAAAAAT-AAA
1 GAAAAAGAAAAATGAAA
65537523 GAAAAAG-AAAATGAAA
1 GAAAAAGAAAAATGAAA
65537539 GAGAAAAGAAAAA
1 GA-AAAAGAAAAA
65537552 GAGTTGTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 5 0.20
18 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (17 bp):
GAAAAAGAAAAATGAAA
Found at i:65537550 original size:22 final size:20
Alignment explanation
Indices: 65537496--65537550 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
65537486 ATGAGAGTGG
*
65537496 AAAAAGAAAGTGAAAATGAAA
1 AAAAAGAAA-AGAAAATGAAA
65537517 AATAAAGAAAAAGAAAATGAAA
1 AA-AAAG-AAAAGAAAATGAAA
65537539 GAGAAAAGAAAA
1 -A-AAAAGAAAA
65537551 AGAGTTGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 18 0.62
23 8 0.28
24 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAAAGAAAAGAAAATGAAA
Found at i:65538662 original size:10 final size:10
Alignment explanation
Indices: 65538647--65538691 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
65538637 AACTCACTTG
65538647 AGCTCGTTTC
1 AGCTCGTTTC
*
65538657 AGCTCGTTTG
1 AGCTCGTTTC
* *
65538667 AGCTTGATTTT
1 AGCTCG-TTTC
65538678 AGCTCGTTTC
1 AGCTCGTTTC
65538688 AGCT
1 AGCT
65538692 TATTCCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.42
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:65538683 original size:21 final size:20
Alignment explanation
Indices: 65538644--65538692 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
65538634 ATCAACTCAC
*
65538644 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTTGTTTCAGCTCGT
*
65538664 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTTG-TTTCAGCTCGT
*
65538685 TTCAGCTT
1 TTGAGCTT
65538693 ATTCCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (20 bp):
TTGAGCTTGTTTCAGCTCGT
Found at i:65545589 original size:46 final size:45
Alignment explanation
Indices: 65545522--65545876 Score: 182
Period size: 46 Copynumber: 7.5 Consensus size: 45
65545512 TATGTGTGCT
65545522 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAT-ATGAGAGCC
** * * * *
65545568 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATTTA-AACT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATA-TGAGAGCC
* * * * *
65545616 AGTGTAAGACATGTTTGGGACATGCATCAG-CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CATATGAGAGCC
* * * *
65545662 AGTGTAAGACATGTCTGGGACATGCATCTGCCTTGCTATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC--AC-ATATGA-GAGCC
* * * ** **** * *
65545710 AGTGTAAGACCTGTTTAGGACATGGTGTCAGCTTGTTAT--GTGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATATGAGAGCC
* *
65545754 AGTGTAAGACCTGTCTGGGACATGGCATC-GACACCATTAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCA-CA-T--ATGAGAGCC
* * * *
65545803 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCC--AC-ATATGAGAGCC
65545852 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
65545877 GCGTCGGCAT
Statistics
Matches: 236, Mismatches: 49, Indels: 45
0.72 0.15 0.14
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 3 0.01
46 65 0.28
47 5 0.02
48 57 0.24
49 60 0.25
50 15 0.06
51 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATATGAGAGCC
Found at i:65545671 original size:94 final size:94
Alignment explanation
Indices: 65545520--65545733 Score: 263
Period size: 94 Copynumber: 2.3 Consensus size: 94
65545510 GATATGTGTG
* *
65545520 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCATGAGAGCCAGTGTAAGACATGTCTG
1 CTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATCACGAGAGCCAGTGTAAGACATGTCTG
**
65545585 GGACATGCAT-TGGCCTCGAGATATTTAAA
66 GGACATGCATCT-GCCTCGAGATATACAAA
* * *
65545614 CTAGTGTAAGACATGTTTGGGACATGCATCAG-CA-TTGAGACGAGAGCTAGTGTAAGACATGTC
1 CTAGTGTAAGACATGTTTGGGACATGCATCAGCCACAT--CACGAGAGCCAGTGTAAGACATGTC
* ** *
65545677 TGGGACATGCATCTGCCTTGCTATATACAAG
64 TGGGACATGCATCTGCCTCGAGATATACAAA
* *
65545708 CTAGTGTAAGACCTGTTTAGGACATG
1 CTAGTGTAAGACATGTTTGGGACATG
65545734 GTGTCAGCTT
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 100 0.96
95 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (94 bp):
CTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATCACGAGAGCCAGTGTAAGACATGTCTG
GGACATGCATCTGCCTCGAGATATACAAA
Found at i:65545839 original size:142 final size:139
Alignment explanation
Indices: 65545616--65545877 Score: 359
Period size: 142 Copynumber: 1.9 Consensus size: 139
65545606 TATTTAAACT
* * *
65545616 AGTGTAAGACATGTTTGGGACATGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCACCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGG
* * *
65545681 ACATGCATCTGCCTTGCTATAT-ACAAGCTAGTGTAAGACC-TGTTTAGGACATGGTGTCAGCTT
66 ACATGCATCGGCCTTGCTATATGA-AAGCCAGTGTAAGACCATGTCTAGGACATGGTGTCAGCTT
65545744 GTTATGTGTC
130 GTTATGTGTC
* * *
65545754 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCATT-AGATGAGAGCCAGTGTAAGACCTGTC
1 AGTGTAAGACATGTCTGGGACAT-GCAT---CACCATTGAGACGAGAGCCAGTGTAAGACATGTC
*
65545818 TGGGACATGGCATCGGCCTTGCTATATGAAAGCCAGTGTAAGACCATGTCTGGGACATGG
62 TGGGACAT-GCATCGGCCTTGCTATATGAAAGCCAGTGTAAGACCATGTCTAGGACATGG
65545878 CGTCGGCATC
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 21 0.20
139 4 0.04
141 31 0.29
142 38 0.36
143 13 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCACCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCCTTGCTATATGAAAGCCAGTGTAAGACCATGTCTAGGACATGGTGTCAGCTTG
TTATGTGTC
Found at i:65552749 original size:29 final size:29
Alignment explanation
Indices: 65552709--65552811 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
65552699 GTTGAGAGAT
*
65552709 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
65552738 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
65552767 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
65552796 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65552812 TGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:65555144 original size:37 final size:37
Alignment explanation
Indices: 65555103--65555179 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
65555093 TAGTTCAGGG
* *
65555103 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGGT
1 CTTACCCGGACAAAATCTCCACACGTAGTCATCGGGT
*
65555140 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACAAAATCTCCACACGTAGTCATCGGGT
65555177 CTT
1 CTT
65555180 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (37 bp):
CTTACCCGGACAAAATCTCCACACGTAGTCATCGGGT
Found at i:65555366 original size:47 final size:47
Alignment explanation
Indices: 65555297--65555921 Score: 1009
Period size: 47 Copynumber: 13.3 Consensus size: 47
65555287 CCCTTCGGGA
* * * * *
65555297 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65555344 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65555391 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65555438 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
65555485 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65555532 CTTATCACATATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65555579 CTTGTCACATATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65555626 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65555673 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65555720 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
65555767 CTTATCTCATATATGCACTTTCACATTCATCACAT-GGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65555813 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65555860 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65555907 CTTATCACATATATA
1 CTTATCACATATATA
65555922 TATCTCATAC
Statistics
Matches: 547, Mismatches: 30, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
46 43 0.08
47 504 0.92
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65555375 original size:25 final size:25
Alignment explanation
Indices: 65555347--65555425 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
65555337 ACTCGGCCTT
*
65555347 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
65555372 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
65555394 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
65555419 ATCACAT
1 ATCACAT
65555426 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:65562769 original size:42 final size:43
Alignment explanation
Indices: 65562687--65562801 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
65562677 GGCATCGACT
65562687 TATGATTTACATGTAAGACCATGTCTGGGAAATCGACATCGTA
1 TATGATTTACATGTAAGACCATGTCTGGGAAATCGACATCGTA
* * * * * *
65562730 TATGATTT-CGTGTAAGACCTTGTTTGGGGCAAT-GGCATCGGCA
1 TATGATTTACATGTAAGACCATGTCT-GGGAAATCGACATC-GTA
* *
65562773 TTTG-TTTACATGTAAGACCACGTCTGGGA
1 TATGATTTACATGTAAGACCATGTCTGGGA
65562802 CGTTGGCTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TATGATTTACATGTAAGACCATGTCTGGGAAATCGACATCGTA
Found at i:65565024 original size:39 final size:39
Alignment explanation
Indices: 65564943--65565105 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
65564933 TATGGTAACC
** *
65564943 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
65564983 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
65565022 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
65565061 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
65565100 CGCACA
1 CGCACA
65565106 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:65572938 original size:40 final size:39
Alignment explanation
Indices: 65572894--65573086 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
65572884 GTTCAAAACA
* * ** * *
65572894 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
65572934 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
65572974 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
65573013 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
65573052 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
65573087 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:65573005 original size:39 final size:39
Alignment explanation
Indices: 65572924--65573086 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
65572914 TATGGTAACC
* *
65572924 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
65572964 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
65573003 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
65573042 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
65573081 CGCACA
1 CGCACA
65573087 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:65576706 original size:93 final size:93
Alignment explanation
Indices: 65576594--65576764 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
65576584 GCCCATAAGT
* * *
65576594 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65576659 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
65576687 GAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65576752 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65576765 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65576780 original size:46 final size:46
Alignment explanation
Indices: 65576586--65576766 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
65576576 ATGTAACCGC
* * *
65576586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
65576632 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * *
65576682 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
65576725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
65576767 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:65582975 original size:41 final size:41
Alignment explanation
Indices: 65582917--65583001 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
65582907 AGCCTAGACC
* *
65582917 GTGTGGCCCAGAACATGGTCGTGTGGCTATTTTACATGCCT
1 GTGTGGCCCAGAACATGGCCGTGTGGCTATTTCACATGCCT
* * * *
65582958 GTGTGGCCTAGAGCATGGCCGTGTTGCTATTTCACATGCTT
1 GTGTGGCCCAGAACATGGCCGTGTGGCTATTTCACATGCCT
65582999 GTG
1 GTG
65583002 GATGTAGACC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.15, C:0.21, G:0.31, T:0.33
Consensus pattern (41 bp):
GTGTGGCCCAGAACATGGCCGTGTGGCTATTTCACATGCCT
Found at i:65593917 original size:46 final size:46
Alignment explanation
Indices: 65593867--65594042 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
65593857 TGGTTGAGCA
* *
65593867 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAAAG
* * *
65593913 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--AAG
* * *
65593958 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAAAG
* * * *
65594006 CCCGAGCTCGTTGAGTTGAGTCTGATTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65594043 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 61 0.57
47 28 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAAAG
Found at i:65595800 original size:27 final size:27
Alignment explanation
Indices: 65595767--65595966 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
65595757 TGGATAAGTT
* *
65595767 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
65595794 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
65595821 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
65595848 GTAGAATTACCGAAATACGCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
65595875 ATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
65595902 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
65595929 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
65595956 GTAAAATTACC
1 GTAGAATTACC
65595967 ATTTTGCCCC
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:65596354 original size:8 final size:8
Alignment explanation
Indices: 65596338--65596369 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
65596328 AATGGGCGAA
65596338 AACGGGCC
1 AACGGGCC
*
65596346 AATGGGCC
1 AACGGGCC
65596354 AACGGGCC
1 AACGGGCC
65596362 AACGGGCC
1 AACGGGCC
65596370 CATTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.25, C:0.34, G:0.38, T:0.03
Consensus pattern (8 bp):
AACGGGCC
Found at i:65596648 original size:2 final size:2
Alignment explanation
Indices: 65596641--65596690 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
65596631 GCTTCGCCAC
*
65596641 AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65596683 AT AT AT AT
1 AT AT AT AT
65596691 TCTAGTGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65601256 original size:42 final size:42
Alignment explanation
Indices: 65601195--65601307 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
65601185 ATGTCAGTGC
65601195 CAATGCCATGTCCCAGACATGGTCTTACACGAGACCTCATAT
1 CAATGCCATGTCCCAGACATGGTCTTACACGAGACCTCATAT
**
65601237 TGATGCCATGTCCCAGACATGGTCTTACACGAGACCTCATAT
1 CAATGCCATGTCCCAGACATGGTCTTACACGAGACCTCATAT
* *
65601279 CAATGCCATATCCCAGATATGGTCTTACA
1 CAATGCCATGTCCCAGACATGGTCTTACA
65601308 TAAAATCACA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACATGGTCTTACACGAGACCTCATAT
Found at i:65601366 original size:48 final size:49
Alignment explanation
Indices: 65601281--65601405 Score: 137
Period size: 48 Copynumber: 2.6 Consensus size: 49
65601271 CCTCATATCA
** *
65601281 ATGCCATATCCCAGATATGGTCTTACA-TAAAATCACATACCGATGCCG
1 ATGCCATATCCCAGATATGGTCTTACACTAAAATCACATACAAACGCCG
* *** * *
65601329 ATGCCATATCCCATATATGGTCTTACACTTGCA-CACATATAAACGTCG
1 ATGCCATATCCCAGATATGGTCTTACACTAAAATCACATACAAACGCCG
* *
65601377 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATATCCCAGATATGGTCTTACACT
65601406 GGCTCTCATC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 62 0.97
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (49 bp):
ATGCCATATCCCAGATATGGTCTTACACTAAAATCACATACAAACGCCG
Found at i:65603695 original size:46 final size:45
Alignment explanation
Indices: 65603645--65603816 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
65603635 TGGTTGAGCA
65603645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
65603691 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
65603737 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
65603783 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65603817 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:65603799 original size:92 final size:92
Alignment explanation
Indices: 65603642--65603811 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
65603632 GGATGGTTGA
* *
65603642 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65603707 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
65603734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65603799 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65603812 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:65611232 original size:46 final size:46
Alignment explanation
Indices: 65611182--65611354 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
65611172 TGGTTGAGCA
65611182 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
65611228 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65611273 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65611321 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65611355 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65611338 original size:93 final size:93
Alignment explanation
Indices: 65611179--65611349 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
65611169 GGATGGTTGA
* *
65611179 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65611244 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
65611272 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65611337 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65611350 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65614369 original size:319 final size:319
Alignment explanation
Indices: 65613788--65614431 Score: 957
Period size: 319 Copynumber: 2.0 Consensus size: 319
65613778 GATGAAAGGT
*
65613788 GGTACTAAAATTCAATCTCGTGCCCAAGGCTTCTTGCAACCTTTTCTAAAACTGAGAGGTAAACC
1 GGTACTAAAATTCAATCTCGTGCCCAAGGCTTCTTGCAACCTTTTCCAAAACTGAGAGGTAAACC
* * * * * *
65613853 TCAGATCTCTATCCGATATGATCGATAAGGGTATTTCGTGAAGTGTCACAATTTCAAAAATATAT
66 TCAGATCTCTATACGATATAATCAATAAAGGTATTCCGTGAAGTCTCACAATTTCAAAAATATAT
* * ** * ** *
65613918 AACTCAGCCAATTTATCAATCGAATAGTCGGTATGTACAGAGATAAATTGAGCTGATTTTGTCAA
131 AACTCAGCCAATTTATCAAGCGAATAGTCAGTACATACAGAGATAAAGTGAGCCAACTTTGTCAA
* * *
65613983 TCGATCAACCACGACCCACACCGCATCTTTCTTACTTAGTGTCAAATGTAAACCCATTACAAATT
196 TCGATCAACCACGACCCACACCGCATCTTTCTTAATCAGTGTCAAAGGTAAACCCATTACAAATT
* * *
65614048 TCATGGTAATTCGGTCCCA-TTTCCACTCGGGAACCATGATTGGCTGTAGTAATCCTGAA
261 TCATGGTAATTCAGTCCCACTTT-CACTCGGGAACCATGATAGGCTGTAGTAATCCTAAA
*
65614107 GGTACTAAAATTCAATCTCGTGCCCAAGGCTTCTTGCAACTTTTTCCAAAACTGAGAGGTAAACC
1 GGTACTAAAATTCAATCTCGTGCCCAAGGCTTCTTGCAACCTTTTCCAAAACTGAGAGGTAAACC
* *
65614172 TCCGATCTCTATACGATATAATCAATAAAGGTATTCCGTGAAGTCTCAGAATTTCAAAAATATAT
66 TCAGATCTCTATACGATATAATCAATAAAGGTATTCCGTGAAGTCTCACAATTTCAAAAATATAT
* * * * *
65614237 AACTCTGCCAATTTATCAAGCGAGTAGTTATTACATACCGAGATAAAGTGAGCCAACTTTGTCAA
131 AACTCAGCCAATTTATCAAGCGAATAGTCAGTACATACAGAGATAAAGTGAGCCAACTTTGTCAA
* * * * **
65614302 TCGATCAACTACGACCCACACCGCATCTTTCTTAATCGGTGTCAAAGGTAATCCCGTTATGAATT
196 TCGATCAACCACGACCCACACCGCATCTTTCTTAATCAGTGTCAAAGGTAAACCCATTACAAATT
65614367 TCATGGTAATTCAGTCCCACTTTCACTCGGGAACCATGATAGGCTGTAGTAATCCTAAA
261 TCATGGTAATTCAGTCCCACTTTCACTCGGGAACCATGATAGGCTGTAGTAATCCTAAA
65614426 GGTACT
1 GGTACT
65614432 TGGTTCTTAG
Statistics
Matches: 289, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
319 286 0.99
320 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (319 bp):
GGTACTAAAATTCAATCTCGTGCCCAAGGCTTCTTGCAACCTTTTCCAAAACTGAGAGGTAAACC
TCAGATCTCTATACGATATAATCAATAAAGGTATTCCGTGAAGTCTCACAATTTCAAAAATATAT
AACTCAGCCAATTTATCAAGCGAATAGTCAGTACATACAGAGATAAAGTGAGCCAACTTTGTCAA
TCGATCAACCACGACCCACACCGCATCTTTCTTAATCAGTGTCAAAGGTAAACCCATTACAAATT
TCATGGTAATTCAGTCCCACTTTCACTCGGGAACCATGATAGGCTGTAGTAATCCTAAA
Found at i:65622328 original size:21 final size:22
Alignment explanation
Indices: 65622295--65622335 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
65622285 TACATACCTG
*
65622295 TACCATACATTCTTACTCATTC
1 TACCATACATTCTTAATCATTC
*
65622317 TACCCTAC-TTCTTAATCAT
1 TACCATACATTCTTAATCAT
65622336 AATCTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (22 bp):
TACCATACATTCTTAATCATTC
Found at i:65622563 original size:42 final size:42
Alignment explanation
Indices: 65622499--65622616 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
65622489 ATGTCGGTGC
* * **
65622499 CAATTCCATGTTCCAGACATGGTCTTACATGGGACCTCATAT
1 CAATGCCATGTCCCAGACATGGTCTTACATGAAACCTCATAT
* * *
65622541 CGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAT
1 CAATGCCATGTCCCAGACATGGTCTTACATGAAACCTCATAT
* * *
65622583 CAATGCCATATCCCAAATATGGTCTTACATGAAA
1 CAATGCCATGTCCCAGACATGGTCTTACATGAAA
65622617 TCACATACCG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGAAACCTCATAT
Found at i:65622590 original size:90 final size:90
Alignment explanation
Indices: 65622404--65622590 Score: 205
Period size: 90 Copynumber: 2.1 Consensus size: 90
65622394 CACCACATAG
* ** *
65622404 AATGCCAAAGCCATGTCCCCGACATGGTCTTACATGGGTTTACATACCGATGCCATATCCCTGAA
1 AATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGCCTACATACCGATGCCATATCCCAGAA
* * * * *
65622469 ATGGTCTTATATGAAGTCTTATGTC
66 ATGGTCTTACACGAAATCTCATATC
** ** * * *
65622494 GGTGCCAATTCCATGTTCCAGACATGGTCTTACATGGGACCT-CATATCGATGCCATGTCCCAGA
1 AATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CCTACATACCGATGCCATATCCCAGA
*
65622558 CATGGTCTTACACGAAATCTCATATC
65 AATGGTCTTACACGAAATCTCATATC
65622584 AATGCCA
1 AATGCCA
65622591 TATCCCAAAT
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
90 76 0.99
91 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (90 bp):
AATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGCCTACATACCGATGCCATATCCCAGAA
ATGGTCTTACACGAAATCTCATATC
Found at i:65622617 original size:42 final size:42
Alignment explanation
Indices: 65622511--65622659 Score: 154
Period size: 42 Copynumber: 3.4 Consensus size: 42
65622501 ATTCCATGTT
* ** * *
65622511 CCAGACATGGTCTTACATGGGACCTCATATCGATGCCATGTC
1 CCAGATATGGTCTTACATGAAATCTCATATCGATGCCATATC
* * *
65622553 CCAGACATGGTCTTACACGAAATCTCATATCAATGCCATATC
1 CCAGATATGGTCTTACATGAAATCTCATATCGATGCCATATC
* *
65622595 CCAAATATGGTCTTACATGAAATCACATACCGATGCCGATGCCATATC
1 CCAGATATGGTCTTACATGAAATCTCAT----AT--CGATGCCATATC
65622643 CCAGATATGGTCTTACA
1 CCAGATATGGTCTTACA
65622660 CTCACACACA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 60 0.67
46 2 0.02
48 27 0.30
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
CCAGATATGGTCTTACATGAAATCTCATATCGATGCCATATC
Found at i:65622670 original size:48 final size:49
Alignment explanation
Indices: 65622583--65622708 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
65622573 AATCTCATAT
* * * *
65622583 CAATGCCATATCCCAAATATGGTCTTACA-TGAAATCACATACCGATGC
1 CAATGCCATATCCCAGATATGGTCTTACACTCAAATCACATACCAACGC
* * * *
65622631 CGATGCCATATCCCAGATATGGTCTTACACTCACA-CACATATCAACGT
1 CAATGCCATATCCCAGATATGGTCTTACACTCAAATCACATACCAACGC
* * *
65622679 CAATGCCATGTCTCAGACATGGTCTTACAC
1 CAATGCCATATCCCAGATATGGTCTTACAC
65622709 GGGATCTCAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 62 0.95
49 3 0.05
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (49 bp):
CAATGCCATATCCCAGATATGGTCTTACACTCAAATCACATACCAACGC
Found at i:65628780 original size:258 final size:257
Alignment explanation
Indices: 65628306--65628823 Score: 910
Period size: 258 Copynumber: 2.0 Consensus size: 257
65628296 CTAAAAAAAA
*
65628306 TTTCAACTTCATATTCGGATGAAAAATTAGAAAGTTTAAACACATTCATAAACAAATCTATTTAT
1 TTTCAACTTCATATTCAGATGAAAAATTAGAAAGTTTAAACACATTCATAAACAAATCTATTTAT
65628371 TAACTGCATTTTTTGATCAATTTATTGTAATTAAATTCTGATTTTATCTAATTAAGTTGATATCA
66 TAACTGCATTTTTTGATCAATTTATTGTAATTAAATTCTGATTTTATCTAATTAAGTTGATATCA
65628436 AGTAGACACTAAAGAGAATATAGATAATATAAAGAAAATTTAAAAACCCCGCAGGGATTATTACT
131 AGTAGACACTAAAGAGAATATAGATAATATAAAGAAAATTTAAAAACCCCGCAGGGATTATTACT
* * *
65628501 AATTTAGTCTAAAGCAAGTTAAGGCAGTAGCAGAAGTCTACGTGGACTGTTCCAATCTGTTG
196 AATTTAGTCTAAAGCAAGTTAAGGCAGCAGCAGAAGTCTACGTGCACAGTTCCAATCTGTTG
65628563 TTTCAACTTCATATTCAGATGAAAAATTAGAAAGTTTAAACACATTCATAAACAAATCTATTTAT
1 TTTCAACTTCATATTCAGATGAAAAATTAGAAAGTTTAAACACATTCATAAACAAATCTATTTAT
* * * * *
65628628 TAACTTCATTTTTTGATCAGTTTATTGTAATTGAATTCTGAATTTTTTTTAATTAAGTTGATATC
66 TAACTGCATTTTTTGATCAATTTATTGTAATTAAATTCTG-ATTTTATCTAATTAAGTTGATATC
* *
65628693 AAGTAGACACTAAAGAGAATGTAGATAATATAAAGCAAATTTAAAAACCCCGCAGGGATTATTAC
130 AAGTAGACACTAAAGAGAATATAGATAATATAAAGAAAATTTAAAAACCCCGCAGGGATTATTAC
* *
65628758 TAATTTAGTCTAAAGCAAGTTAATGCAGCAGCAGAAGTCTACGTGCACAGTTCCAATTTGTTG
195 TAATTTAGTCTAAAGCAAGTTAAGGCAGCAGCAGAAGTCTACGTGCACAGTTCCAATCTGTTG
65628821 TTT
1 TTT
65628824 TTTTGTTTGC
Statistics
Matches: 247, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
257 101 0.41
258 146 0.59
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (257 bp):
TTTCAACTTCATATTCAGATGAAAAATTAGAAAGTTTAAACACATTCATAAACAAATCTATTTAT
TAACTGCATTTTTTGATCAATTTATTGTAATTAAATTCTGATTTTATCTAATTAAGTTGATATCA
AGTAGACACTAAAGAGAATATAGATAATATAAAGAAAATTTAAAAACCCCGCAGGGATTATTACT
AATTTAGTCTAAAGCAAGTTAAGGCAGCAGCAGAAGTCTACGTGCACAGTTCCAATCTGTTG
Found at i:65630439 original size:9 final size:9
Alignment explanation
Indices: 65630427--65630623 Score: 108
Period size: 9 Copynumber: 22.1 Consensus size: 9
65630417 TATATCATAT
65630427 CATAACTTA
1 CATAACTTA
65630436 CATAACTTA
1 CATAACTTA
*
65630445 CAAAACTTA
1 CATAACTTA
65630454 CATAA--TA
1 CATAACTTA
*
65630461 CATAA-ATA
1 CATAACTTA
* *
65630469 TAT-ATTATA
1 CATAACT-TA
65630478 TCATAACTTA
1 -CATAACTTA
65630488 CATAACTTA
1 CATAACTTA
*
65630497 CATAAATGT-
1 CATAACT-TA
* *
65630506 -ATATCATA
1 CATAACTTA
65630514 TCATAACTTA
1 -CATAACTTA
65630524 CATAACTTA
1 CATAACTTA
*
65630533 CATAAATGT-
1 CATAACT-TA
* *
65630542 -ATATCATA
1 CATAACTTA
65630550 TCATAACTTA
1 -CATAACTTA
65630560 CATAACTTA
1 CATAACTTA
*
65630569 CATAAATGT-
1 CATAACT-TA
* *
65630578 -ATATCATA
1 CATAACTTA
65630586 TCATAACTTA
1 -CATAACTTA
65630596 CATAACTTA
1 CATAACTTA
* *
65630605 CAAAACATA
1 CATAACTTA
*
65630614 CTTAACTTA
1 CATAACTTA
65630623 C
1 C
65630624 GTAATACAAA
Statistics
Matches: 142, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
7 11 0.08
8 13 0.09
9 91 0.64
10 25 0.18
11 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:65630509 original size:36 final size:36
Alignment explanation
Indices: 65630448--65630606 Score: 286
Period size: 36 Copynumber: 4.5 Consensus size: 36
65630438 TAACTTACAA
* *
65630448 AACTTACATAA--TACATAAATATATATTATATCAT
1 AACTTACATAACTTACATAAATGTATATCATATCAT
65630482 AACTTACATAACTTACATAAATGTATATCATATCAT
1 AACTTACATAACTTACATAAATGTATATCATATCAT
65630518 AACTTACATAACTTACATAAATGTATATCATATCAT
1 AACTTACATAACTTACATAAATGTATATCATATCAT
65630554 AACTTACATAACTTACATAAATGTATATCATATCAT
1 AACTTACATAACTTACATAAATGTATATCATATCAT
65630590 AACTTACATAACTTACA
1 AACTTACATAACTTACA
65630607 AAACATACTT
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
34 11 0.09
36 110 0.91
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATGTATATCATATCAT
Found at i:65635903 original size:40 final size:40
Alignment explanation
Indices: 65635859--65635984 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 40
65635849 TGCTGGAAAT
* * *
65635859 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
65635899 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * * *
65635939 TCTATCCGGGCTAAGACCCGAAGGTATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
65635979 TATATC
1 TATATC
65635985 TGGTTATATT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.05
40 67 0.92
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:65637430 original size:53 final size:52
Alignment explanation
Indices: 65637352--65637561 Score: 235
Period size: 53 Copynumber: 3.9 Consensus size: 52
65637342 TACAAAGGTC
65637352 CCATGTAAGACCATGTCACAG-CATGGCATTGGTGAGTTCATAAGGCAAAGATA
1 CCATGTAAGACCATGTCA-AGACATGGCATTGGTGAGTTCATAAGG-AAAGATA
** * *
65637405 CCATGTAAGACCATGTCAAGACATGGCATTCATGAGTTACTATAAGGAAAAGGTC
1 CCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT-C-ATAAGG-AAAGATA
* *
65637460 CCATGTAAGACCATG-CTAAGGCATGGCATTGGTGAGTTCATATGGAAAGGATA
1 CCATGTAAGACCATGTC-AAGACATGGCATTGGTGAGTTCATAAGGAAA-GATA
* * * * *
65637513 CCACGTAAGACCATGTCAATACATGGCAATGGTAAGTTCAAAAAGGAAA
1 CCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC-ATAAGGAAA
65637562 AGGTTCCCGA
Statistics
Matches: 132, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
52 5 0.04
53 72 0.55
54 11 0.08
55 44 0.33
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (52 bp):
CCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGAAAGATA
Found at i:65637537 original size:108 final size:108
Alignment explanation
Indices: 65637345--65637540 Score: 317
Period size: 108 Copynumber: 1.8 Consensus size: 108
65637335 GGGGTGTTAC
*
65637345 AAAGGTCCCATGTAAGACCATGTCACAGCATGGCATTGGTGAGTTCATAAGGCAAAGATACCATG
1 AAAGGTCCCATGTAAGACCATGTCACAGCATGGCATTGGTGAGTTCATAAGGCAAAGATACCACG
65637410 TAAGACCATGTCAAGACATGGCATTCATGAGTTACTATAAGGA
66 TAAGACCATGTCAAGACATGGCATTCATGAGTTACTATAAGGA
*
65637453 AAAGGTCCCATGTAAGACCATG-CTA-AGGCATGGCATTGGTGAGTTCATATGG-AAAGGATACC
1 AAAGGTCCCATGTAAGACCATGTC-ACA-GCATGGCATTGGTGAGTTCATAAGGCAAA-GATACC
*
65637515 ACGTAAGACCATGTCAATACATGGCA
63 ACGTAAGACCATGTCAAGACATGGCA
65637541 ATGGTAAGTT
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
107 5 0.06
108 77 0.94
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (108 bp):
AAAGGTCCCATGTAAGACCATGTCACAGCATGGCATTGGTGAGTTCATAAGGCAAAGATACCACG
TAAGACCATGTCAAGACATGGCATTCATGAGTTACTATAAGGA
Found at i:65649268 original size:49 final size:50
Alignment explanation
Indices: 65649188--65649420 Score: 276
Period size: 49 Copynumber: 4.7 Consensus size: 50
65649178 ATCTATGGTG
*
65649188 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * *
65649238 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAA-TT
* * * * * * **
65649288 CGATCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTATC-AGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT
* *
65649338 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
*
65649388 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
65649421 TGCATACTAG
Statistics
Matches: 153, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
49 72 0.47
50 46 0.30
51 35 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
Found at i:65649379 original size:101 final size:98
Alignment explanation
Indices: 65649191--65649420 Score: 300
Period size: 101 Copynumber: 2.3 Consensus size: 98
65649181 TATGGTGAGG
* * *
65649191 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACAGAATAATTGGTCACATGTGTAGTACT
* *
65649256 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* ** *
65649291 TCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTATCAG-ATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CAGAATAATT-GGTCACATGTGTAGTA
* *
65649355 CTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* *
65649390 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
65649421 TGCATACTAG
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
99 29 0.25
100 41 0.36
101 44 0.39
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACAGAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:65651117 original size:14 final size:14
Alignment explanation
Indices: 65651093--65651127 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65651083 TTAAATATTT
65651093 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
65651106 ATAATGGTTTAATT
1 ATAATGGTTTAATC
65651120 ATAATGGT
1 ATAATGGT
65651128 ATATTCGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:65651889 original size:43 final size:43
Alignment explanation
Indices: 65651825--65652001 Score: 212
Period size: 43 Copynumber: 4.1 Consensus size: 43
65651815 TCTACTAAAA
* **
65651825 TTAGTGGTGTTTTTTGAGAAAAGCGTCGCTAAAGGTCATGTTCT
1 TTAGTGGCG-TTTTTGAGAAAAGCACCGCTAAAGGTCATGTTCT
* * *
65651869 TTAGTGGCATTTTTGAGAAAAGTACCGCTAAAGGTCATGCTCT
1 TTAGTGGCGTTTTTGAGAAAAGCACCGCTAAAGGTCATGTTCT
* * * ** *
65651912 TTAGCGGCGTTTGT-ATCAAAAGTGCCGCTAAAAGTCATGTTCT
1 TTAGTGGCGTTTTTGA-GAAAAGCACCGCTAAAGGTCATGTTCT
*
65651955 TTAGTGGCGTTTTTAAGAAAAGCACCGCTAAAGGTCATGTTCT
1 TTAGTGGCGTTTTTGAGAAAAGCACCGCTAAAGGTCATGTTCT
65651998 TTAG
1 TTAG
65652002 CGATGTTTGT
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 103 0.92
44 8 0.07
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
TTAGTGGCGTTTTTGAGAAAAGCACCGCTAAAGGTCATGTTCT
Found at i:65651988 original size:86 final size:86
Alignment explanation
Indices: 65651851--65652012 Score: 261
Period size: 86 Copynumber: 1.9 Consensus size: 86
65651841 AGAAAAGCGT
* * *
65651851 CGCTAAAGGTCATGTTCTTTAGTGGCATTTTTGAGAAAAGTACCGCTAAAGGTCATGCTCTTTAG
1 CGCTAAAAGTCATGTTCTTTAGTGGCATTTTTAAGAAAAGCACCGCTAAAGGTCATGCTCTTTAG
*
65651916 CGGCGTTTGTATCAAAAGTGC
66 CGACGTTTGTATCAAAAGTGC
* *
65651937 CGCTAAAAGTCATGTTCTTTAGTGGCGTTTTTAAGAAAAGCACCGCTAAAGGTCATGTTCTTTAG
1 CGCTAAAAGTCATGTTCTTTAGTGGCATTTTTAAGAAAAGCACCGCTAAAGGTCATGCTCTTTAG
*
65652002 CGATGTTTGTA
66 CGACGTTTGTA
65652013 ACGCCCTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (86 bp):
CGCTAAAAGTCATGTTCTTTAGTGGCATTTTTAAGAAAAGCACCGCTAAAGGTCATGCTCTTTAG
CGACGTTTGTATCAAAAGTGC
Found at i:65654418 original size:29 final size:29
Alignment explanation
Indices: 65654356--65654458 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
65654346 GTGACGAGAT
* * *
65654356 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
65654385 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
65654414 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
65654443 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65654459 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:65662435 original size:29 final size:29
Alignment explanation
Indices: 65662373--65662475 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
65662363 GTGACGAGAT
* * *
65662373 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
65662402 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
65662431 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
65662460 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65662476 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:65665973 original size:17 final size:19
Alignment explanation
Indices: 65665931--65665974 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65665921 ATGAAATTTT
*
65665931 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
65665950 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
65665968 AA-TATTA
1 AATTATTA
65665975 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:65667787 original size:28 final size:27
Alignment explanation
Indices: 65667755--65667822 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
65667745 GCGTAGATCA
65667755 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGC-AAATTAC
65667783 CGAAATTACCCCTAAAGAGCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAATTAC
*
65667810 CGATA-TACCCCTA
1 CGAAATTACCCCTA
65667823 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 11 0.28
28 20 0.51
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGCAAATTAC
Found at i:65670204 original size:17 final size:19
Alignment explanation
Indices: 65670162--65670205 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65670152 ATGAAATTTT
*
65670162 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
65670181 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
65670199 AA-TATTA
1 AATTATTA
65670206 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:65672031 original size:28 final size:27
Alignment explanation
Indices: 65671999--65672066 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
65671989 GCGTAGATCA
65671999 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGC-AAATTAC
65672027 CGAAATTACCCCTAAAGAGCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAATTAC
*
65672054 CGATA-TACCCCTA
1 CGAAATTACCCCTA
65672067 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 11 0.28
28 20 0.51
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGCAAATTAC
Found at i:65674449 original size:17 final size:19
Alignment explanation
Indices: 65674407--65674450 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65674397 ATGAAATTTT
*
65674407 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
65674426 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
65674444 AA-TATTA
1 AATTATTA
65674451 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:65676271 original size:28 final size:27
Alignment explanation
Indices: 65676239--65676306 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
65676229 GCGTAGATCA
65676239 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGC-AAATTAC
65676267 CGAAATTACCCCTAAAGAGCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAATTAC
*
65676294 CGATA-TACCCCTA
1 CGAAATTACCCCTA
65676307 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 11 0.28
28 20 0.51
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGCAAATTAC
Found at i:65680517 original size:27 final size:28
Alignment explanation
Indices: 65680452--65680521 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
65680442 AAATTTGTAC
65680452 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
65680480 AGCACTAAGTGTGCGAGTT-GATTATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
65680507 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65680522 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTGGATCATAT
Found at i:65680532 original size:27 final size:27
Alignment explanation
Indices: 65680452--65680533 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
65680442 AAATTTGTAC
* *
65680452 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
65680480 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
65680507 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
65680534 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 27 0.56
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:65685728 original size:44 final size:41
Alignment explanation
Indices: 65685692--65685770 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 41
65685682 TAAATGCAGA
65685692 ACACATATTAATGATGTTCAAACCATGACATAATT-AA-AG
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAATAG
* **
65685731 ACTCATATTAATGATGTTCAAATTATGACATAATTAAATA
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAATA
65685771 TACAAACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 32 0.91
40 2 0.06
41 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (41 bp):
ACACATATTAATGATGTTCAAACCATGACATAATTAAATAG
Found at i:65689255 original size:5 final size:5
Alignment explanation
Indices: 65689241--65689279 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
65689231 TGAGGTGAGT
*
65689241 ATTGA TATTGA ATTGA ATGGA ATTGA ATTGA ATTGA ATT
1 ATTGA -ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
65689280 ATGAATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATTGA
Found at i:65695270 original size:48 final size:48
Alignment explanation
Indices: 65695218--65695313 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
65695208 TTTCATTAGG
*
65695218 TAGGATTTTCAAAACTCTCTCTCTTTTGCATACACGTTCAATTTTTCT
1 TAGGATTTTCAAAACTCTCTCTCTTTTGCATACACGTTCAATATTTCT
*
65695266 TAGGATTTTCGAAACTCTCTCTCTTTTGCATACACGTTCAATATTTCT
1 TAGGATTTTCAAAACTCTCTCTCTTTTGCATACACGTTCAATATTTCT
65695314 ATCTCTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (48 bp):
TAGGATTTTCAAAACTCTCTCTCTTTTGCATACACGTTCAATATTTCT
Found at i:65695331 original size:9 final size:9
Alignment explanation
Indices: 65695317--65695355 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
65695307 TATTTCTATC
65695317 TCTTTTTCT
1 TCTTTTTCT
*
65695326 TCTTTTTCA
1 TCTTTTTCT
65695335 TCTTTTT-T
1 TCTTTTTCT
65695343 ATCTTTTTCT
1 -TCTTTTTCT
65695353 TCT
1 TCT
65695356 CTCACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 25 0.96
10 1 0.04
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:65703610 original size:44 final size:39
Alignment explanation
Indices: 65703574--65703656 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
65703564 TAAATGCAAA
65703574 ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
* *
65703613 ACTCATATTAATGATGTTCAAACTATGACATAATTAAAG
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
65703652 ACACA
1 ACACA
65703657 AACTAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (39 bp):
ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
Found at i:65707125 original size:56 final size:56
Alignment explanation
Indices: 65707045--65707161 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
65707035 ATATGAATGT
65707045 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATGAAA
1 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATGAAA
65707101 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATGAAA
1 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATGAAA
65707157 ATGCT
1 ATGCT
65707162 TACCCCCTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (56 bp):
ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATGAAA
Found at i:65715822 original size:20 final size:20
Alignment explanation
Indices: 65715797--65715842 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
65715787 GTATAGTACG
65715797 ACAAACCATAAATTTGTAGA
1 ACAAACCATAAATTTGTAGA
65715817 ACAAACCATAAATTTGTAGA
1 ACAAACCATAAATTTGTAGA
65715837 ACAAAC
1 ACAAAC
65715843 TAAAGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (20 bp):
ACAAACCATAAATTTGTAGA
Found at i:65731405 original size:21 final size:23
Alignment explanation
Indices: 65731370--65731416 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
65731360 TTTATTTTTT
65731370 TTAATATTGGTTGGATATTGAAA
1 TTAATATTGGTTGGATATTGAAA
*
65731393 TTAAT-TT-GTTGGATTTTGAAA
1 TTAATATTGGTTGGATATTGAAA
65731414 TTA
1 TTA
65731417 TTATGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (23 bp):
TTAATATTGGTTGGATATTGAAA
Found at i:65731438 original size:32 final size:32
Alignment explanation
Indices: 65731398--65731478 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
65731388 TGAAATTAAT
*
65731398 TTGTTGGATTTTGAAATTATTATGTTTTAAAG-
1 TTGTTGGATATTGAAATTATTATGTTTT-AAGC
*
65731430 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
65731462 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
65731479 GATTGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:65732512 original size:54 final size:54
Alignment explanation
Indices: 65732423--65732619 Score: 212
Period size: 54 Copynumber: 3.7 Consensus size: 54
65732413 ATATTCTTTA
*
65732423 ATGTGGTGTAGTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATC
1 ATGTGGTGTA--A-TACTAATTATGCACTTGGATAATATTATTAATTTTTAGTTATC
* * * * *
65732480 ATGTGGTGTAATACTAGTTATGCACTT--A-GATA--A-T-A-TTGTAGCTACC
1 ATGTGGTGTAATACTAATTATGCACTTGGATAATATTATTAATTTTTAGTTATC
* * *
65732526 ATATGGTGTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATC
1 ATGTGGTGTAATACTAATTATGCACTTGGATAATATTATTAATTTTTAGTTATC
* *
65732580 ATGTGGTGTAATACTAGTTATGCACTTGGAAAATATTATT
1 ATGTGGTGTAATACTAATTATGCACTTGGATAATATTATT
65732620 TTTATCATGT
Statistics
Matches: 113, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
46 31 0.27
47 1 0.01
48 2 0.02
49 4 0.04
51 4 0.04
52 2 0.02
53 1 0.01
54 57 0.50
55 1 0.01
57 10 0.09
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.44
Consensus pattern (54 bp):
ATGTGGTGTAATACTAATTATGCACTTGGATAATATTATTAATTTTTAGTTATC
Found at i:65732580 original size:100 final size:100
Alignment explanation
Indices: 65732433--65732616 Score: 350
Period size: 100 Copynumber: 1.8 Consensus size: 100
65732423 ATGTGGTGTA
65732433 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
1 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
*
65732498 TATGCACTTAGATAATATTGTAGCTACCATATGGT
66 TATGCACTTAGAAAATATTGTAGCTACCATATGGT
65732533 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
1 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
*
65732598 TATGCACTTGGAAAATATT
66 TATGCACTTAGAAAATATT
65732617 ATTTTTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (100 bp):
GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
TATGCACTTAGAAAATATTGTAGCTACCATATGGT
Found at i:65732635 original size:100 final size:100
Alignment explanation
Indices: 65732433--65732644 Score: 343
Period size: 100 Copynumber: 2.1 Consensus size: 100
65732423 ATGTGGTGTA
65732433 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
1 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
* * *
65732498 TATGCACTTAGATAATATTGTAGCTACCATATGGT
66 TATGCACTTAGAAAATATTATAGCTACCATATAGT
65732533 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
1 GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
* *** * *
65732598 TATGCACTTGGAAAATATTATTTTTATCATGTAGT
66 TATGCACTTAGAAAATATTATAGCTACCATATAGT
65732633 GTACTACTAATT
1 GTACTACTAATT
65732645 TATAATATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.44
Consensus pattern (100 bp):
GTACTACTAATTATGTACTTGGATAATATTATTAATTTTTAGTTATCATGTGGTGTAATACTAGT
TATGCACTTAGAAAATATTATAGCTACCATATAGT
Found at i:65732999 original size:20 final size:20
Alignment explanation
Indices: 65732974--65733016 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
65732964 TCAAACACCA
65732974 AAAAATG-TTAACTTTTCCAG
1 AAAAATGATTAAC-TTTCCAG
*
65732994 AAAAATGATTTACTTTCCAG
1 AAAAATGATTAACTTTCCAG
65733014 AAA
1 AAA
65733017 TCATTTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAAATGATTAACTTTCCAG
Found at i:65737712 original size:40 final size:40
Alignment explanation
Indices: 65737657--65737832 Score: 241
Period size: 40 Copynumber: 4.4 Consensus size: 40
65737647 GACGATAACG
* * *
65737657 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
65737697 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
65737737 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
65737777 GGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
65737817 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
65737833 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.13
40 108 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:65750491 original size:28 final size:29
Alignment explanation
Indices: 65750366--65750500 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
65750356 TACATACATG
* *
65750366 CATATGGCCCACTATGCCCAATCTCA-TTT
1 CATATGGCCCATTAGGCCCAAT-TCACTTT
*
65750395 -ATATGGCCCATCT-GGCCCAATTCACGTT
1 CATATGGCCCAT-TAGGCCCAATTCACTTT
* * * *
65750423 CAAATGACCCATCAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCACTTT
65750452 CATATGGCCCATTAGGCCCAATCTCA-TTT
1 CATATGGCCCATTAGGCCCAAT-TCACTTT
**
65750481 C-TATGGCCCATCCGGCCCAA
1 CATATGGCCCATTAGGCCCAA
65750501 ATCATATTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.03
28 36 0.41
29 46 0.52
30 3 0.03
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCACTTT
Found at i:65750726 original size:16 final size:16
Alignment explanation
Indices: 65750705--65750740 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
65750695 GTAGCCAAAC
65750705 TTTCAGTTTTTCAGCA
1 TTTCAGTTTTTCAGCA
*
65750721 TTTCAGTTTTTCAGTA
1 TTTCAGTTTTTCAGCA
65750737 TTTC
1 TTTC
65750741 GGCTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.56
Consensus pattern (16 bp):
TTTCAGTTTTTCAGCA
Found at i:65750747 original size:16 final size:16
Alignment explanation
Indices: 65750705--65750747 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
65750695 GTAGCCAAAC
*
65750705 TTTCAGTTTTTCAGCA
1 TTTCAGCTTTTCAGCA
* *
65750721 TTTCAGTTTTTCAGTA
1 TTTCAGCTTTTCAGCA
*
65750737 TTTCGGCTTTT
1 TTTCAGCTTTT
65750748 ACCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:65766608 original size:29 final size:29
Alignment explanation
Indices: 65766542--65766681 Score: 155
Period size: 29 Copynumber: 4.9 Consensus size: 29
65766532 TACATACATG
65766542 CATATGGCCCA-CTAGGCCCAATCTCA-TTT
1 CATATGGCCCATC-AGGCCCAAT-TCACTTT
* * * *
65766571 -ATATAGCCCATCCGACCCAATTCACGTT
1 CATATGGCCCATCAGGCCCAATTCACTTT
65766599 CATATGGCCCATCAGGCCCAATTCACTTT
1 CATATGGCCCATCAGGCCCAATTCACTTT
*
65766628 CATATGGCCCATTAGGCCCAATCTCA-TTT
1 CATATGGCCCATCAGGCCCAAT-TCACTTT
* *
65766657 C-TATGGCCCATCCGGCCCAAATCAC
1 CATATGGCCCATCAGGCCCAATTCAC
65766682 ATTATATTCA
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
27 6 0.06
28 35 0.37
29 50 0.53
30 3 0.03
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTCACTTT
Found at i:65766662 original size:57 final size:57
Alignment explanation
Indices: 65766542--65766688 Score: 158
Period size: 57 Copynumber: 2.6 Consensus size: 57
65766532 TACATACATG
*
65766542 CATATGGCCCA-CTAGGCCCAATCTCA-TTTATATAGCCCATCCGACCCAATTCACGTT
1 CATATGGCCCATC-AGGCCCAAT-TCACTTTATATAGCCCATCAGACCCAATTCACGTT
* * * *
65766599 CATATGGCCCATCAGGCCCAATTCACTTTCATATGGCCCATTAGGCCCAATCTCA-TTT
1 CATATGGCCCATCAGGCCCAATTCACTTT-ATATAGCCCATCAGACCCAAT-TCACGTT
* * *
65766657 C-TATGGCCCATCCGGCCCAAATCACATTATAT
1 CATATGGCCCATCAGGCCCAATTCACTTTATAT
65766689 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
56 7 0.09
57 47 0.60
58 21 0.27
59 3 0.04
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (57 bp):
CATATGGCCCATCAGGCCCAATTCACTTTATATAGCCCATCAGACCCAATTCACGTT
Found at i:65766771 original size:17 final size:17
Alignment explanation
Indices: 65766749--65766805 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
65766739 GCCTAATATA
65766749 GGCCCAATAGCCCCTCG
1 GGCCCAATAGCCCCTCG
65766766 GGCCCAATAGCCCCTCG
1 GGCCCAATAGCCCCTCG
65766783 GGCCCAATAGCCCCTCG
1 GGCCCAATAGCCCCTCG
*
65766800 TGCCCA
1 GGCCCA
65766806 TTTAGCCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.12
Consensus pattern (17 bp):
GGCCCAATAGCCCCTCG
Found at i:65776708 original size:46 final size:46
Alignment explanation
Indices: 65776641--65776766 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
65776631 AACCCGCCCC
* ***
65776641 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
65776687 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
65776733 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65776767 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65776785 original size:46 final size:45
Alignment explanation
Indices: 65776643--65776785 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
65776633 CCCGCCCCTA
* * * *
65776643 AGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** * *
65776688 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCTAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATC-CT
65776734 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
65776781 AGTGA
1 AGTGA
65776786 CATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 79 0.94
47 1 0.01
48 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:65777225 original size:30 final size:30
Alignment explanation
Indices: 65777191--65777250 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65777181 ATTTAATACG
65777191 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
65777221 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65777251 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65784206 original size:93 final size:93
Alignment explanation
Indices: 65784093--65784263 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
65784083 GCCCCTAAGT
* * * * * *
65784093 GAACTCGGACTCAACTCAACGAGGTCGGGCGTTCGCTTCCATAAGTTAACTTGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65784158 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* *
65784186 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAT
1 GAACTCGAACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
65784251 CGAGTTCGGATGC
66 CAAGTTCGGATGC
65784264 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65784255 original size:46 final size:46
Alignment explanation
Indices: 65784088--65784260 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
65784078 AACCCGCCCC
* * * *
65784088 TAAGTGAACTCGGACTCAACTCAACGAGGTCGGGCGTTCGCTTCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * * *
65784134 TAAGTTAACTTGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
65784182 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
65784227 TAAGTGAACTCGGACTCAACTCATCGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65784261 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.57
47 25 0.25
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65784279 original size:46 final size:45
Alignment explanation
Indices: 65784186--65784271 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
65784176 TACATCTCAC
* *
65784186 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* * *
65784232 GAACTCGGACTCAACTCATCGAGTTCGG-ATGCTCAACCAT
1 GAACTCGAACTCAACTCAACGAGTTCGGAATGCGCAACCAT
65784272 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
GAACTCGAACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:65784720 original size:30 final size:30
Alignment explanation
Indices: 65784686--65784745 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65784676 ATTTAATACG
65784686 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
65784716 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65784746 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.