Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 38 of 85
Found at i:12734028 original size:23 final size:22
Alignment explanation
Indices: 12733985--12734028 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
12733975 TTCTAAGTCG
12733985 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
12734008 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
12734029 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:12734137 original size:45 final size:45
Alignment explanation
Indices: 12734073--12734159 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
12734063 AACAGATACT
* *
12734073 CGGTGGATTCAGCACATAGCAACCACCTAATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGATGTC
* *
12734118 CGGTGGAATCAGCACATAGCAACCACCTTACTAATGAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGAT
12734160 TTTCGGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGATGTC
Found at i:12737468 original size:19 final size:19
Alignment explanation
Indices: 12737446--12737483 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12737436 TTAATCATCC
12737446 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
12737465 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
12737484 ACTCTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:12746945 original size:13 final size:13
Alignment explanation
Indices: 12746912--12746949 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
12746902 TTTTGTATGG
12746912 CTTTCTTTCTT-TT
1 CTTTCTTT-TTATT
12746925 CTTT-TTTTTATT
1 CTTTCTTTTTATT
12746937 CTTTCTTTTTATT
1 CTTTCTTTTTATT
12746950 ATACTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 9 0.39
13 12 0.52
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTCTTTTTATT
Found at i:12752480 original size:43 final size:43
Alignment explanation
Indices: 12752419--12752609 Score: 247
Period size: 43 Copynumber: 4.4 Consensus size: 43
12752409 TGTCCTAGAC
** **
12752419 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACA-CAAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
12752463 ATAGTCTTACACAAAATCTCAAATCGATGTCAATAGCCCAGCT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
* * * * * *
12752506 ACGGTCTCACACGAAATCTTAAATCGATGCCAATAACCCAACT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
12752549 ATGGTCTTACACGAAATCTCAAATCGATGCCAATATCCCAGCT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
12752592 ATGGTCTTACACAAAATC
1 ATGGTCTTACACAAAATC
12752610 ACACCTCAGA
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
43 117 0.92
44 10 0.08
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:12752796 original size:31 final size:30
Alignment explanation
Indices: 12752727--12752811 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
12752717 ATCCAATGCT
* * *
12752727 CAAACCAATTCGGCAATATATATATCCATATA
1 CAAATCAATTCGGC-A-ATGTATATCCACATA
* * *
12752759 CGAATCAAATTCGGTAATGTATATCTACATA
1 CAAATC-AATTCGGCAATGTATATCCACATA
12752790 CAAATCAATTCGGCAATGTATA
1 CAAATCAATTCGGCAATGTATA
12752812 AAACATATAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 15 0.34
31 17 0.39
32 5 0.11
33 7 0.16
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGGCAATGTATATCCACATA
Found at i:12752822 original size:31 final size:31
Alignment explanation
Indices: 12752727--12752822 Score: 79
Period size: 30 Copynumber: 3.1 Consensus size: 31
12752717 ATCCAATGCT
* * **
12752727 CAAACCAATTCGGCAATATATATATCCATATA
1 CAAATCAATTCGGCAATGTATA-AAACATATA
* * * *
12752759 CGAATCAAATTCGGTAATGTAT--ATCTACATA
1 CAAATC-AATTCGGCAATGTATAAAAC-ATATA
12752790 CAAATCAATTCGGCAATGTATAAAACATATA
1 CAAATCAATTCGGCAATGTATAAAACATATA
12752821 CA
1 CA
12752823 TTTAAATTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
30 15 0.31
31 15 0.31
32 6 0.12
33 13 0.27
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (31 bp):
CAAATCAATTCGGCAATGTATAAAACATATA
Found at i:12754305 original size:31 final size:31
Alignment explanation
Indices: 12754270--12754333 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
12754260 ACAAACATTA
12754270 CAAATTTCAATAATGCCAAGCCATCATATTC
1 CAAATTTCAATAATGCCAAGCCATCATATTC
*
12754301 CAAATTTCAATAATGTCAAGCCATCATATTC
1 CAAATTTCAATAATGCCAAGCCATCATATTC
12754332 CA
1 CA
12754334 CTATCAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (31 bp):
CAAATTTCAATAATGCCAAGCCATCATATTC
Found at i:12758425 original size:107 final size:107
Alignment explanation
Indices: 12758313--12758516 Score: 345
Period size: 107 Copynumber: 1.9 Consensus size: 107
12758303 GTTGAGGGTT
** *
12758313 AAATTTATTAACTTTTTAAAAATTAATACAAAATTGTAGAATGTATAAACATTGGAATCCATTAT
1 AAATTTATTAACTTTTTAAAAATTAATACAAAATTGTAGAATGTATAAACATTAAAAGCCATTAT
12758378 ACCAATCAAAAAGTAGTATAAATTAATGAAAATGTCGACATC
66 ACCAATCAAAAAGTAGTATAAATTAATGAAAATGTCGACATC
* *
12758420 AAATTTATTAATTTTTTAAAAATTAATACAAAATTTTAGAATGTATAAACATTAAAAGCCATTAT
1 AAATTTATTAACTTTTTAAAAATTAATACAAAATTGTAGAATGTATAAACATTAAAAGCCATTAT
* *
12758485 ATCAATCAAAAATTAGTATAAATTAATGAAAA
66 ACCAATCAAAAAGTAGTATAAATTAATGAAAA
12758517 AAGTGAAGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.34
Consensus pattern (107 bp):
AAATTTATTAACTTTTTAAAAATTAATACAAAATTGTAGAATGTATAAACATTAAAAGCCATTAT
ACCAATCAAAAAGTAGTATAAATTAATGAAAATGTCGACATC
Found at i:12760913 original size:12 final size:12
Alignment explanation
Indices: 12760896--12760920 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12760886 TCTAGGTTGG
12760896 AGGTATAAGGTT
1 AGGTATAAGGTT
12760908 AGGTATAAGGTT
1 AGGTATAAGGTT
12760920 A
1 A
12760921 ATGAAGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (12 bp):
AGGTATAAGGTT
Found at i:12769038 original size:20 final size:19
Alignment explanation
Indices: 12769009--12769050 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
12768999 TTTTCCAATT
12769009 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
12769028 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
12769048 TTT
1 TTT
12769051 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:12774640 original size:15 final size:15
Alignment explanation
Indices: 12774620--12774652 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12774610 TAATTCGAAT
12774620 ATACGATTGGTGTAA
1 ATACGATTGGTGTAA
*
12774635 ATACGATTGTTGTAA
1 ATACGATTGGTGTAA
12774650 ATA
1 ATA
12774653 TCCTTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (15 bp):
ATACGATTGGTGTAA
Found at i:12774795 original size:18 final size:18
Alignment explanation
Indices: 12774734--12774795 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
12774724 TTTATATCTC
12774734 AAAAAATTATAAAAAGCTTCT
1 AAAAAA-TATAAAAA-C-TCT
* *
12774755 AAATAATATATAAAAAATTT
1 AAA-AA-ATATAAAAACTCT
*
12774775 AAAAAGTATAAAAACTCT
1 AAAAAATATAAAAACTCT
12774793 AAA
1 AAA
12774796 CTCTTAACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 13 0.38
19 2 0.06
20 5 0.15
21 3 0.09
22 10 0.29
23 1 0.03
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAAAATATAAAAACTCT
Found at i:12780342 original size:6 final size:7
Alignment explanation
Indices: 12780327--12780351 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12780317 AAGTTTCTGA
12780327 TTTTATT
1 TTTTATT
12780334 TTTTATT
1 TTTTATT
12780341 TTTTATT
1 TTTTATT
12780348 TTTT
1 TTTT
12780352 GGCAGTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:12785920 original size:53 final size:53
Alignment explanation
Indices: 12785857--12785963 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
12785847 GGAAAGTAAG
* *
12785857 TCATTGTTATCTCTCAATTTTGAAACATTTTTCTTGTGTTTTGACATCATGAC
1 TCATTGTTATCTATCAATTTTGAAACATTTTTCTTATGTTTTGACATCATGAC
*
12785910 TCATTTTTATCTATCAATTTTGAAACATTTTTCTTATGTTTTGACATCATGAC
1 TCATTGTTATCTATCAATTTTGAAACATTTTTCTTATGTTTTGACATCATGAC
12785963 T
1 T
12785964 TCAAATTCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.50
Consensus pattern (53 bp):
TCATTGTTATCTATCAATTTTGAAACATTTTTCTTATGTTTTGACATCATGAC
Found at i:12787913 original size:20 final size:19
Alignment explanation
Indices: 12787883--12787933 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
12787873 TTGGAGCAGG
* *
12787883 AATATCAATACCTTAGGAA
1 AATATCGATACCTTAAGAA
12787902 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
12787922 AAGTATCGATAC
1 AA-TATCGATAC
12787934 TGGATTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:12790167 original size:20 final size:20
Alignment explanation
Indices: 12790142--12790180 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12790132 ATAATAATAT
12790142 TTTATTAAATAAAAATAATC
1 TTTATTAAATAAAAATAATC
12790162 TTTATTAAATAAAAATAAT
1 TTTATTAAATAAAAATAAT
12790181 ATTATAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTATTAAATAAAAATAATC
Found at i:12796163 original size:20 final size:19
Alignment explanation
Indices: 12796134--12796209 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
12796124 ATTTTAAAAT
*
12796134 CAAGTGAAAATGATTTTAA
1 CAAGTCAAAATGATTTTAA
*
12796153 CCAAGTCAAAATGATTTCAA
1 -CAAGTCAAAATGATTTTAA
* *
12796173 TCAAGTTAAAATCATTTTAA
1 -CAAGTCAAAATGATTTTAA
12796193 CACA-TCAAAATGATTTT
1 CA-AGTCAAAATGATTTT
12796210 CAAATGAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 13 0.28
20 34 0.72
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:12796212 original size:40 final size:40
Alignment explanation
Indices: 12796131--12796208 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
12796121 ATAATTTTAA
*
12796131 AATCAAGTGAAAATGATTTTAACCAAGTCAAAATGATTTC
1 AATCAAGTGAAAATCATTTTAACCAAGTCAAAATGATTTC
*
12796171 AATCAAGTTAAAATCATTTTAA-CACA-TCAAAATGATTT
1 AATCAAGTGAAAATCATTTTAACCA-AGTCAAAATGATTT
12796209 TCAAATGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 14 0.40
40 21 0.60
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (40 bp):
AATCAAGTGAAAATCATTTTAACCAAGTCAAAATGATTTC
Found at i:12797086 original size:17 final size:18
Alignment explanation
Indices: 12797064--12797098 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12797054 CTCTAAATTC
12797064 TTTTTGTCATTG-TTTCA
1 TTTTTGTCATTGCTTTCA
*
12797081 TTTTTGTCTTTGCTTTCA
1 TTTTTGTCATTGCTTTCA
12797099 CCAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.09, C:0.14, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTTGTCATTGCTTTCA
Found at i:12804112 original size:23 final size:23
Alignment explanation
Indices: 12804080--12804129 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
12804070 GTTCATACGG
* *
12804080 CTACTGTAATATCCCAAAAATTA
1 CTACTATAATACCCCAAAAATTA
12804103 CTACTATAATACCCCAAAAATTA
1 CTACTATAATACCCCAAAAATTA
12804126 CTAC
1 CTAC
12804130 AGTAAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (23 bp):
CTACTATAATACCCCAAAAATTA
Found at i:12815794 original size:13 final size:13
Alignment explanation
Indices: 12815756--12815794 Score: 64
Period size: 12 Copynumber: 3.2 Consensus size: 13
12815746 CTATAGACTA
12815756 TTTAA-ATTTGGT
1 TTTAATATTTGGT
12815768 TTTAATATTT-GT
1 TTTAATATTTGGT
12815780 TTTAATATTTGGT
1 TTTAATATTTGGT
12815793 TT
1 TT
12815795 GGGCCCTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (13 bp):
TTTAATATTTGGT
Found at i:12817073 original size:43 final size:44
Alignment explanation
Indices: 12816982--12817082 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 44
12816972 ATGTGATTTC
* *
12816982 ATGTAAGACCATATCTAGGACATTGGCATCGAAGTGAGAGAACG
1 ATGTAAGACCATATCTAGGACAGTGGCATCGAAATGAGAGAACG
* * * **
12817026 -TGTAAGACCATGTCTGGGACAGTGGCATCGAAATGTGTTAA-G
1 ATGTAAGACCATATCTAGGACAGTGGCATCGAAATGAGAGAACG
12817068 ATGTAAGACCATATC
1 ATGTAAGACCATATC
12817083 CGGAATATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (44 bp):
ATGTAAGACCATATCTAGGACAGTGGCATCGAAATGAGAGAACG
Found at i:12820500 original size:52 final size:52
Alignment explanation
Indices: 12820422--12820525 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
12820412 TCATGCTCAA
*
12820422 TTAATCTCCGGTTTAGCTCAGTTATCATTCCCATCGAGAATCTTGAGAAATG
1 TTAATCTCCAGTTTAGCTCAGTTATCATTCCCATCGAGAATCTTGAGAAATG
* *
12820474 TTAATCTCCATTTTAGCTC-GATTATCATTCCGATCGAGAATCTTGAGAAATG
1 TTAATCTCCAGTTTAGCTCAG-TTATCATTCCCATCGAGAATCTTGAGAAATG
12820526 AACCCGTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 1 0.02
52 47 0.98
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (52 bp):
TTAATCTCCAGTTTAGCTCAGTTATCATTCCCATCGAGAATCTTGAGAAATG
Found at i:12822052 original size:22 final size:22
Alignment explanation
Indices: 12822027--12822166 Score: 84
Period size: 22 Copynumber: 6.3 Consensus size: 22
12822017 AAAAATGAAT
* *
12822027 AGCATTTAACCAACATTCGGAC
1 AGCATTTAAACAACATTCAGAC
*
12822049 AGCATTTAAATAACATTCAGAC
1 AGCATTTAAACAACATTCAGAC
* ** * ** * *
12822071 AACATTAGTATGCTAAAAAACAAAA
1 AGCATT--TAAAC-AACATTCAGAC
* * *
12822096 AACATTTAACCAACATTCGGAC
1 AGCATTTAAACAACATTCAGAC
* *
12822118 AGCATTTAACCAACATTCGGAC
1 AGCATTTAAACAACATTCAGAC
*
12822140 AGCATTT-AACAACATTCGGAC
1 AGCATTTAAACAACATTCAGAC
*
12822161 AACATT
1 AGCATT
12822167 AGTATGCTAA
Statistics
Matches: 92, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
21 18 0.20
22 57 0.62
23 3 0.03
24 2 0.02
25 12 0.13
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
AGCATTTAAACAACATTCAGAC
Found at i:12822090 original size:69 final size:69
Alignment explanation
Indices: 12821999--12822145 Score: 204
Period size: 69 Copynumber: 2.1 Consensus size: 69
12821989 CACCAATTTG
** * * *
12821999 GACAACATTAAAATGCTAAAAAATGAATAGCATTTAACCAACATTCGGACAGCATTTAAATAACA
1 GACAACATTAAAATGCTAAAAAACAAAAAACATTTAACCAACATTCGGACAGCATTTAAACAACA
12822064 TTCA
66 TTCA
** *
12822068 GACAACATTAGTATGCTAAAAAACAAAAAACATTTAACCAACATTCGGACAGCATTTAACCAACA
1 GACAACATTAAAATGCTAAAAAACAAAAAACATTTAACCAACATTCGGACAGCATTTAAACAACA
*
12822133 TTCG
66 TTCA
*
12822137 GACAGCATT
1 GACAACATT
12822146 TAACAACATT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (69 bp):
GACAACATTAAAATGCTAAAAAACAAAAAACATTTAACCAACATTCGGACAGCATTTAAACAACA
TTCA
Found at i:12822219 original size:11 final size:11
Alignment explanation
Indices: 12822205--12822242 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
12822195 AGCATTTAAC
12822205 CAACATTCAGA
1 CAACATTCAGA
* *
12822216 CAACATTTAAA
1 CAACATTCAGA
12822227 CAACATTCAGA
1 CAACATTCAGA
12822238 CAACA
1 CAACA
12822243 CCTTGTCATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.18
Consensus pattern (11 bp):
CAACATTCAGA
Found at i:12822222 original size:22 final size:22
Alignment explanation
Indices: 12822192--12822242 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
12822182 GAAATACTCG
* *
12822192 GACAGCATTTAACCAACATTCA
1 GACAACATTTAAACAACATTCA
12822214 GACAACATTTAAACAACATTCA
1 GACAACATTTAAACAACATTCA
12822236 GACAACA
1 GACAACA
12822243 CCTTGTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.25, G:0.08, T:0.20
Consensus pattern (22 bp):
GACAACATTTAAACAACATTCA
Found at i:12829807 original size:22 final size:22
Alignment explanation
Indices: 12829782--12830084 Score: 216
Period size: 22 Copynumber: 13.4 Consensus size: 22
12829772 GTTAAAACAT
12829782 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
12829804 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* **
12829826 GGACAGCATTTAAAAAACATTC
1 GAACAGCATTTAACCAACATTC
* * * * **
12829848 GAACAACATTAGTATGCTAAAAAAC
1 GAACAGCATT--TA-ACCAACATTC
*
12829873 GAATAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* * * *
12829895 GGACAACATTTAAACAAAATTC
1 GAACAGCATTTAACCAACATTC
* * * **
12829917 -AGACAGCATTAGTATGCTAAAAAAC
1 GA-ACAGCATT--TA-ACCAACATTC
12829942 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
*
12829964 GAACAACATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* * * *
12829986 GGACAACATTAGTATGATACAA-AAT-
1 GAACAGCATT--TA--A-CCAACATTC
12830011 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
*
12830033 GAACAGCATTTAACCAACATTT
1 GAACAGCATTTAACCAACATTC
* * *
12830055 GGATAGCATTTAAACAACATTC
1 GAACAGCATTTAACCAACATTC
*
12830077 GAATAGCA
1 GAACAGCA
12830085 CCCTGTCATC
Statistics
Matches: 217, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
20 3 0.01
21 3 0.01
22 159 0.73
23 6 0.03
24 6 0.03
25 33 0.15
26 4 0.02
27 3 0.01
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (22 bp):
GAACAGCATTTAACCAACATTC
Found at i:12829858 original size:91 final size:91
Alignment explanation
Indices: 12829759--12829926 Score: 246
Period size: 91 Copynumber: 1.8 Consensus size: 91
12829749 ACTGATTTGG
* * * * * *
12829759 ACAACATTAATATGTTAAAACATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
1 ACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTCGAACAACATTTAAACAAAAT
*
12829824 TCGGACAGCATTTAAAAAACATTCGA
66 TCAGACAGCATTTAAAAAACATTCGA
* * *
12829850 ACAACATTAGTATGCTAAAAAACGAATAGCATTTAACCAACATTCGGACAACATTTAAACAAAAT
1 ACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTCGAACAACATTTAAACAAAAT
12829915 TCAGACAGCATT
66 TCAGACAGCATT
12829927 AGTATGCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 67 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (91 bp):
ACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTCGAACAACATTTAAACAAAAT
TCAGACAGCATTTAAAAAACATTCGA
Found at i:12830046 original size:69 final size:69
Alignment explanation
Indices: 12829803--12830053 Score: 367
Period size: 69 Copynumber: 3.6 Consensus size: 69
12829793 AACCAACATT
* * * *
12829803 CGAACAGCATTTAACCAACATTCGGACAGCATTTAAAAAACATTCGAACAACATTAGTATGCTAA
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
12829868 AAAA
66 AAAA
* * * * *
12829872 CGAATAGCATTTAACCAACATTCGGACAACATTTAAACAAAATTCAGACAGCATTAGTATGCTAA
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
12829937 AAAA
66 AAAA
* * *
12829941 CGAACAGCATTTAACCAACATTCGAACAACATTTAACCAACATTCGGACAACATTAGTATGATAC
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
12830006 AAAA
66 AAAA
* * *
12830010 TGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACATT
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATT
12830054 TGGATAGCAT
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 165 1.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.23
Consensus pattern (69 bp):
CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
AAAA
Found at i:12830765 original size:42 final size:43
Alignment explanation
Indices: 12830713--12830798 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
12830703 TACATGTATA
* *
12830713 ATATATCGATGCCACTATCTCAGACAG-GGTCTTACACGAAATC
1 ATATATCGATGCCAATATCCCAGAC-GTGGTCTTACACGAAATC
* * *
12830756 ATATA-CGATGCTAATGTCCCAGACGTGGTCTTACATGAAATC
1 ATATATCGATGCCAATATCCCAGACGTGGTCTTACACGAAATC
12830798 A
1 A
12830799 CACTTTGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.03
42 31 0.84
43 5 0.14
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATATATCGATGCCAATATCCCAGACGTGGTCTTACACGAAATC
Found at i:12836425 original size:30 final size:30
Alignment explanation
Indices: 12836352--12836426 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
12836342 AAGCTACCCT
* * *
12836352 TTTTCATAATATAATGGTCGTCACCATCCC
1 TTTTCATAATTTGATGGTCATCACCATCCC
**
12836382 TTTTCATTGTTTGATGGTCATCACCATCCC
1 TTTTCATAATTTGATGGTCATCACCATCCC
*
12836412 TTTTCCTAATTTGAT
1 TTTTCATAATTTGAT
12836427 AGCAAAAGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTTCATAATTTGATGGTCATCACCATCCC
Found at i:12836486 original size:30 final size:29
Alignment explanation
Indices: 12836437--12836517 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
12836427 AGCAAAAGTT
12836437 ATCCCTTTTCACAGATCGATAGCCGAAGCC
1 ATCCCTTTTCACA-ATCGATAGCCGAAGCC
* * * *
12836467 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
1 ATCCCTTTTCACAA-TCGATAGCCG-AAGCC
12836497 ATCCCTTTTCACAATCGATAG
1 ATCCCTTTTCACAATCGATAG
12836518 TTTATAGTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.16
30 35 0.81
31 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (29 bp):
ATCCCTTTTCACAATCGATAGCCGAAGCC
Found at i:12838847 original size:28 final size:28
Alignment explanation
Indices: 12838807--12838863 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
12838797 CAAGTTGATA
12838807 TTCTGACCTTTTGTTATGAGATTTGCAG
1 TTCTGACCTTTTGTTATGAGATTTGCAG
*
12838835 TTCTGGCCTTTTGTTATGAGATTTGCAG
1 TTCTGACCTTTTGTTATGAGATTTGCAG
12838863 T
1 T
12838864 GACTACCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (28 bp):
TTCTGACCTTTTGTTATGAGATTTGCAG
Found at i:12844997 original size:162 final size:162
Alignment explanation
Indices: 12844726--12845053 Score: 469
Period size: 162 Copynumber: 2.0 Consensus size: 162
12844716 ACAATGAATG
* * * * *
12844726 AGGCAGAGACCGAGGGAACGAACCTGACTATAGAAACATCGTTGTTGGGCAAGATGAAGGATATT
1 AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAACATCGTTGTTGCGCAAAATGAAGGATATC
* * *
12844791 GAGAAGTTGGCCAATTCCATCAACAATAAACAGATCAAGCTTGTCTCTAAAATAGAGGATATGGG
66 AAGAAGTTGGCCAATTCCATCAACAATAAACAGATCAAGCTTGTCGCTAAAATAGAGGATATGGA
**
12844856 CAGATCACAAAATTTGTTCTACGTTTATACCA
131 CAGATCACAAAATTTGTTCTACACTTATACCA
* *
12844888 AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAATATTGTTGTTGCGCAAAATGAAGGATATC
1 AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAACATCGTTGTTGCGCAAAATGAAGGATATC
* * * *
12844953 AAGAAGTTGGTCAATTCCATCAACAATAAGA-TGATCAGGCTTGTCGCTACAATAGAGGATATGG
66 AAGAAGTTGGCCAATTCCATCAACAATAA-ACAGATCAAGCTTGTCGCTAAAATAGAGGATATGG
* * *
12845017 ATAGATCACAAAATTTTTTGTACACTTATACCA
130 ACAGATCACAAAATTTGTTCTACACTTATACCA
12845050 AGGC
1 AGGC
12845054 CTATAACAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
162 145 0.99
163 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (162 bp):
AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAACATCGTTGTTGCGCAAAATGAAGGATATC
AAGAAGTTGGCCAATTCCATCAACAATAAACAGATCAAGCTTGTCGCTAAAATAGAGGATATGGA
CAGATCACAAAATTTGTTCTACACTTATACCA
Found at i:12852095 original size:16 final size:17
Alignment explanation
Indices: 12852069--12852113 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
12852059 GTTTAATTGG
*
12852069 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
12852086 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
12852102 TTTAGTTATTTA
1 TTTAGTTGTTTA
12852114 GGTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:12853273 original size:112 final size:112
Alignment explanation
Indices: 12853076--12853299 Score: 421
Period size: 112 Copynumber: 2.0 Consensus size: 112
12853066 GACCTGCAAA
12853076 CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
1 CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
12853141 TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
66 TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
* *
12853188 CTTTTACTAAAGTGAATTTTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCTGATGGACCA
1 CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
*
12853253 TCATAACTTGTATCCGGCTCACTTTATTTGCAACATACAGGCACAAG
66 TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
12853300 GGCCTTTTCA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (112 bp):
CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
Found at i:12853522 original size:28 final size:28
Alignment explanation
Indices: 12853451--12853555 Score: 99
Period size: 28 Copynumber: 3.8 Consensus size: 28
12853441 CACAAAAATA
* *
12853451 GTCCTGGCGGACTTCCACATTTAAGATC
1 GTCCTGACGAACTTCCACATTTAAGATC
* * * *
12853479 GACCTAACGGAGTTCCACATTTAAGATC
1 GTCCTGACGAACTTCCACATTTAAGATC
*
12853507 GTGCTGACGAACTTCCACA--TAAGATC
1 GTCCTGACGAACTTCCACATTTAAGATC
* *
12853533 ATCCTGGC-AGACTTCCACATTTA
1 GTCCTGACGA-ACTTCCACATTTA
12853556 CAGTAATTCC
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 21 0.34
28 40 0.65
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (28 bp):
GTCCTGACGAACTTCCACATTTAAGATC
Found at i:12853881 original size:18 final size:19
Alignment explanation
Indices: 12853848--12853883 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12853838 ATTCACCTAA
12853848 ACCCAATCCAAACCCAATT
1 ACCCAATCCAAACCCAATT
*
12853867 ACCCAA-CCCAACCCAAT
1 ACCCAATCCAAACCCAAT
12853884 CATAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (19 bp):
ACCCAATCCAAACCCAATT
Found at i:12853976 original size:9 final size:9
Alignment explanation
Indices: 12853962--12854028 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
12853952 GTAGTGATTA
*
12853962 AATTCGGGT
1 AATTCGGTT
12853971 AATTCGGTT
1 AATTCGGTT
***
12853980 AATTTAATT
1 AATTCGGTT
* *
12853989 AATTAGGGT
1 AATTCGGTT
12853998 AATTCGGTT
1 AATTCGGTT
12854007 AATTCGGTT
1 AATTCGGTT
*
12854016 AATTCGATT
1 AATTCGGTT
12854025 AATT
1 AATT
12854029 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:12864339 original size:40 final size:43
Alignment explanation
Indices: 12864289--12864387 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 43
12864279 AATTATTATA
12864289 AATA-TCTTATTGTTAACAATA-TT-TTTAATCTAAA-ATTTT
1 AATATTCTTATTGTTAACAATATTTATTTAATCTAAATATTTT
* ***
12864328 AATATTCTTATTTTTTGTAATATTTATTTAATCTAAATTATTTT
1 AATATTCTTATTGTTAACAATATTTATTTAATCTAAA-TATTTT
*
12864372 -ATATTTTTATTGTTAA
1 AATATTCTTATTGTTAA
12864388 TGACATTATC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.09
40 13 0.28
41 2 0.04
42 11 0.23
43 12 0.26
44 5 0.11
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (43 bp):
AATATTCTTATTGTTAACAATATTTATTTAATCTAAATATTTT
Found at i:12867445 original size:31 final size:30
Alignment explanation
Indices: 12867408--12867497 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
12867398 AATAAACACA
*
12867408 AAAAAAATTTCAGAAAATTAAAAAATATATTTT
1 AAAAATATTTCA-AAAA-TAAAAAA-ATATTTT
* *
12867441 AAAAATATTTTAAAAATAAAAAAGTATTTT
1 AAAAATATTTCAAAAATAAAAAAATATTTT
* * *
12867471 -AAAATATTTTTAAAAATACAAATATAT
1 AAAAATA-TTTCAAAAATAAAAAAATAT
12867498 ATTTCGGGCG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.12
30 23 0.46
31 7 0.14
32 4 0.08
33 10 0.20
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAATATTTCAAAAATAAAAAAATATTTT
Found at i:12867450 original size:11 final size:11
Alignment explanation
Indices: 12867429--12867488 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
12867419 AGAAAATTAA
12867429 AAAATATATTTT
1 AAAA-ATATTTT
12867441 AAAAATATTTT
1 AAAAATATTTT
12867452 AAAAATA----
1 AAAAATATTTT
12867459 AAAAAGTATTTT
1 AAAAA-TATTTT
12867471 -AAAATATTTTT
1 AAAAATA-TTTT
12867482 AAAAATA
1 AAAAATA
12867489 CAAATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
10 2 0.05
11 22 0.54
12 10 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:12867469 original size:30 final size:31
Alignment explanation
Indices: 12867421--12867501 Score: 103
Period size: 30 Copynumber: 2.6 Consensus size: 31
12867411 AAAATTTCAG
*
12867421 AAAATTAAAAAATATATTTTAAAA-ATATTTT
1 AAAAATAAAAAATATATTTTAAAATAT-TTTT
*
12867452 AAAAATAAAAAA-GTATTTTAAAATATTTTT
1 AAAAATAAAAAATATATTTTAAAATATTTTT
*
12867482 AAAAATACAAATATATATTT
1 AAAAATA-AAAAATATATTT
12867502 CGGGCGGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 21 0.49
31 17 0.40
32 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAAATAAAAAATATATTTTAAAATATTTTT
Found at i:12868001 original size:69 final size:69
Alignment explanation
Indices: 12867927--12868057 Score: 201
Period size: 71 Copynumber: 1.9 Consensus size: 69
12867917 AACAACGACA
* *
12867927 ATTTTTTTAGTGAACTGGAAA-TTTTTTTCATAGTTATCATAATTCTAGTTACATGAATAATTTA
1 ATTTTTTGAGTGAACTGCAAAGTTTTTTTCATAGTTATCATAATTCTAGTTACATG-ATAATTTA
12867991 TCATT
65 TCATT
* *
12867996 ATTTTTTGAGTGATCTGCAAAGTTTTTTTTTATAGTTATCATAATTCTAGTTACATGATAAT
1 ATTTTTTGAGTGAACTGCAAAG-TTTTTTTCATAGTTATCATAATTCTAGTTACATGATAAT
12868058 GATACTAACT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 18 0.32
70 5 0.09
71 33 0.59
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (69 bp):
ATTTTTTGAGTGAACTGCAAAGTTTTTTTCATAGTTATCATAATTCTAGTTACATGATAATTTAT
CATT
Found at i:12872360 original size:302 final size:293
Alignment explanation
Indices: 12871676--12872590 Score: 895
Period size: 299 Copynumber: 3.1 Consensus size: 293
12871666 CTAAAGCTTT
* * *
12871676 ATTTTAATTTTATTATGCACATTTTATTA-TTTCCATTAATTGTATATTTATCT--ATACTATTA
1 ATTTTAATTTTATTATGCACACTTTATTACTTT-CATAAATTGTATATTTATATACATACTATTA
* * *
12871738 TTTAAGCT-T-A---GTTGGTGTCACCCTCAACC-AGGTCTCAAAC-TCGATTAGGAAAATTATG
65 TTTAAGCTCTGACTGGTTGGTGTCACCCTCAACCGAGGTCACCAACTTAG-TTAGGAAAATTATG
* * *
12871796 GAAATGCCCTTTCGTAATTAAAATAAGTTATACTACTTGATGGTACTTTAGTC-TTTTA-TT--A
129 GAAATGTCCTTTCGTAATTAAAATAAGTTATATTACTT-AAGGTACTTTAGTCTTTTTATTTAAA
* * * *
12871857 AAAATAAAAAAAAATGCATATAGTGGGATTTGAACCCGAAA-CAATT-CTATTAATAAAATTTTA
193 AAAATAATAAAAAATGCAT-TTGT-GGATTTGAACCC-AAACCAATTGC-ATTAGTAAAACTTTA
* * * * *
12871920 ATTTACCACTTACCTAAAGCATTATTCCGATATTATTTTTTTAT
254 ATTTACCACTCAACTAAAGCTTTATT---ATAATA-TTTTTTAC
* * * * * * *
12871964 ATTTTAATTTTA-TA--CACTCTTTATTATTTTTATCAATTGTATA-TT-TGTACTTACTTTTAT
1 ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTGTATATTTATATACATACTATTAT
* * * * **
12872024 TTAAGCTCTTGACTGAATCGGTGTCACCCTCAACCGACGTCACCAACTTAGTTAGAAAAATTACA
66 TTAAGCTC-TGACTG-GTTGGTGTCACCCTCAACCGAGGTCACCAACTTAGTTAGGAAAATTATG
* * * *
12872089 AAAATATCCTTTCGTGATTAAAATAATTTATATTACTTAAGGTACTTTAGTCTTTTTTATTTTAA
129 GAAATGTCCTTTCGTAATTAAAATAAGTTATATTACTTAAGGTACTTTAGTC-TTTTTA-TTTAA
* * *
12872154 AAAAATAATAGAAAAATGTATTTGGTAAGATTTGAACCCAAACCAATTGCATTAGTAAAACTTAC
192 AAAAATAATA-AAAAATGCATTT-GT-GGATTTGAACCCAAACCAATTGCATTAGTAAAACTT-T
* *
12872219 AATTTACCAATCAACTAAAGGTTTATTATAATATTTTTTAC
253 AATTTACCACTCAACTAAAGCTTTATTATAATATTTTTTAC
*
12872260 ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTTTATATTATATATACATACTATTA
1 ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTGTATATT-TATATACATACTATTA
* *
12872325 TTTAAGCTTCTGACTGGGTTGGTGTCACCCTCAACCG-GGTCACCAACTTGGTTAGGGAAATTAT
65 TTTAAGC-TCTGACT-GGTTGGTGTCACCCTCAACCGAGGTCACCAACTTAGTTAGGAAAATTAT
* * * *
12872389 GGAAATGTCTTTTCATAATTAAAATAAGTTATATTACTTGAGAGTAGTTTAGTCTTTTTATTTAA
128 GGAAATGTCCTTTCGTAATTAAAATAAGTTATATTACTTAAG-GTACTTTAGTCTTTTTATTTAA
** * * *
12872454 AAAACCAATAAAAAATACATCTTGTGGAATTTGAACGCGAACCAATTGCATTAGTAAAACCTTTA
192 AAAAATAATAAAAAATGCAT-TTGTGG-ATTTGAACCCAAACCAATTGCATTAGTAAAA-CTTTA
* * *
12872519 ATTTACTACTCATCTAAAGCTTTATT-TAAATAATTTTATAC
254 ATTTACCACTCAACTAAAGCTTTATTAT-AAT-ATTTTTTAC
* * *
12872560 ATTTTAATTATATTATGTACACGTTATTACT
1 ATTTTAATTTTATTATGCACACTTTATTACT
12872591 CGAGATTGAT
Statistics
Matches: 512, Mismatches: 78, Indels: 62
0.79 0.12 0.10
Matches are distributed among these distances:
283 2 0.00
284 2 0.00
285 36 0.07
286 3 0.01
287 3 0.01
288 13 0.03
292 30 0.06
293 51 0.10
294 7 0.01
296 21 0.04
297 7 0.01
298 15 0.03
299 127 0.25
300 78 0.15
301 63 0.12
302 51 0.10
303 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (293 bp):
ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTGTATATTTATATACATACTATTAT
TTAAGCTCTGACTGGTTGGTGTCACCCTCAACCGAGGTCACCAACTTAGTTAGGAAAATTATGGA
AATGTCCTTTCGTAATTAAAATAAGTTATATTACTTAAGGTACTTTAGTCTTTTTATTTAAAAAA
ATAATAAAAAATGCATTTGTGGATTTGAACCCAAACCAATTGCATTAGTAAAACTTTAATTTACC
ACTCAACTAAAGCTTTATTATAATATTTTTTAC
Found at i:12875021 original size:3 final size:3
Alignment explanation
Indices: 12875013--12875041 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12875003 CATCGCTACT
12875013 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12875042 TCACTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12886313 original size:13 final size:14
Alignment explanation
Indices: 12886284--12886339 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
12886274 TAAATATATT
*
12886284 TTTTTAATTTTTAA
1 TTTTTAATTTATAA
12886298 TTTTTAATTTAT-A
1 TTTTTAATTTATAA
* *
12886311 TTTGTAATTAATAA
1 TTTTTAATTTATAA
*
12886325 CTTTTTTATTTATAA
1 -TTTTTAATTTATAA
12886340 AATCATATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.32
14 12 0.35
15 11 0.32
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTAATTTATAA
Found at i:12899707 original size:44 final size:44
Alignment explanation
Indices: 12899663--12900152 Score: 406
Period size: 44 Copynumber: 11.1 Consensus size: 44
12899653 AAAAGTATAG
** * * * *
12899663 GATTCGTTGTTTTAATCCGCTTCACTGTAACTTCAGGGAGATAG
1 GATTCGTTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
** * *
12899707 GATT-AATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
1 GATTCGTTA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
12899751 GATT-GGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAA
1 GATTCGTTA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AA
* *
12899796 GTTTGCG--ACTTTAATCTGCTCCACTGCAACTTCAGTGAGATAA
1 GATT-CGTTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
12899839 GA-TCTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAGATAG
1 GATTC-GTTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
12899883 GATT-ATTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
1 GATTCGTT-ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * * *
12899927 GATTTGATATCTTCAGTCTGCTCCATTGCAACTTCAGGGATATAA
1 GATTCGTTA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
12899972 GACTC-TCTATCTTTAATCCGCTCCACTGCAACTTTAGGGAGATAG
1 GATTCGT-TA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
12900017 GATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGTGAGATAA
1 GATTCGTT-ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
12900061 GA-TCTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG
1 GATTC-GTTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
12900105 GATT-ATTGGCTTTAATCTGTTCCACTGCAACTTTAGGGAGATAA
1 GATTCGTT-ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
12900149 GATT
1 GATT
12900153 TGCCATTTTC
Statistics
Matches: 358, Mismatches: 70, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 7 0.02
44 269 0.75
45 78 0.22
47 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
GATTCGTTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:12899783 original size:88 final size:88
Alignment explanation
Indices: 12899541--12900152 Score: 493
Period size: 88 Copynumber: 6.9 Consensus size: 88
12899531 ATCTTTAGTT
* * *
12899541 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGATATCTTCAATCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTTAATCTGCTCCACTGCAACTTCAGG
* *
12899606 GAGATAAGACCTTCTATGGTAGGTTTAAT-
65 GAGATAAGA---T-TA--CTAGCTTTAATC
* * ** * * * * * *
12899635 TCGAC-CTATTGCAACTTCA-AAAGTATAGGATTCGT-TGTTTTAATCCGCTTCACTGTAACTTC
1 T-G-CTCCACTGCAACTTCAGGGAG-ATAAGATTGGTAT-CTTTAATCTGCTCCACTGCAACTTC
* * *
12899697 AGGGAGATAGGATTAATAGCTTCAATC
62 AGGGAGATAAGATTACTAGCTTTAATC
* * *
12899724 TGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTTAATCTGCTCCACTGCAACTTCAGGG
* * *
12899789 AGATAAAGTTTGCGA-CTTTAATC
66 AGAT-AAGATTACTAGCTTTAATC
* * * *
12899812 TGCTCCACTGCAACTTCAGTGAGATAAGATCT-GTAACTTTAATCCGCTCCACTGCAACTTTAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTATCTTTAATCTGCTCCACTGCAACTTCAGG
* * *
12899876 GAGATAGGATTATTGGCTTTAATC
65 GAGATAAGATTACTAGCTTTAATC
* * * * * *
12899900 TGTTCCACTGCAACTTCAGGGAAATAAGATTTGATATCTTCAGTCTGCTCCATTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTTAATCTGCTCCACTGCAACTTCAGG
* *
12899965 GATATAAGACTCT-CTATCTTTAATC
65 GAGATAAGA-T-TACTAGCTTTAATC
* * * ** ** *
12899990 CGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGTG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTTAATCTGCTCCACTGCAACTTCAGGG
* *
12900055 AGATAAGATCT-GTAACTTTAATC
66 AGATAAGAT-TACTAGCTTTAATC
* * * ** ** * *
12900078 CGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTTAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTTAATCTGCTCCACTGCAACTTCAGGG
12900143 AGATAAGATT
66 AGATAAGATT
12900153 TGCCATTTTC
Statistics
Matches: 418, Mismatches: 85, Indels: 37
0.77 0.16 0.07
Matches are distributed among these distances:
87 6 0.01
88 240 0.57
89 78 0.19
90 36 0.09
91 2 0.00
93 1 0.00
94 37 0.09
95 17 0.04
96 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTTAATCTGCTCCACTGCAACTTCAGGG
AGATAAGATTACTAGCTTTAATC
Found at i:12900035 original size:222 final size:220
Alignment explanation
Indices: 12899541--12900154 Score: 726
Period size: 222 Copynumber: 2.7 Consensus size: 220
12899531 ATCTTTAGTT
*
12899541 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGATAT--CTTCAATCTGCTCCACTGCAACTTCA
1 TGCTCCACTGCAACTTTAGGGAGAT-AGA-TT-AT-TGGCTTTAATCTGCTCCACTGCAACTTCA
* ** * * * *
12899604 GGGAGATAAGACCTTCTATGGTAGGTTTAATTCGAC-CTATTGCAACTTCA-AAAGTATAGGATT
62 GTGAGATAAGA---TC--T-GTAACTTTAATCCG-CTCCACTGCAACTTCAGAGAG-ATAGGATT
* * * * * *
12899667 CGTT-GTTTTAATCCGCTT-CACTGTAACTTCAGGGAGATAGGA-TTAATAGCTTCAATCTGCTC
119 -ATTGGCTTTAATCTG-TTCCACTGCAACTTCAGGGAGATAAGATTTGATAGCTTCAATCTGCTC
* *
12899729 CACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACC
182 CACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAACC
* * *
12899768 TGCTCCACTGCAACTTCAGGGAGATAAAGT-TTGCGACTTTAATCTGCTCCACTGCAACTTCAGT
1 TGCTCCACTGCAACTTTAGGGAGATAGATTATTG-G-CTTTAATCTGCTCCACTGCAACTTCAGT
* *
12899832 GAGATAAGATCTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTA
64 GAGATAAGATCTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTA
* * * *
12899897 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGATATCTTCAGTCTGCTCCATTGCAACTTC
129 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGATAGCTTCAATCTGCTCCACTGCAACTTC
* *
12899962 AGGGATATAAGACTCT-CTATCTTTAATCC
194 AGGGAGATAAGA-T-TGCTATCTTCAA-CC
12899991 -GCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGTG
1 TGCTCCACTGCAACTTTAGGGAGATA-GATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGTG
12900055 AGATAAGATCTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
65 AGATAAGATCTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
*
12900120 TCTGTTCCACTGCAACTTTAGGGAGATAAGATTTG
130 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
12900155 CCATTTTCTT
Statistics
Matches: 339, Mismatches: 34, Indels: 33
0.83 0.08 0.08
Matches are distributed among these distances:
219 5 0.01
220 60 0.18
221 41 0.12
222 159 0.47
223 9 0.03
224 3 0.01
225 1 0.00
226 37 0.11
227 24 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (220 bp):
TGCTCCACTGCAACTTTAGGGAGATAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGTGA
GATAAGATCTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAT
CTGTTCCACTGCAACTTCAGGGAGATAAGATTTGATAGCTTCAATCTGCTCCACTGCAACTTCAG
GGAGATAAGATTGCTATCTTCAACC
Found at i:12900826 original size:26 final size:26
Alignment explanation
Indices: 12900790--12900840 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
12900780 CAAAGGGATA
* *
12900790 GTCTTAATTTAGCCTTTTCCTTCTCG
1 GTCTTAATTTAGACTCTTCCTTCTCG
12900816 GTCTTAATTTAGACTCTTCCTTCTC
1 GTCTTAATTTAGACTCTTCCTTCTC
12900841 AGATATTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.27, G:0.10, T:0.49
Consensus pattern (26 bp):
GTCTTAATTTAGACTCTTCCTTCTCG
Found at i:12908711 original size:19 final size:20
Alignment explanation
Indices: 12908673--12908713 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12908663 GGTGGACTTT
12908673 AATGCATATAATGTAATGCA
1 AATGCATATAATGTAATGCA
12908693 AATGCATGA-AATG-AATGCA
1 AATGCAT-ATAATGTAATGCA
12908712 AA
1 AA
12908714 AAGAAGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 11 0.55
21 1 0.05
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (20 bp):
AATGCATATAATGTAATGCA
Found at i:12913812 original size:18 final size:18
Alignment explanation
Indices: 12913778--12913815 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12913768 GTGGCGCCCC
*
12913778 TAAACAATTCAACTCCAT
1 TAAACAATCCAACTCCAT
12913796 TAAACAATCCAGA-TCCAT
1 TAAACAATCCA-ACTCCAT
12913814 TA
1 TA
12913816 TGGGTCCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAACAATCCAACTCCAT
Found at i:12915071 original size:25 final size:25
Alignment explanation
Indices: 12915043--12915093 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
12915033 CATAAAAAAG
* *
12915043 CGTAACTTATCATATCATATCATGT
1 CGTAACATACCATATCATATCATGT
12915068 CGTAACATACCATATCATATCATGT
1 CGTAACATACCATATCATATCATGT
12915093 C
1 C
12915094 CTACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (25 bp):
CGTAACATACCATATCATATCATGT
Found at i:12932089 original size:25 final size:26
Alignment explanation
Indices: 12932042--12932093 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
12932032 TTTTTATTTT
*
12932042 TATTAAAATATATTTAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
*
12932068 TATTAAAATTTA-ATAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
12932093 T
1 T
12932094 CTACCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTAAAATATATATAACAATAATCA
Found at i:12932319 original size:122 final size:122
Alignment explanation
Indices: 12932102--12932345 Score: 337
Period size: 122 Copynumber: 2.0 Consensus size: 122
12932092 ATCTACCTAC
* * *
12932102 AAAAATTCTGTTAAGGGTACTTTGGTCATTTAAGCCTTTTTCCTTATACTATTACAACATCTATT
1 AAAAATTCTGCTAAGGGTACTTTGGTCATTTAAACATTTTTCCTTATACTATTACAACATCTATT
* * *
12932167 CCATTCAACCAAACATAAGAATTCTATTACAACTTTACTGC-ATTCCATTCAACCAAA
66 CCATTCAACCAAACACAAGAATGCTATTACAACTCTA-TGCAATTCCATTCAACCAAA
* * **
12932224 AAAAATTCTGCTAAGGGTACTTTGGTCATTTAAATATTTTTCCTTATGCTATTACAATGTCTATT
1 AAAAATTCTGCTAAGGGTACTTTGGTCATTTAAACATTTTTCCTTATACTATTACAACATCTATT
* * * * *
12932289 CTATTCAACCAAATACAAGAATGCTATTACAGCTCTATTCAATTCTATTCAACCAAA
66 CCATTCAACCAAACACAAGAATGCTATTACAACTCTATGCAATTCCATTCAACCAAA
12932346 CAATTGAATT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 2 0.02
122 104 0.98
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (122 bp):
AAAAATTCTGCTAAGGGTACTTTGGTCATTTAAACATTTTTCCTTATACTATTACAACATCTATT
CCATTCAACCAAACACAAGAATGCTATTACAACTCTATGCAATTCCATTCAACCAAA
Found at i:12932381 original size:16 final size:16
Alignment explanation
Indices: 12932360--12932414 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
12932350 TGAATTACTG
12932360 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* **
12932376 ATTACAACTCTATTAA
1 ATTACAGCTCTATTCC
*
12932392 ATTATAG-TACTATTCC
1 ATTACAGCT-CTATTCC
12932408 ATTACAG
1 ATTACAG
12932415 TGAACTAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 1 0.03
16 29 0.97
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:12937092 original size:2 final size:2
Alignment explanation
Indices: 12937085--12937114 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12937075 AAATTATCAA
12937085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12937115 CTAAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12937205 original size:2 final size:2
Alignment explanation
Indices: 12937200--12937240 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
12937190 TAATTATTTA
12937200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12937241 TAGTTTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12938338 original size:20 final size:20
Alignment explanation
Indices: 12938313--12938351 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12938303 TAAATTGCTT
12938313 TATTTAT-AAGATTATTATTC
1 TATTTATGAA-ATTATTATTC
12938333 TATTTATGAAATTATTATT
1 TATTTATGAAATTATTATT
12938352 TTAATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTATGAAATTATTATTC
Found at i:12938416 original size:12 final size:11
Alignment explanation
Indices: 12938394--12938439 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
12938384 AAATAGATAT
*
12938394 TAATTTTTTTA
1 TAATATTTTTA
12938405 TAAATATTTTTA
1 T-AATATTTTTA
*
12938417 TAAT-TTTGTA
1 TAATATTTTTA
12938427 T-ATATTTTTA
1 TAATATTTTTA
12938437 TAA
1 TAA
12938440 AAAAAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 2 0.07
10 12 0.41
11 5 0.17
12 10 0.34
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TAATATTTTTA
Found at i:12938666 original size:22 final size:21
Alignment explanation
Indices: 12938638--12938681 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
12938628 TGTTTAGGAG
*
12938638 TTTTTTTT-AATAATTTTTTTA
1 TTTTTTTTAAAT-ATTATTTTA
12938659 TTTTTTTTAAATATTATTTTA
1 TTTTTTTTAAATATTATTTTA
12938680 TT
1 TT
12938682 AGTAGTGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTTTTAAATATTATTTTA
Found at i:12939086 original size:32 final size:32
Alignment explanation
Indices: 12939050--12939124 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
12939040 TAATTAATTT
12939050 TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
1 TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
*
12939082 TTTTTTAATTTAAAGGGATTTGTTATTTTTTA
1 TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
*
12939114 TGTTATTAATT
1 T-TTTTTAATT
12939125 ATTATAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 32 0.80
33 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (32 bp):
TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
Found at i:12939293 original size:100 final size:101
Alignment explanation
Indices: 12939187--12939450 Score: 341
Period size: 100 Copynumber: 2.6 Consensus size: 101
12939177 AATTTTTTGT
* * * *
12939187 ATTTTTTAAATCATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTGT
1 ATTTTTT-AATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGT
* * *
12939252 TTAGTTCAGTGTTTATTATGATTTTTTATTAATAT-A
65 TTAGTTCAGTGTTTATTATGACTTGTTATAAATATAA
* * *
12939288 ATTTTTTAATTATTTCAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTATGTT
1 ATTTTTTAATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTT
* * *
12939353 TAGTTTAGTGTTTATTGTGACTTGTTATAAATGTAA
66 TAGTTCAGTGTTTATTATGACTTGTTATAAATATAA
** ** * *
12939389 ATTTTTTTGTGTTTTTTAATTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGT
1 ATTTTTTAATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGT
12939451 TTAGTTTAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 79 0.56
101 62 0.44
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (101 bp):
ATTTTTTAATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTT
TAGTTCAGTGTTTATTATGACTTGTTATAAATATAA
Found at i:12939294 original size:110 final size:110
Alignment explanation
Indices: 12939125--12939474 Score: 318
Period size: 100 Copynumber: 3.4 Consensus size: 110
12939115 GTTATTAATT
* *
12939125 ATTATAAATTTTTTTGTGCTTAGTTTAGTG-TT-TTGTGATTTTTTATAAATGTAATTTTTTGTA
1 ATTATAAA-TTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGTAATTTTTTGTA
* *
12939188 TTTTTTAAATCATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAG
65 TTTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
* * * * *
12939234 ATTATAAATTGTTTGTGTTTAGTTCAGTGTTTATTATGA-TTTTT-T--AT-TAA---TAT-AAT
1 ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGTAATTTTTTGTAT
* *
12939290 TTTTT-AATTATTTCAAAGTTATTTTGTTAGTAATTTATGATTAG
66 TTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
* * * *
12939334 GTTATAAATTATTTATGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATGTAAATTTTTTTGT
1 ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGT-AA-TTTTTTGT
*
12939399 GTTTTTT--A--A-TT-----T-ATTTTGTTAGTAATTTATGATTAG
64 ATTTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
* * * *
12939435 GTTATAAATTA-TT-TGTTTAGTTTAATGTGTACTGTGATTT
1 ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTT
12939475 ATGATTTGTT
Statistics
Matches: 205, Mismatches: 23, Indels: 36
0.78 0.09 0.14
Matches are distributed among these distances:
99 23 0.11
100 71 0.35
101 46 0.22
102 4 0.02
104 2 0.01
105 4 0.02
106 4 0.02
107 2 0.01
108 20 0.10
109 15 0.07
110 8 0.04
111 6 0.03
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (110 bp):
ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGTAATTTTTTGTAT
TTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
Found at i:12954940 original size:13 final size:13
Alignment explanation
Indices: 12954922--12954946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12954912 AAATTCAATG
12954922 TCAATTTCATATA
1 TCAATTTCATATA
12954935 TCAATTTCATAT
1 TCAATTTCATAT
12954947 CCAAACATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:12956058 original size:23 final size:23
Alignment explanation
Indices: 12956032--12956132 Score: 89
Period size: 23 Copynumber: 4.4 Consensus size: 23
12956022 AGGCTCTATT
* *
12956032 GAGCTGAAACGGTAAGCTCTGAC
1 GAGCTGAAACAGTAAGCTCTAAC
*
12956055 GAGCT-AGACAGTAAGCT-TATAC
1 GAGCTGAAACAGTAAGCTCTA-AC
* *
12956077 GAGCTGAGACAGTAAGCTCTAAT
1 GAGCTGAAACAGTAAGCTCTAAC
* * *
12956100 GAGCTGAAAACAATAGGCTCTTAC
1 GAGCTG-AAACAGTAAGCTCTAAC
*
12956124 AAGCTGAAA
1 GAGCTGAAA
12956133 TATCGGTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.02
22 17 0.27
23 27 0.42
24 19 0.30
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTAAC
Found at i:12956398 original size:49 final size:49
Alignment explanation
Indices: 12956338--12956431 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
12956328 ATCTATTCAT
* *
12956338 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
1 TTAAATACATACATTTAAATACTCAATTCACATACCTTATCAAATTTAA
* *
12956387 TTAAATACATACATTTAAATACTTAATTCACATACTTTATCAAAT
1 TTAAATACATACATTTAAATACTCAATTCACATACCTTATCAAAT
12956432 CACATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.38
Consensus pattern (49 bp):
TTAAATACATACATTTAAATACTCAATTCACATACCTTATCAAATTTAA
Found at i:12961334 original size:18 final size:17
Alignment explanation
Indices: 12961296--12961336 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
12961286 GATATTTTAG
*
12961296 AAAATTAGTCCATGCTT
1 AAAAATAGTCCATGCTT
12961313 AAAAATAGTCCATGCTT
1 AAAAATAGTCCATGCTT
12961330 AAAAATA
1 AAAAATA
12961337 AAAACATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (17 bp):
AAAAATAGTCCATGCTT
Found at i:12965607 original size:89 final size:90
Alignment explanation
Indices: 12965455--12965636 Score: 357
Period size: 89 Copynumber: 2.0 Consensus size: 90
12965445 CACTAATAAG
12965455 AAAATAGAAAAAAATAAAAGAAGACAAAGAGATAACAGAGCAAATAGAAAAACAGTTGAAAAGCA
1 AAAATAGAAAAAAATAAAAGAAGACAAAGAGATAACAGAGCAAATAGAAAAACAGTTGAAAAGCA
12965520 TAAAAATAAAGTGCATAATAAAATA
66 TAAAAATAAAGTGCATAATAAAATA
12965545 AAAATAG-AAAAAATAAAAGAAGACAAAGAGATAACAGAGCAAATAGAAAAACAGTTGAAAAGCA
1 AAAATAGAAAAAAATAAAAGAAGACAAAGAGATAACAGAGCAAATAGAAAAACAGTTGAAAAGCA
12965609 TAAAAATAAAGTGCATAATAAAATA
66 TAAAAATAAAGTGCATAATAAAATA
12965634 AAA
1 AAA
12965637 TAAAACGTAT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 85 0.92
90 7 0.08
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.13
Consensus pattern (90 bp):
AAAATAGAAAAAAATAAAAGAAGACAAAGAGATAACAGAGCAAATAGAAAAACAGTTGAAAAGCA
TAAAAATAAAGTGCATAATAAAATA
Found at i:12977296 original size:21 final size:21
Alignment explanation
Indices: 12977270--12977311 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12977260 ATTTCAAAAA
*
12977270 TTAAATAG-AATAATTATTAAT
1 TTAAAT-GTAATAATTAATAAT
12977291 TTAAATGTAATAATTAATAAT
1 TTAAATGTAATAATTAATAAT
12977312 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TTAAATGTAATAATTAATAAT
Found at i:12982046 original size:34 final size:35
Alignment explanation
Indices: 12982002--12982068 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
12981992 CAGTAAAATA
*
12982002 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
12982036 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
12982069 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:12999757 original size:31 final size:31
Alignment explanation
Indices: 12999701--12999766 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
12999691 AACAGCCCAG
**
12999701 TGACTTAAATAAAAGCTTTTGAATAGT-TCAA
1 TGACTTAAATAAAAGCTTTCAAATAGTCT-AA
12999732 TGACTTAAATGAAAA-CTTTCAAATAGTCTAA
1 TGACTTAAAT-AAAAGCTTTCAAATAGTCTAA
12999763 TGAC
1 TGAC
12999767 CAAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAGCTTTCAAATAGTCTAA
Found at i:13002973 original size:42 final size:42
Alignment explanation
Indices: 13002926--13003021 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
13002916 TTGGTATCGT
* ** *
13002926 ACACTTAGTTCCCGTTATTTGACATCG-TCATTTTTGTTTCGC
1 ACACTTAGTGCCCGTTATTCAACATCGAT-ATTTTAGTTTCGC
13002968 ACACTTAGTGCCCGTTATTCAACATCGATATTTTAGTTTCGC
1 ACACTTAGTGCCCGTTATTCAACATCGATATTTTAGTTTCGC
13003010 ACACTTAGTGCC
1 ACACTTAGTGCC
13003022 ATTCGTATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (42 bp):
ACACTTAGTGCCCGTTATTCAACATCGATATTTTAGTTTCGC
Found at i:13005424 original size:50 final size:50
Alignment explanation
Indices: 13005360--13005496 Score: 159
Period size: 50 Copynumber: 2.7 Consensus size: 50
13005350 AAAGTGATGG
* * *
13005360 TCACAAGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAT-GATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAGATAGA
* * * * * *
13005410 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGATAGA
* *
13005460 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA
13005497 TCGGGTGGGG
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 3 0.04
50 69 0.96
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGATAGA
Found at i:13005615 original size:45 final size:45
Alignment explanation
Indices: 13005551--13005639 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
13005541 NNNNNNCCGA
* * *
13005551 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
13005596 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
13005640 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:13008688 original size:172 final size:173
Alignment explanation
Indices: 13008397--13008738 Score: 571
Period size: 172 Copynumber: 2.0 Consensus size: 173
13008387 GTATATAAAT
* * *
13008397 GTGTGTGAACCTATGTTTAGTTCGTATTGTCTAACCTTGTATGACATGACTATATTCTGGATATT
1 GTGTGTGAACCTATGATTAGTTCGTATTATCTAAACTTGTATGACATGACTATATTCTGGATATT
*
13008462 GGTTGTTTTATAATTTAACAATGGTTAAGTATGACTGGGTTCTGGTAAGACAATGTAACTTTCTA
66 GGTTGTTTTATAATTTAACAATGGTTAAGTATGACTGGGTTCTGGTAAGACAATGTAACATTCTA
**
13008527 AACTTAGTTTTCCGTCTAGGCTGGGTTTAGCG-TGTTACATTTA
131 AACTTAGTTTTCCGTCTAGGCCAGGTTTAG-GATGTTACATTTA
* * *
13008570 GTGT-TGAACCTATGATTAGTTTGTATTATTTAAACTTGTATGACATGACTATATTTTGGATATT
1 GTGTGTGAACCTATGATTAGTTCGTATTATCTAAACTTGTATGACATGACTATATTCTGGATATT
*
13008634 GGTTGTTTTATAATTTAACAATGGTTAAGTATGACTGGGTTTTGGTAAGACAATGTAACATTCTA
66 GGTTGTTTTATAATTTAACAATGGTTAAGTATGACTGGGTTCTGGTAAGACAATGTAACATTCTA
13008699 AACTTAGTTTTCCGTCTAGGCCAGGTTTAGGATGTTACAT
131 AACTTAGTTTTCCGTCTAGGCCAGGTTTAGGATGTTACAT
13008739 CCATCGAGTC
Statistics
Matches: 158, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
171 1 0.01
172 153 0.97
173 4 0.03
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (173 bp):
GTGTGTGAACCTATGATTAGTTCGTATTATCTAAACTTGTATGACATGACTATATTCTGGATATT
GGTTGTTTTATAATTTAACAATGGTTAAGTATGACTGGGTTCTGGTAAGACAATGTAACATTCTA
AACTTAGTTTTCCGTCTAGGCCAGGTTTAGGATGTTACATTTA
Found at i:13010125 original size:27 final size:27
Alignment explanation
Indices: 13010049--13010132 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
13010039 CCCAATAGAT
* * **
13010049 TATCCCCTATTTAATGTCCCATCACAC
1 TATCCCATATTTAATGTCCTATCGGAC
* * * *
13010076 TATCTCATGTTTAATGTCTTATCGGGC
1 TATCCCATATTTAATGTCCTATCGGAC
*
13010103 TATCCCGTATTTAATGTCCTATCGGAC
1 TATCCCATATTTAATGTCCTATCGGAC
13010130 TAT
1 TAT
13010133 TTACGATGTC
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (27 bp):
TATCCCATATTTAATGTCCTATCGGAC
Found at i:13010320 original size:45 final size:46
Alignment explanation
Indices: 13010216--13010341 Score: 173
Period size: 45 Copynumber: 2.7 Consensus size: 46
13010206 CAAAGGATGT
* * * *
13010216 CATAGCGTCTTTCAGCCATGGTCTTAGTCTTGTTTCTATCATGATGC
1 CATAGCGTCTTTCAGCTATGGTCTTAATCAT-TTTCTATCATGAAGC
* *
13010263 CATAGCGCCTTTCAGCTATGGTCTTACTCATTTT-TATCATGAAGC
1 CATAGCGTCTTTCAGCTATGGTCTTAATCATTTTCTATCATGAAGC
*
13010308 CATAGCATCTTTCAGCTATGGTCTTAATCATTTT
1 CATAGCGTCTTTCAGCTATGGTCTTAATCATTTT
13010342 AGGCGTATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 41 0.58
46 3 0.04
47 27 0.38
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
CATAGCGTCTTTCAGCTATGGTCTTAATCATTTTCTATCATGAAGC
Found at i:13011058 original size:17 final size:17
Alignment explanation
Indices: 13011036--13011068 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13011026 TGAAGCAATC
*
13011036 AAGGAAGAAGATGAAAA
1 AAGGAAGAAAATGAAAA
13011053 AAGGAAGAAAATGAAA
1 AAGGAAGAAAATGAAA
13011069 CAAATTGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
AAGGAAGAAAATGAAAA
Found at i:13018285 original size:43 final size:41
Alignment explanation
Indices: 13018163--13018306 Score: 130
Period size: 42 Copynumber: 3.4 Consensus size: 41
13018153 TATTGTGAAT
* * * *
13018163 GGGGTTGCTAAGTACTGACTCCCTGTATCACTGAATATAAA
1 GGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTTAAA
* * * *
13018204 GATGGTTGCTAAGTGTTGATTCCACCGAATC-CTTAATTTGGAAA
1 G-GGGTTGCTAAGTGCTGATTCC-CCGTATCACTGAATTT--AAA
* * *
13018248 GGGGTTGGTATGTGCTGATTCCCCGTATCACTGAATTT-AT
1 GGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTTAAA
13018288 GGTGGTTGCTAAGTGCTGA
1 GG-GGTTGCTAAGTGCTGA
13018307 ATCCACCGAG
Statistics
Matches: 80, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
40 3 0.04
41 15 0.19
42 29 0.36
43 29 0.36
44 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
GGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTTAAA
Found at i:13025639 original size:42 final size:41
Alignment explanation
Indices: 13025589--13025730 Score: 153
Period size: 43 Copynumber: 3.4 Consensus size: 41
13025579 TTGTGAATGG
*
13025589 GGTTGCTAAGTGCTGACTCCCCGTATCATTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAAT-TAAAGGT
* *
13025631 GGTTGCTAAGTGCTGATTCCACCGAATCCTT-AATTGGGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATT---AAAGGT
* * * * *
13025674 GGTTGCTATGTGTTGATTCCCCGTATCACTGAATTTATGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATTAAAGGT
13025715 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
13025731 ATCCACCAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
40 3 0.04
41 15 0.18
42 29 0.35
43 30 0.37
44 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATTAAAGGT
Found at i:13025676 original size:85 final size:85
Alignment explanation
Indices: 13025531--13025737 Score: 263
Period size: 85 Copynumber: 2.4 Consensus size: 85
13025521 GCCGGAATAT
** * * ** * * *
13025531 ACTGAATATAAAGGTGGTTGCTATTTGCTGATTCCACTGTATTTTTTATTGTGAATGGGGTTGCT
1 ACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGGGAAAGGGGTTGCT
13025596 AAGTGCTGACTCCCCGTATC
66 AAGTGCTGACTCCCCGTATC
*
13025616 ATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGGGAAAGGGGTTGCT
1 ACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGGGAAAGGGGTTGCT
* * *
13025681 ATGTGTTGATTCCCCGTATC
66 AAGTGCTGACTCCCCGTATC
* * *
13025701 ACTGAAT-TTATGGTGGTTGCTAAGTGCTGAATCCACC
1 ACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACC
13025738 AAGTAACGGA
Statistics
Matches: 105, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 27 0.26
85 78 0.74
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (85 bp):
ACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGGGAAAGGGGTTGCT
AAGTGCTGACTCCCCGTATC
Found at i:13033089 original size:23 final size:22
Alignment explanation
Indices: 13033057--13033118 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
13033047 CCCGGCCCGT
*
13033057 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
13033081 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
13033103 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
13033119 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:13033113 original size:16 final size:16
Alignment explanation
Indices: 13033092--13033148 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
13033082 TTTTATTAAA
*
13033092 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
13033108 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
* *
13033124 ATCAAAATTAATTATT
1 ATTAAAATTAATTGTT
13033140 ATTAAAATT
1 ATTAAAATT
13033149 GTATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:13033361 original size:16 final size:16
Alignment explanation
Indices: 13033340--13033372 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13033330 TATATTTTTT
13033340 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
13033356 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
13033372 A
1 A
13033373 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:13035669 original size:104 final size:105
Alignment explanation
Indices: 13035488--13035682 Score: 374
Period size: 104 Copynumber: 1.9 Consensus size: 105
13035478 AAAAAAGATG
13035488 TGTTCTTTAGTTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
1 TGTTCTTTAGTTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
13035553 TCCCATTTTCGGCTCACACAAAAAATCAATTCCACTATTT
66 TCCCATTTTCGGCTCACACAAAAAATCAATTCCACTATTT
13035593 TGTTCTTTAG-TAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
1 TGTTCTTTAGTTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
*
13035657 TCCCATTTTCGGCTCACACGAAAAAT
66 TCCCATTTTCGGCTCACACAAAAAAT
13035683 TCTAAACTTT
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
104 79 0.89
105 10 0.11
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (105 bp):
TGTTCTTTAGTTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
TCCCATTTTCGGCTCACACAAAAAATCAATTCCACTATTT
Found at i:13035823 original size:121 final size:120
Alignment explanation
Indices: 13035593--13035823 Score: 367
Period size: 121 Copynumber: 1.9 Consensus size: 120
13035583 TCCACTATTT
13035593 TGTTCTTTAGTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAAT
1 TGTTCTTTAGTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAAT
* ** * *
13035658 CCCATTTTCGGCTCACACGAAAAATTCTAAACTTTTTTTTTAAAAAAAAAAGATG
66 CCCATTTTCGGCTCACACGAAAAAATCTAAACACTATTTATAAAAAAAAAAGATG
13035713 TGTTCTTTAGTTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
1 TGTTCTTTAG-TAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAA
*
13035778 TCCCATTTTCGGCTCACAC-AAAAAATC-AATTCCACTATTTATAAAA
65 TCCCATTTTCGGCTCACACGAAAAAATCTAA--ACACTATTTATAAAA
13035824 TAATAAAAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
119 2 0.02
120 17 0.17
121 83 0.81
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (120 bp):
TGTTCTTTAGTAGACCTACCATGTGTTGGGCTATGTCCTGGGTCCAAATTTTTTTCAAGCCCAAT
CCCATTTTCGGCTCACACGAAAAAATCTAAACACTATTTATAAAAAAAAAAGATG
Found at i:13035886 original size:28 final size:28
Alignment explanation
Indices: 13035833--13035888 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
13035823 ATAATAAAAA
* *
13035833 TATATTTTAATATTAATATTATATATTT
1 TATAATTTAATATTAATATTAAATATTT
*
13035861 TATAATTTAAT-TTAATTTTTAAATATTT
1 TATAATTTAATATTAA-TATTAAATATTT
13035889 AATTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TATAATTTAATATTAATATTAAATATTT
Found at i:13035890 original size:15 final size:15
Alignment explanation
Indices: 13035870--13035899 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13035860 TTATAATTTA
*
13035870 ATTTAATTTTTAAAT
1 ATTTAATTATTAAAT
13035885 ATTTAATTATTAAAT
1 ATTTAATTATTAAAT
13035900 TGAATTCGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAATTATTAAAT
Found at i:13037083 original size:23 final size:23
Alignment explanation
Indices: 13037056--13037131 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
13037046 AGTGTTATTG
*
13037056 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
13037079 TTCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13037102 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13037125 ATCAGTG
1 ATCAGTG
13037132 TTGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13042950 original size:750 final size:750
Alignment explanation
Indices: 13041511--13043010 Score: 3000
Period size: 750 Copynumber: 2.0 Consensus size: 750
13041501 TTTGTTATTT
13041511 CAATGACAACATTATAAGCAAAATTGTTGTCGACAACTACATTTTTTTTTGGTTCCATTTTTTTC
1 CAATGACAACATTATAAGCAAAATTGTTGTCGACAACTACATTTTTTTTTGGTTCCATTTTTTTC
13041576 TCGTATTGACATAACTTATCGAGATCTTTTTATTTTCATCATTTTCATTTTTACTTTTAGATACA
66 TCGTATTGACATAACTTATCGAGATCTTTTTATTTTCATCATTTTCATTTTTACTTTTAGATACA
13041641 TAAACCTCTTCTTGAGTTTTTTAATTAGTTATATCATGAGTCTCTGATAACTCTTGAAAACAATC
131 TAAACCTCTTCTTGAGTTTTTTAATTAGTTATATCATGAGTCTCTGATAACTCTTGAAAACAATC
13041706 TCCATCTAAAGAGCGAGACTTTCCATTGGGCTAAAAGGGCTTCTAAGTATTTCATTAGCTTTACT
196 TCCATCTAAAGAGCGAGACTTTCCATTGGGCTAAAAGGGCTTCTAAGTATTTCATTAGCTTTACT
13041771 TGAAATTAATTGTTGTTTAAAAAAAAAGTATTTATAATGAAAGAAATTAACAAAGAACTTAAGAA
261 TGAAATTAATTGTTGTTTAAAAAAAAAGTATTTATAATGAAAGAAATTAACAAAGAACTTAAGAA
13041836 AAACATTTCTTGTTTAATCTAAGAGATGCGCCTATGTGCAAACTCCAATTACCCAGCTTTTTGAC
326 AAACATTTCTTGTTTAATCTAAGAGATGCGCCTATGTGCAAACTCCAATTACCCAGCTTTTTGAC
13041901 ATATTGAAGTCGGTCATGATGGGGCTTGTCCTAAAACACCCATTGTTGCTTTGCAAAAAAATAAA
391 ATATTGAAGTCGGTCATGATGGGGCTTGTCCTAAAACACCCATTGTTGCTTTGCAAAAAAATAAA
13041966 AATAAAAATCCATTGTTGTACATCCTCTTTCTTATTTATAAGGTGAAACCAGCTTTTGGAGGGTT
456 AATAAAAATCCATTGTTGTACATCCTCTTTCTTATTTATAAGGTGAAACCAGCTTTTGGAGGGTT
13042031 AAAAATAAAATTTTATCAAATTGCATAAAATTTTAAAGAGTTAAATTTACTATTTTTGGGTACTT
521 AAAAATAAAATTTTATCAAATTGCATAAAATTTTAAAGAGTTAAATTTACTATTTTTGGGTACTT
13042096 CCCCTGCTGGTTTGCATGGTTGCATTGGCTACCCTCTATTCTAACATACGTTGAAGATAAACTTC
586 CCCCTGCTGGTTTGCATGGTTGCATTGGCTACCCTCTATTCTAACATACGTTGAAGATAAACTTC
13042161 AAAGTGAGGTTAAGAAGAAGATAGCTCCGCATTCAAGTCCCCAAAAGCATTTCAACGTCGCAACC
651 AAAGTGAGGTTAAGAAGAAGATAGCTCCGCATTCAAGTCCCCAAAAGCATTTCAACGTCGCAACC
13042226 ATTGAAACTAATAAAAACTACACTTGGTTATAGAA
716 ATTGAAACTAATAAAAACTACACTTGGTTATAGAA
13042261 CAATGACAACATTATAAGCAAAATTGTTGTCGACAACTACATTTTTTTTTGGTTCCATTTTTTTC
1 CAATGACAACATTATAAGCAAAATTGTTGTCGACAACTACATTTTTTTTTGGTTCCATTTTTTTC
13042326 TCGTATTGACATAACTTATCGAGATCTTTTTATTTTCATCATTTTCATTTTTACTTTTAGATACA
66 TCGTATTGACATAACTTATCGAGATCTTTTTATTTTCATCATTTTCATTTTTACTTTTAGATACA
13042391 TAAACCTCTTCTTGAGTTTTTTAATTAGTTATATCATGAGTCTCTGATAACTCTTGAAAACAATC
131 TAAACCTCTTCTTGAGTTTTTTAATTAGTTATATCATGAGTCTCTGATAACTCTTGAAAACAATC
13042456 TCCATCTAAAGAGCGAGACTTTCCATTGGGCTAAAAGGGCTTCTAAGTATTTCATTAGCTTTACT
196 TCCATCTAAAGAGCGAGACTTTCCATTGGGCTAAAAGGGCTTCTAAGTATTTCATTAGCTTTACT
13042521 TGAAATTAATTGTTGTTTAAAAAAAAAGTATTTATAATGAAAGAAATTAACAAAGAACTTAAGAA
261 TGAAATTAATTGTTGTTTAAAAAAAAAGTATTTATAATGAAAGAAATTAACAAAGAACTTAAGAA
13042586 AAACATTTCTTGTTTAATCTAAGAGATGCGCCTATGTGCAAACTCCAATTACCCAGCTTTTTGAC
326 AAACATTTCTTGTTTAATCTAAGAGATGCGCCTATGTGCAAACTCCAATTACCCAGCTTTTTGAC
13042651 ATATTGAAGTCGGTCATGATGGGGCTTGTCCTAAAACACCCATTGTTGCTTTGCAAAAAAATAAA
391 ATATTGAAGTCGGTCATGATGGGGCTTGTCCTAAAACACCCATTGTTGCTTTGCAAAAAAATAAA
13042716 AATAAAAATCCATTGTTGTACATCCTCTTTCTTATTTATAAGGTGAAACCAGCTTTTGGAGGGTT
456 AATAAAAATCCATTGTTGTACATCCTCTTTCTTATTTATAAGGTGAAACCAGCTTTTGGAGGGTT
13042781 AAAAATAAAATTTTATCAAATTGCATAAAATTTTAAAGAGTTAAATTTACTATTTTTGGGTACTT
521 AAAAATAAAATTTTATCAAATTGCATAAAATTTTAAAGAGTTAAATTTACTATTTTTGGGTACTT
13042846 CCCCTGCTGGTTTGCATGGTTGCATTGGCTACCCTCTATTCTAACATACGTTGAAGATAAACTTC
586 CCCCTGCTGGTTTGCATGGTTGCATTGGCTACCCTCTATTCTAACATACGTTGAAGATAAACTTC
13042911 AAAGTGAGGTTAAGAAGAAGATAGCTCCGCATTCAAGTCCCCAAAAGCATTTCAACGTCGCAACC
651 AAAGTGAGGTTAAGAAGAAGATAGCTCCGCATTCAAGTCCCCAAAAGCATTTCAACGTCGCAACC
13042976 ATTGAAACTAATAAAAACTACACTTGGTTATAGAA
716 ATTGAAACTAATAAAAACTACACTTGGTTATAGAA
13043011 AACAATTATT
Statistics
Matches: 750, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
750 750 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (750 bp):
CAATGACAACATTATAAGCAAAATTGTTGTCGACAACTACATTTTTTTTTGGTTCCATTTTTTTC
TCGTATTGACATAACTTATCGAGATCTTTTTATTTTCATCATTTTCATTTTTACTTTTAGATACA
TAAACCTCTTCTTGAGTTTTTTAATTAGTTATATCATGAGTCTCTGATAACTCTTGAAAACAATC
TCCATCTAAAGAGCGAGACTTTCCATTGGGCTAAAAGGGCTTCTAAGTATTTCATTAGCTTTACT
TGAAATTAATTGTTGTTTAAAAAAAAAGTATTTATAATGAAAGAAATTAACAAAGAACTTAAGAA
AAACATTTCTTGTTTAATCTAAGAGATGCGCCTATGTGCAAACTCCAATTACCCAGCTTTTTGAC
ATATTGAAGTCGGTCATGATGGGGCTTGTCCTAAAACACCCATTGTTGCTTTGCAAAAAAATAAA
AATAAAAATCCATTGTTGTACATCCTCTTTCTTATTTATAAGGTGAAACCAGCTTTTGGAGGGTT
AAAAATAAAATTTTATCAAATTGCATAAAATTTTAAAGAGTTAAATTTACTATTTTTGGGTACTT
CCCCTGCTGGTTTGCATGGTTGCATTGGCTACCCTCTATTCTAACATACGTTGAAGATAAACTTC
AAAGTGAGGTTAAGAAGAAGATAGCTCCGCATTCAAGTCCCCAAAAGCATTTCAACGTCGCAACC
ATTGAAACTAATAAAAACTACACTTGGTTATAGAA
Found at i:13045776 original size:27 final size:27
Alignment explanation
Indices: 13045738--13045803 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
13045728 TACGAACATG
13045738 TTGGTGCCGCCTCTGCCAC-AGACACCA
1 TTGGTGCCGCCTCTGCCACAAG-CACCA
* *
13045765 TTGGTGTCGCCTCTGCCACAAGCGCCA
1 TTGGTGCCGCCTCTGCCACAAGCACCA
13045792 TTGGTGCCGCCT
1 TTGGTGCCGCCT
13045804 GTGGCAGACC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.14, C:0.38, G:0.26, T:0.23
Consensus pattern (27 bp):
TTGGTGCCGCCTCTGCCACAAGCACCA
Found at i:13045893 original size:13 final size:12
Alignment explanation
Indices: 13045858--13045896 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
13045848 GTAAATAAAC
13045858 TTTTTTGTATAT
1 TTTTTTGTATAT
*
13045870 TATTTTG-ATAT
1 TTTTTTGTATAT
13045881 TTTTTTGTAATAT
1 TTTTTTGT-ATAT
13045894 TTT
1 TTT
13045897 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 6 0.26
13 7 0.30
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (12 bp):
TTTTTTGTATAT
Found at i:13046740 original size:7 final size:7
Alignment explanation
Indices: 13046728--13046752 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13046718 ATTAACCTAA
13046728 AAATATT
1 AAATATT
13046735 AAATATT
1 AAATATT
13046742 AAATATT
1 AAATATT
13046749 AAAT
1 AAAT
13046753 TAATTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:13051031 original size:15 final size:15
Alignment explanation
Indices: 13051011--13051041 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13051001 GTGACTACTC
13051011 ATGATTTCAAAAGAA
1 ATGATTTCAAAAGAA
13051026 ATGATTTCAAAAGAA
1 ATGATTTCAAAAGAA
13051041 A
1 A
13051042 CAGCTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
ATGATTTCAAAAGAA
Found at i:13052141 original size:29 final size:29
Alignment explanation
Indices: 13052099--13052155 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
13052089 CCATGGAAGA
* *
13052099 GGTGGAAAACTTGTTCGTTGAGAATTCAG
1 GGTGAAAAACTTGTTCATTGAGAATTCAG
13052128 GGTGAAAAACTTGTTCATTGAGAATTCA
1 GGTGAAAAACTTGTTCATTGAGAATTCA
13052156 TGTCAAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (29 bp):
GGTGAAAAACTTGTTCATTGAGAATTCAG
Found at i:13053792 original size:31 final size:31
Alignment explanation
Indices: 13053757--13053824 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
13053747 TTACAAAATG
13053757 GTCACTGAACTATTCAAAAGTTCTCATTTAA
1 GTCACTGAACTATTCAAAAGTTCTCATTTAA
* * *
13053788 GTCACTGAGCTATTCAAAAGTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTCTCATTTAA
13053819 GTCACT
1 GTCACT
13053825 AGGTTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTCTCATTTAA
Found at i:13058473 original size:76 final size:76
Alignment explanation
Indices: 13058387--13058533 Score: 285
Period size: 76 Copynumber: 1.9 Consensus size: 76
13058377 AGATAGCAAA
*
13058387 ATAGGAATCTGCTTTACAAACATACTAATTACAGACATGACTTAAAGGAAAGTAAAGGACATGAC
1 ATAGGAATCTGCTTTACAAACATACTAATTACAGACATAACTTAAAGGAAAGTAAAGGACATGAC
13058452 TCAGCAGATAG
66 TCAGCAGATAG
13058463 ATAGGAATCTGCTTTACAAACATACTAATTACAGACATAACTTAAAGGAAAGTAAAGGACATGAC
1 ATAGGAATCTGCTTTACAAACATACTAATTACAGACATAACTTAAAGGAAAGTAAAGGACATGAC
13058528 TCAGCA
66 TCAGCA
13058534 AATGGGAATC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.22
Consensus pattern (76 bp):
ATAGGAATCTGCTTTACAAACATACTAATTACAGACATAACTTAAAGGAAAGTAAAGGACATGAC
TCAGCAGATAG
Found at i:13073125 original size:244 final size:243
Alignment explanation
Indices: 13072698--13073192 Score: 893
Period size: 244 Copynumber: 2.0 Consensus size: 243
13072688 GCATAAATTT
13072698 CACTAGAACAATCTTAGACAGGATGATGTAAGAAAGGTGGATCAATCTGCAATGAGTATTAATTG
1 CACTAGAACAATCTTAGACAGGATGATGTAAGAAAGGTGGATCAATCTGCAATGAGTATTAATTG
13072763 CAAAGGAACATGGCAGTATATCTCAGGTAAAACAAGAAATAACATCATAAGGCTTTCTCACTCAA
66 CAAAGGAACATGGCAGTATATCTCAGGTAAAACAAGAAATAACATCATAAGGCTTTCTCACTCAA
*
13072828 AAGCAAATGTATGCATACATGCAGCTCATAAAATAGAGAACATGATAAGACTGGTAAAGTTA-CT
131 AAGCAAATGTATGCATACATGCAACTCATAAAATAGAGAACATGATAAGACTGGTAAAGTTATCT
*
13072892 CAAATCTAGAGTTACCAAGCACATCTCACCACCCCATTCAATCTCTAA
196 CAAATCTAGAGTTACCAAGCACATCTCACCACCCCATACAATCTCTAA
* *
13072940 CACTAGACCAATCTTAGACAGGATGATGTAAGAAAGGTGGATCCATCTGCAATGAGTGTATTAAT
1 CACTAGAACAATCTTAGACAGGATGATGTAAGAAAGGTGGATCAATCTGCAATGA--GTATTAAT
* * *
13073005 TGCATAGGAACATTGCAGTATATCTCAGGTAAAACAAGAAATAACATCATAAGGTTTTCTCACTC
64 TGCAAAGGAACATGGCAGTATATCTCAGGTAAAACAAGAAATAACATCATAAGGCTTTCTCACTC
13073070 AAAAGCAAATGTATGCATACATGCAACTCATAAAATAGAGAACATGATAAGACTGGTAAAGTTAT
129 AAAAGCAAATGTATGCATACATGCAACTCATAAAATAGAGAACATGATAAGACTGGTAAAGTTAT
13073135 CTCAAATCTAGAGTTACCAAGCACATCTCACCACCCCATACAATCTCTAA
194 CTCAAATCTAGAGTTACCAAGCACATCTCACCACCCCATACAATCTCTAA
*
13073185 TACTAGAA
1 CACTAGAA
13073193 GGAGAAATAA
Statistics
Matches: 241, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
242 53 0.22
244 133 0.55
245 55 0.23
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (243 bp):
CACTAGAACAATCTTAGACAGGATGATGTAAGAAAGGTGGATCAATCTGCAATGAGTATTAATTG
CAAAGGAACATGGCAGTATATCTCAGGTAAAACAAGAAATAACATCATAAGGCTTTCTCACTCAA
AAGCAAATGTATGCATACATGCAACTCATAAAATAGAGAACATGATAAGACTGGTAAAGTTATCT
CAAATCTAGAGTTACCAAGCACATCTCACCACCCCATACAATCTCTAA
Found at i:13082928 original size:25 final size:24
Alignment explanation
Indices: 13082875--13082992 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 24
13082865 CATGTACATG
*
13082875 TATGCTCTTACGAGCTGT-GAATC-A
1 TATGCTC-TACGAGCTATAG-ATCGA
* *
13082899 GTATGCTCATTCGAGCTGTAGATCGA
1 -TATGCTC-TACGAGCTATAGATCGA
* *
13082925 TATGCTCTCACGAGCTATAAATCGG
1 TATGCTCT-ACGAGCTATAGATCGA
* *
13082950 TATGCTCACACGAGCTATAGATCGG
1 TATGCTC-TACGAGCTATAGATCGA
13082975 TATGCTCTCACGAGCTAT
1 TATGCTCT-ACGAGCTAT
13082993 GGGTCAGAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
24 1 0.01
25 76 0.96
26 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (24 bp):
TATGCTCTACGAGCTATAGATCGA
Found at i:13082953 original size:50 final size:50
Alignment explanation
Indices: 13082875--13082992 Score: 164
Period size: 50 Copynumber: 2.4 Consensus size: 50
13082865 CATGTACATG
* * * ** *
13082875 TATGCTCTTACGAGCTGTGAATCAGTATGCTCATTCGAGCTGTAGATCGA
1 TATGCTCTCACGAGCTATAAATCAGTATGCTCACACGAGCTATAGATCGA
* *
13082925 TATGCTCTCACGAGCTATAAATCGGTATGCTCACACGAGCTATAGATCGG
1 TATGCTCTCACGAGCTATAAATCAGTATGCTCACACGAGCTATAGATCGA
13082975 TATGCTCTCACGAGCTAT
1 TATGCTCTCACGAGCTAT
13082993 GGGTCAGAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (50 bp):
TATGCTCTCACGAGCTATAAATCAGTATGCTCACACGAGCTATAGATCGA
Found at i:13094990 original size:224 final size:223
Alignment explanation
Indices: 13094381--13095045 Score: 1188
Period size: 222 Copynumber: 3.0 Consensus size: 223
13094371 TATGTTTGAT
13094381 TGTCAAGGAAATATTTTTACTTTATTTTGGCTATCATCAGTTGAGATTTTTGTATGTGCACTTCT
1 TGTCAAGGAAATATTTTTACTTTATTTTGGCTATCATCAGTTGAGATTTTTGTATGTGCACTTCT
13094446 TCAACTTTCATATCAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTTT
66 TCAACTTTCATATCAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTTT
* *
13094511 GAGCTCGTAAGGGATTTTCATCATAACCAAGAAAATGTTGTGTCCAAACCAATC-AAATTTTGCT
131 GAGCTCGTAAGGGATTTTCATCATAACCAAGAGAATGTTGTGTCCAAATCAATCAAAATTTTGCT
13094575 AACCTCTAATATCTATAAACTTCTCTAA
196 AACCTCTAATATCTATAAACTTCTCTAA
* *
13094603 TATCAAGGAAATATTTTTACTTTATTTTGGCTATCATCAGTTGAGATTTTTGTGTGTGCACTTCT
1 TGTCAAGGAAATATTTTTACTTTATTTTGGCTATCATCAGTTGAGATTTTTGTATGTGCACTTCT
13094668 TCAACTTTCATATCAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTTT
66 TCAACTTTCATATCAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTTT
13094733 GAGCTCGTAAGGGATTTTCATCATAACCAAGAGAATGTTGTGTCCAAATCAATCAAAATTTTGCT
131 GAGCTCGTAAGGGATTTTCATCATAACCAAGAGAATGTTGTGTCCAAATCAATCAAAATTTTGCT
13094798 AACCTCTAATATCTATAAACTTCTCTAA
196 AACCTCTAATATCTATAAACTTCTCTAA
*
13094826 TGTCAAGGAAATATTTTTACTTTATTTTGCCCTATCATCAGTTGAGATTTTTGTATGTGCACTTC
1 TGTCAAGGAAATATTTTTACTTTATTTTG-GCTATCATCAGTTGAGATTTTTGTATGTGCACTTC
* *
13094891 TTCAACTTTAATAACAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTT
65 TTCAACTTTCATATCAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTT
* * * **
13094956 TGAGCTTGTAAGGGATTTTCATCATAAGCAAGAGAATGTTGTGTCCAAATCAATAAAAAAATTGC
130 TGAGCTCGTAAGGGATTTTCATCATAACCAAGAGAATGTTGTGTCCAAATCAATCAAAATTTTGC
* *
13095021 TAATCTCTAACATCTATAAACTTCT
195 TAACCTCTAATATCTATAAACTTCT
13095046 TGAGGAACTA
Statistics
Matches: 425, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
222 180 0.42
223 66 0.16
224 179 0.42
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (223 bp):
TGTCAAGGAAATATTTTTACTTTATTTTGGCTATCATCAGTTGAGATTTTTGTATGTGCACTTCT
TCAACTTTCATATCAGAAGTTTGATGAAGTACTTCAACAAAATGGATGATGGCAGTTAACTGTTT
GAGCTCGTAAGGGATTTTCATCATAACCAAGAGAATGTTGTGTCCAAATCAATCAAAATTTTGCT
AACCTCTAATATCTATAAACTTCTCTAA
Found at i:13109454 original size:49 final size:49
Alignment explanation
Indices: 13109385--13109483 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
13109375 CTGATAGCTG
13109385 TTTTTGCTTATCCCTGTCGTCTGAAAGATTGAAACTTAGTTAAGCGTGT
1 TTTTTGCTTATCCCTGTCGTCTGAAAGATTGAAACTTAGTTAAGCGTGT
13109434 TTTTTGCTTATCCCTGTCGTCTGAAAGATTGAAACTTAGTTAAGCGTGT
1 TTTTTGCTTATCCCTGTCGTCTGAAAGATTGAAACTTAGTTAAGCGTGT
13109483 T
1 T
13109484 AATTATGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (49 bp):
TTTTTGCTTATCCCTGTCGTCTGAAAGATTGAAACTTAGTTAAGCGTGT
Found at i:13115228 original size:10 final size:10
Alignment explanation
Indices: 13115215--13115239 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13115205 AATGATATGA
13115215 CAAAATTAAG
1 CAAAATTAAG
13115225 CAAAATTAAG
1 CAAAATTAAG
13115235 CAAAA
1 CAAAA
13115240 GAGGACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (10 bp):
CAAAATTAAG
Found at i:13119336 original size:10 final size:10
Alignment explanation
Indices: 13119321--13119345 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13119311 TGAGTTCATT
13119321 TTTTTTTATA
1 TTTTTTTATA
13119331 TTTTTTTATA
1 TTTTTTTATA
13119341 TTTTT
1 TTTTT
13119346 GAAATCGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:13121092 original size:16 final size:17
Alignment explanation
Indices: 13121071--13121103 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13121061 AGTTGCTATA
13121071 CTTG-AATAATTTTGGT
1 CTTGAAATAATTTTGGT
*
13121087 CTTGAAATGATTTTGGT
1 CTTGAAATAATTTTGGT
13121104 TTATGTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (17 bp):
CTTGAAATAATTTTGGT
Found at i:13141001 original size:63 final size:64
Alignment explanation
Indices: 13140925--13141076 Score: 218
Period size: 64 Copynumber: 2.4 Consensus size: 64
13140915 CTAATAGCAA
* *
13140925 CAGTGAGTCACACGGCCTAGACACACGCCT-TTGTCCCT-ACCCGTATGATCCTTATCTTGTAAT
1 CAGTGAGTTACACGGCCTGGACACAC-CCTCTTGTCCCTAACCCGTATGATCCTTATCTTGTAAT
* * * *
13140988 CAGTGAGTTACACGGCCTGGACCCACCCTCTTGTCCTTAACCCGTGTGATCTTTATCTTGTAAT
1 CAGTGAGTTACACGGCCTGGACACACCCTCTTGTCCCTAACCCGTATGATCCTTATCTTGTAAT
*
13141052 CAATGAGTTACACGGCCTGGACACA
1 CAGTGAGTTACACGGCCTGGACACA
13141077 TGCTCGTGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
62 3 0.04
63 30 0.38
64 46 0.58
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (64 bp):
CAGTGAGTTACACGGCCTGGACACACCCTCTTGTCCCTAACCCGTATGATCCTTATCTTGTAAT
Found at i:13141778 original size:24 final size:24
Alignment explanation
Indices: 13141746--13141792 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13141736 AAAATCACAA
13141746 AAGAAAAGAAAAGTA-AAGAAGAAG
1 AAGAAAAGAAAA-TAGAAGAAGAAG
13141770 AAGAAAAGAAAATAGAAGAAGAA
1 AAGAAAAGAAAATAGAAGAAGAA
13141793 TAACTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.04
Consensus pattern (24 bp):
AAGAAAAGAAAATAGAAGAAGAAG
Found at i:13141786 original size:18 final size:19
Alignment explanation
Indices: 13141746--13141792 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
13141736 AAAATCACAA
13141746 AAGAA-AAGAAAAGTAAAG
1 AAGAAGAAGAAAAGTAAAG
13141764 AAGAAGAAGAAAAG-AAA-
1 AAGAAGAAGAAAAGTAAAG
13141781 ATAGAAGAAGAA
1 A-AGAAGAAGAA
13141793 TAACTAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 18 0.67
19 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.04
Consensus pattern (19 bp):
AAGAAGAAGAAAAGTAAAG
Found at i:13146943 original size:10 final size:9
Alignment explanation
Indices: 13146930--13146991 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
13146920 AAAAAAAAAT
13146930 AAATTTTATA
1 AAATTTTA-A
* *
13146940 AAATTGTATT
1 AAATTTTA-A
13146950 AAATTTTAA
1 AAATTTTAA
*
13146959 TAAAATTTAA
1 -AAATTTTAA
13146969 AAA-TTTAA
1 AAATTTTAA
13146977 AAATTATTAA
1 AAATT-TTAA
13146987 AAATT
1 AAATT
13146992 ATAATTTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.18
9 4 0.09
10 32 0.73
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
AAATTTTAA
Found at i:13147444 original size:91 final size:90
Alignment explanation
Indices: 13147265--13147477 Score: 207
Period size: 91 Copynumber: 2.4 Consensus size: 90
13147255 AATTTTTAAT
* *
13147265 AAAAGTAGAGGCTTAATTGCTTTTTTTGAAAAAGCTCGAGGGTCTTTTTGATGCATCTTGAAAGT
1 AAAAGTAGAGGCTTAATTGATTTTTTTGAAAAAGCTCGAGGGCCTTTTTGATGCATCTTGAAAGT
* * * *
13147330 TCAAGTACTCAATTAAAAGAAAAAA
66 TCAAATACTAAATGAAAACAAAAAA
* * * * * *
13147355 AAAAGGTAGCGGCTTAATTGATTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGTATTTTGAAAG
1 AAAA-GTAGAGGCTTAATTGATTTTTTTGAAAAAGCTCGAGGGCCTTTTTGATGCATCTTGAAAG
* **
13147420 TTCAAATGGC-AAATGAGTAC--AAAA
65 TTCAAAT-ACTAAATGAAAACAAAAAA
** * * *
13147444 AAAAGGGGGGGCTTAATTGCTTTATTTGAAAAAG
1 AAAAGTAGAGGCTTAATTGATTTTTTTGAAAAAG
13147478 TTGATGGTTT
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
88 24 0.24
89 8 0.08
90 4 0.04
91 63 0.63
92 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.33
Consensus pattern (90 bp):
AAAAGTAGAGGCTTAATTGATTTTTTTGAAAAAGCTCGAGGGCCTTTTTGATGCATCTTGAAAGT
TCAAATACTAAATGAAAACAAAAAA
Found at i:13148607 original size:5 final size:5
Alignment explanation
Indices: 13148594--13148636 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
13148584 AAAATTCTAA
* * *
13148594 TATTC TATTT TATTT TATTG TATTT TGATTT TATTA TATTT TA
1 TATTT TATTT TATTT TATTT TATTT T-ATTT TATTT TATTT TA
13148637 ACCCCTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (5 bp):
TATTT
Found at i:13148626 original size:16 final size:15
Alignment explanation
Indices: 13148594--13148636 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
13148584 AAAATTCTAA
*
13148594 TATTCTATTTTATTT
1 TATTATATTTTATTT
*
13148609 TATTGTATTTTGATTT
1 TATTATATTTT-ATTT
13148625 TATTATATTTTA
1 TATTATATTTTA
13148637 ACCCCTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (15 bp):
TATTATATTTTATTT
Found at i:13153217 original size:79 final size:79
Alignment explanation
Indices: 13153086--13153243 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
13153076 CTTTTTAGCG
*
13153086 CCGCTAATACTTTTAGCGGCACTTTCACAAGTGCTGCAAAAAACGCCGCTGTTGACAACGTCGCT
1 CCGCTAATACTTTTAGCGGCACTTTCACAAGCGCTGCAAAAAACGCCGCTGTTGACAACGTCGCT
13153151 AACATTTGCGGCGT
66 AACATTTGCGGCGT
13153165 CCGCTAATACTTTTAGCGGCACTTTCACAAGCGCTGCAAAAAACGCCGCTGTTGACAACGTCGCT
1 CCGCTAATACTTTTAGCGGCACTTTCACAAGCGCTGCAAAAAACGCCGCTGTTGACAACGTCGCT
13153230 AACATTTGCGGCGT
66 AACATTTGCGGCGT
13153244 TTTTAGAAAC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCGCTAATACTTTTAGCGGCACTTTCACAAGCGCTGCAAAAAACGCCGCTGTTGACAACGTCGCT
AACATTTGCGGCGT
Found at i:13153349 original size:43 final size:43
Alignment explanation
Indices: 13153254--13153335 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
13153244 TTTTAGAAAC
*
13153254 AAACGCCGCTAAAGG-CAAGGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGGTC-AGGACCTTTAGCGGCGCTTTTACCAA
*
13153297 AAACGCCGCTAAAGGTCAGGATCTTTAGCGGCGCTTTTA
1 AAACGCCGCTAAAGGTCAGGACCTTTAGCGGCGCTTTTA
13153336 TTACAATTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAGGACCTTTAGCGGCGCTTTTACCAA
Found at i:13153366 original size:43 final size:43
Alignment explanation
Indices: 13153254--13153378 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
13153244 TTTTAGAAAC
* *
13153254 AAACGCCGCTAAAG-GCAAGGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGATC-AGGACCTTTAGCGGCGCTTTTACCAA
* * ** *
13153297 AAACGCCGCTAAAGGTCAGGATCTTTAGCGGCGCTTTTATTAC
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTACCAA
** * * *
13153340 AATTGCCGCTGAAGATCATGACCTTTAGCAGCGCCTTTT
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCG-CTTTT
13153379 CCACAGACGC
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
43 61 0.91
44 6 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTACCAA
Found at i:13153660 original size:18 final size:18
Alignment explanation
Indices: 13153637--13153695 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
13153627 TTAAAACAAG
13153637 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
13153655 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
13153672 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
13153690 TTACAT
1 TTACAT
13153696 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Done.