Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 80 of 290
Found at i:24362388 original size:18 final size:18
Alignment explanation
Indices: 24362365--24362403 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
24362355 ATAAAACATC
24362365 ATCAATGACAAATTTTTT
1 ATCAATGACAAATTTTTT
24362383 ATCAATGACAAATTTTTT
1 ATCAATGACAAATTTTTT
24362401 ATC
1 ATC
24362404 TTTAAGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (18 bp):
ATCAATGACAAATTTTTT
Found at i:24368015 original size:13 final size:13
Alignment explanation
Indices: 24367982--24368036 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
24367972 AGCCAAATAC
24367982 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
24367995 TAAA-AATAAAAA
1 TAAATAATAAAAA
*
24368007 TAAATAATAAAAC
1 TAAATAATAAAAA
*
24368020 TAAATAAAACAAAA
1 TAAATAATA-AAAA
24368034 TAA
1 TAA
24368037 TATCTTCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.08
12 8 0.22
13 19 0.53
14 6 0.17
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:24375201 original size:48 final size:47
Alignment explanation
Indices: 24375145--24375406 Score: 247
Period size: 48 Copynumber: 5.5 Consensus size: 47
24375135 ATATGTCGAG
*
24375145 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCATT
* * *
24375193 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATGATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAT-T
* * * **
24375240 GGCCGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAAC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCATT
* * * * *
24375289 ACCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCATT
* * * * * * * * *
24375337 GCGGATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCACATCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCATT
*
24375385 GCCGATGCCATGTCCCAAACAT
1 GCCGATGCCATGTCCCAGACAT
24375407 AGTATTATAC
Statistics
Matches: 178, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
46 3 0.02
47 1 0.01
48 171 0.96
50 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCATT
Found at i:24375258 original size:96 final size:96
Alignment explanation
Indices: 24375104--24375329 Score: 285
Period size: 96 Copynumber: 2.4 Consensus size: 96
24375094 ATTGCCGATA
* * *
24375104 CCATGTTCTAAACATGGTCTTATACTGGCTCAT-ATGTCGAGGCCGATGCCATGTCCCAGACATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTC-TCATGTCGAGGCCGATGCCATGTCCCAGACATG
* * * * ***
24375168 GTCTTACACTAGCTCTCGTCTCATTGCCAATG
65 GTCTTACACTAGCGCACATATCAACACCAATG
* *
24375200 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCCAGACATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATG-TCGAGGCCGATGCCATGTCCCAGACATG
* *
24375264 GTTTTACACTAGCGCACATATCAACACCGATG
65 GTCTTACACTAGCGCACATATCAACACCAATG
*
24375296 CCATGTCCCAAACATGGTCTTACACTAGCTCTCA
1 CCATGTCCCAAACATGGTCTTACACTGGCTCTCA
24375330 CAACATCGCG
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 110 0.98
97 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
CCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCGATGCCATGTCCCAGACATGG
TCTTACACTAGCGCACATATCAACACCAATG
Found at i:24375359 original size:144 final size:144
Alignment explanation
Indices: 24375146--24375430 Score: 376
Period size: 144 Copynumber: 2.0 Consensus size: 144
24375136 TATGTCGAGG
* * * * *
24375146 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCATTGCCAATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGACACATCGCCAATGCCATGTCCCAA
* * * * *
24375211 ACATGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCCAGACATGGTTTTACACTA
66 ACATGGTCTTACACTGGCTCTCA-CATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTA
*
24375275 GCGCACATATCAACA
130 GCACACATATCAACA
** * *
24375290 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-ACAACATCGCGGATGTCATGTTCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGAC-ACATCGCCAATGCCATGTCCCA
* * *
24375354 AACATGGTCTTACATTGGCTCTCACATCGTAGCCGATGCCATGTCCCAAACATAGTATTATACTG
65 AACATGGTCTTACACTGGCTCTCACATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTA
24375419 GCACACATATCA
130 GCACACATATCA
24375431 CCCAAATGTC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
143 3 0.02
144 118 0.98
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (144 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGACACATCGCCAATGCCATGTCCCAA
ACATGGTCTTACACTGGCTCTCACATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTAG
CACACATATCAACA
Found at i:24375390 original size:96 final size:95
Alignment explanation
Indices: 24375145--24375406 Score: 283
Period size: 96 Copynumber: 2.7 Consensus size: 95
24375135 ATATGTCGAG
* * *
24375145 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTC-TCATTGCCAATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACATC-TAGCCGATGCCATGTCCC
* * ** ** *
24375209 AGACATGGTCTTACACTGGCTCTCATGATGTG
64 AAACATGGTCTTACACTAGCTCTCACAACATC
* * * * * *
24375241 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAACACCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTA-GCCGATGCCATGTCCCA
24375306 AACATGGTCTTACACTAGCTCTCACAACATC
65 AACATGGTCTTACACTAGCTCTCACAACATC
* * * * * *
24375337 GCGGATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCACATCGTAGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATC-TAGCCGATGCCATGTCCCA
24375402 AACAT
65 AACAT
24375407 AGTATTATAC
Statistics
Matches: 135, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
96 134 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTAGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCTCTCACAACATC
Found at i:24378069 original size:2 final size:2
Alignment explanation
Indices: 24378062--24378094 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24378052 GAAAATTTTC
24378062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24378095 AATGGCGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24383790 original size:18 final size:19
Alignment explanation
Indices: 24383769--24383807 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
24383759 CTAAAAAATT
24383769 AAATGAAATGA-AAATAAA
1 AAATGAAATGAGAAATAAA
* *
24383787 AAATTAAATGAGTAATAAA
1 AAATGAAATGAGAAATAAA
24383806 AA
1 AA
24383808 CATAGCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (19 bp):
AAATGAAATGAGAAATAAA
Found at i:24385433 original size:93 final size:93
Alignment explanation
Indices: 24385321--24385492 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
24385311 CGCCCATAAG
*
24385321 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
24385385 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
24385414 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24385479 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24385493 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24385487 original size:46 final size:46
Alignment explanation
Indices: 24385314--24385489 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
24385304 TGTAACCCGC
* *
24385314 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
24385360 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
24385410 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24385453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24385490 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24389250 original size:20 final size:21
Alignment explanation
Indices: 24389209--24389261 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
24389199 AACACAACTT
*
24389209 TTATTCATAAAAAAATAAAAA
1 TTATACATAAAAAAATAAAAA
* *
24389230 TTATATATAAAAAAAT-CAAA
1 TTATACATAAAAAAATAAAAA
*
24389250 TTCTACATAAAA
1 TTATACATAAAA
24389262 TCAGAGTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (21 bp):
TTATACATAAAAAAATAAAAA
Found at i:24394080 original size:28 final size:28
Alignment explanation
Indices: 24394020--24394077 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
24394010 CTTCATTTAC
*
24394020 TAAAAAAAAACATATCAAGTATATTAAAT
1 TAAAAAAAAACATA-CAAATATATTAAAT
24394049 TAAAAAAAATACATA-AAATATAATTAAAT
1 TAAAAAAAA-ACATACAAATAT-ATTAAAT
24394078 AAATAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
29 16 0.62
30 5 0.19
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (28 bp):
TAAAAAAAAACATACAAATATATTAAAT
Found at i:24395580 original size:92 final size:92
Alignment explanation
Indices: 24395423--24395607 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
24395413 ATGAACGCCA
*
24395423 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTTGGAATTATTTCATGGG
1 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
24395488 AGTTAGTTTGAAAGTGGTAATTTATGG
66 AGTTAGTTTGAAAGTGGTAATTTATGG
24395515 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
1 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
24395580 AGTTAGTTTGAAAGTGGTAATTTATGG
66 AGTTAGTTTGAAAGTGGTAATTTATGG
24395607 T
1 T
24395608 GAATCTTCAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (92 bp):
TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
AGTTAGTTTGAAAGTGGTAATTTATGG
Found at i:24397082 original size:3 final size:3
Alignment explanation
Indices: 24397074--24397113 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
24397064 AGTAAAATTT
*
24397074 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24397114 ATCTACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24401505 original size:26 final size:26
Alignment explanation
Indices: 24401476--24401571 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 26
24401466 TTATATTAAA
24401476 AATTTTATTAAATTATATTTAATAAT
1 AATTTTATTAAATTATATTTAATAAT
* * * **
24401502 AATTATGTTAAAATATGGTTAACTTATTTATT
1 AATTTTATTAAATTATATTTAA--TA---A-T
* *
24401534 ATTTTTATTAAATTATTTTTAATAAT
1 AATTTTATTAAATTATATTTAATAAT
*
24401560 AATCTTATTAAA
1 AATTTTATTAAA
24401572 ATTTAATAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
26 28 0.55
27 1 0.02
28 2 0.04
30 2 0.04
31 1 0.02
32 17 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
AATTTTATTAAATTATATTTAATAAT
Found at i:24401973 original size:16 final size:16
Alignment explanation
Indices: 24401952--24401982 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24401942 AACATTATGA
*
24401952 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
24401968 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
24401983 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:24402690 original size:20 final size:21
Alignment explanation
Indices: 24402667--24402721 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
24402657 AATAAATTTT
*
24402667 TAATAATTTATTTAAA-TAAA
1 TAATAATTAATTTAAATTAAA
24402687 TAATAATTAATTTCAAATTAAA
1 TAATAATTAATTT-AAATTAAA
24402709 -AAT-ATTAATTTAA
1 TAATAATTAATTTAA
24402722 GTAATTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.06
20 20 0.62
21 6 0.19
22 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAATTAATTTAAATTAAA
Found at i:24403798 original size:7 final size:7
Alignment explanation
Indices: 24403786--24403811 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24403776 TTTTGAAACA
24403786 TTAAATT
1 TTAAATT
24403793 TTAAATT
1 TTAAATT
24403800 TTAAATT
1 TTAAATT
24403807 TTAAA
1 TTAAA
24403812 ACTTCAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:24416065 original size:28 final size:27
Alignment explanation
Indices: 24416022--24416119 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 27
24416012 GAAATCAGAG
24416022 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
24416049 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
* *
24416077 TCAGAGTATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
*
24416109 TCAATCTGGGC
1 TTAATCTGGGC
24416120 TGTAGCCCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
27 11 0.19
28 22 0.39
30 2 0.04
32 14 0.25
33 8 0.14
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:24416090 original size:61 final size:61
Alignment explanation
Indices: 24415992--24416166 Score: 182
Period size: 60 Copynumber: 2.9 Consensus size: 61
24415982 TCAAGTTTTA
* *
24415992 CTGGGCC-TAAGCCCTATTCAGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATT-ACAAATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAAT
* *
24416054 CTGGGCCATAGCCC-CTTACAATATCAGAGTATACTGGGCC-TAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAA-ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
** * * *
24416114 CTGGGCTGTAGCCCTATTACAAGTC-GAGATATATTGGGCATT-GCCCATATCAA
1 CTGGGCCATAGCCCTATTACAAATCAGAG-TATACTGGGCCTTAGCCCATATCAA
24416167 CACAGTTGGC
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
59 3 0.03
60 54 0.56
61 25 0.26
62 13 0.14
63 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAAATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:24420088 original size:28 final size:27
Alignment explanation
Indices: 24420045--24420150 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 27
24420035 GAAATCAGAG
24420045 TTAAT-TGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
24420072 TTAATCTGGGCCATAGCCC-TTTACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
*
24420100 TTAGAGTATACTGGGCCTAGCCCATATCAGTA
1 TT--A--AT-CTGGGCCTAGCCCATATCAATA
*
24420132 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
24420151 TATTACAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
27 14 0.22
28 27 0.42
30 2 0.03
32 13 0.20
33 9 0.14
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:24420138 original size:60 final size:60
Alignment explanation
Indices: 24420050--24420189 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 60
24420040 CAGAGTTAAT
* *
24420050 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCT-TTACAA-TATTAGAGTATAC
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTA-GAGA-TATAC
* * * *
24420111 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTAGAGATATAC
*
24420171 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
24420190 CACAGTTGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
60 53 0.77
61 15 0.22
62 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTAGAGATATAC
Found at i:24428213 original size:29 final size:29
Alignment explanation
Indices: 24428180--24428240 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
24428170 AATTGGTAAC
* *
24428180 TTAGTTTTAGTTTTAATAACTTCTTACGT
1 TTAGTTTTAGTTTCAATAACTTCTTACAT
24428209 TTAGTTTTAGTTTCAATAACTTCTTACAT
1 TTAGTTTTAGTTTCAATAACTTCTTACAT
24428238 TTA
1 TTA
24428241 ATTCTACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.54
Consensus pattern (29 bp):
TTAGTTTTAGTTTCAATAACTTCTTACAT
Found at i:24436789 original size:21 final size:20
Alignment explanation
Indices: 24436765--24436803 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24436755 GAGTATTTTT
24436765 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
24436786 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
24436804 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:24438997 original size:17 final size:17
Alignment explanation
Indices: 24438975--24439010 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24438965 TATGTATATA
24438975 TAGGTGTGCATATAGCC
1 TAGGTGTGCATATAGCC
24438992 TAGGTGTGCATATAGCC
1 TAGGTGTGCATATAGCC
24439009 TA
1 TA
24439011 TGTTATGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (17 bp):
TAGGTGTGCATATAGCC
Found at i:24440518 original size:14 final size:14
Alignment explanation
Indices: 24440501--24440531 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24440491 ACATATAATT
*
24440501 TGGCCCAATTGGAA
1 TGGCCCAATCGGAA
24440515 TGGCCCAATCGGAA
1 TGGCCCAATCGGAA
24440529 TGG
1 TGG
24440532 TCCATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (14 bp):
TGGCCCAATCGGAA
Found at i:24440622 original size:19 final size:19
Alignment explanation
Indices: 24440598--24440676 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
24440588 AATCTTTAAA
*
24440598 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
24440617 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24440636 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24440653 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24440674 GAT
1 GAT
24440677 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
21 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24440634 original size:14 final size:15
Alignment explanation
Indices: 24440617--24440654 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
24440607 TCTTAGGTAT
24440617 GATATG-CAATCTTA
1 GATATGACAATCTTA
24440631 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24440648 GATATGA
1 GATATGA
24440655 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24440644 original size:36 final size:37
Alignment explanation
Indices: 24440604--24440676 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
24440594 TAAAGATATG
*
24440604 CAATCTTAGGTATGATATGCAATCTT-AGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAAGATATGATA
24440640 CAATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATGATATGCAATCTT-AAGATATGAT
24440677 CTTGTAATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
38 9 0.26
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAAGATATGATA
Found at i:24447681 original size:19 final size:19
Alignment explanation
Indices: 24447659--24447701 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24447649 TGAAGTTAAA
24447659 TTATTTAATCATTTTTATT
1 TTATTTAATCATTTTTATT
* *
24447678 TTATTTTATTATTTTTATT
1 TTATTTAATCATTTTTATT
24447697 TTATT
1 TTATT
24447702 CCTTTCTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTAATCATTTTTATT
Found at i:24447766 original size:14 final size:14
Alignment explanation
Indices: 24447747--24447773 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24447737 CCTCTCTTGG
24447747 TTTTTCTTTTCTTC
1 TTTTTCTTTTCTTC
24447761 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
24447774 TTTGGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTCTTC
Found at i:24449603 original size:21 final size:21
Alignment explanation
Indices: 24449564--24449603 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24449554 AATTCCAATT
*
24449564 TAAGTTTTATTCGATTTATTC
1 TAAGTTTTATTCGACTTATTC
24449585 TAAGTTTTATTTCG-CTTAT
1 TAAGTTTTA-TTCGACTTAT
24449604 ATATATACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TAAGTTTTATTCGACTTATTC
Found at i:24460107 original size:58 final size:58
Alignment explanation
Indices: 24460017--24460134 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
24460007 CATAATATTG
24460017 CTCAACAACAGTTTTAAACTTTTCAATCCCCCAAGAGCTGATCAAATATTTCATTCTA
1 CTCAACAACAGTTTTAAACTTTTCAATCCCCCAAGAGCTGATCAAATATTTCATTCTA
24460075 CTCAACAACAGTTTTAAACTTTTCAATCCCCCAAGAGCTGATCAAATATTTCATTCTA
1 CTCAACAACAGTTTTAAACTTTTCAATCCCCCAAGAGCTGATCAAATATTTCATTCTA
24460133 CT
1 CT
24460135 ATATCTACGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (58 bp):
CTCAACAACAGTTTTAAACTTTTCAATCCCCCAAGAGCTGATCAAATATTTCATTCTA
Found at i:24460127 original size:28 final size:28
Alignment explanation
Indices: 24460037--24460127 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
24460027 GTTTTAAACT
24460037 TTTCAATCCCCCAAGAGCTGATCAAATA
1 TTTCAATCCCCCAAGAGCTGATCAAATA
* * * * * * * *
24460065 TTTCATTCTACTCAACAACAGTTTTAAACT-
1 TTTCAATC-CCCCAAGAGCTG-ATCAAA-TA
24460095 TTTCAATCCCCCAAGAGCTGATCAAATA
1 TTTCAATCCCCCAAGAGCTGATCAAATA
24460123 TTTCA
1 TTTCA
24460128 TTCTACTATA
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
27 1 0.02
28 16 0.37
29 14 0.33
30 11 0.26
31 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
TTTCAATCCCCCAAGAGCTGATCAAATA
Found at i:24462060 original size:18 final size:17
Alignment explanation
Indices: 24462033--24462067 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24462023 TATTATAATT
*
24462033 AAATAAAAATTCATTCA
1 AAATAAAAATTAATTCA
24462050 AAATGAAAAATTAATTCA
1 AAAT-AAAAATTAATTCA
24462068 GGTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTAATTCA
Found at i:24463245 original size:23 final size:22
Alignment explanation
Indices: 24463197--24463255 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
24463187 CCAACCCAAA
24463197 TATATTATATTATAAAAATTAAT
1 TATATTA-ATTATAAAAATTAAT
* * *
24463220 TATATTAATTATATATATTTATT
1 TATATTAATTATA-AAAATTAAT
24463243 TATATTGAATTAT
1 TATATT-AATTAT
24463256 TAACCCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTAATTATAAAAATTAAT
Found at i:24463481 original size:16 final size:16
Alignment explanation
Indices: 24463462--24463509 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
24463452 TACATTATAA
*
24463462 TTTTTAAAAAATTTAT
1 TTTTTAAAAAATTAAT
*
24463478 TTTTTAAATAAA-AAAT
1 TTTTTAAA-AAATTAAT
24463494 TATTTTAAAAAATTAA
1 T-TTTTAAAAAATTAA
24463510 ATATAGGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTTAAAAAATTAAT
Found at i:24464263 original size:13 final size:13
Alignment explanation
Indices: 24464245--24464269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24464235 ATTAGCTTGA
24464245 ATGAAACATGTTC
1 ATGAAACATGTTC
24464258 ATGAAACATGTT
1 ATGAAACATGTT
24464270 TCTGGTTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAAACATGTTC
Found at i:24465276 original size:22 final size:20
Alignment explanation
Indices: 24465237--24465273 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24465227 TATTATATAT
24465237 AATATATTTTTTATATTAAC
1 AATATATTTTTTATATTAAC
24465257 AATATATTTTTTA-ATTA
1 AATATATTTTTTATATTA
24465274 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATATTTTTTATATTAAC
Found at i:24468291 original size:13 final size:13
Alignment explanation
Indices: 24468273--24468299 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24468263 CTTCGGCCAC
24468273 ACTTATCTGATCA
1 ACTTATCTGATCA
24468286 ACTTATCTGATCA
1 ACTTATCTGATCA
24468299 A
1 A
24468300 GGACAAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (13 bp):
ACTTATCTGATCA
Found at i:24468399 original size:31 final size:31
Alignment explanation
Indices: 24468362--24468510 Score: 187
Period size: 31 Copynumber: 4.8 Consensus size: 31
24468352 ACAAATGACA
*
24468362 AGTGAAAAGTGGTAGCTTTGGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
*
24468393 AGTGAAAAGTCGTAGCTTCT-GCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-TGGCTACCTGATC
* **
24468424 AGTGAAGAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
* *
24468455 AGTGAAAAATGGTAGC-TCGAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTTG-GCTACCTGATC
24468486 AGTGAATAA-TGGTAGCTTTGGCTAC
1 AGTGAA-AAGTGGTAGCTTTGGCTAC
24468511 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.02
31 96 0.93
32 5 0.05
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
Found at i:24468687 original size:49 final size:49
Alignment explanation
Indices: 24468527--24468757 Score: 220
Period size: 47 Copynumber: 4.9 Consensus size: 49
24468517 CAAGTGACAA
* * * *
24468527 GTGATTTACGTATAAGACCATATCTGGGATATGGCATCG--GTGTGATAT
1 GTGA-TTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
* * * * * * * *
24468575 ATG-CTACTGTATAAGACCATATCTGGGATACGGCATC-A-GTGAGATAT
1 GTGATTAC-GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
24468622 GTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
1 GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
*
24468670 GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGA-A-
1 GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
24468717 -T-A-T--GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
24468758 AGATGTGTAA
Statistics
Matches: 162, Mismatches: 14, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 35 0.22
44 1 0.01
45 1 0.01
46 29 0.18
47 40 0.25
48 17 0.10
49 38 0.23
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (49 bp):
GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
Found at i:24468724 original size:42 final size:43
Alignment explanation
Indices: 24468629--24468792 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 43
24468619 TATGTGATTC
*
24468629 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
24468676 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
24468720 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
24468762 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
24468793 GAAAACGAAG
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 30 0.29
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:24470506 original size:14 final size:14
Alignment explanation
Indices: 24470487--24470515 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24470477 ATATCACATA
24470487 AATTTATTAATATT
1 AATTTATTAATATT
24470501 AATTTATTAATATT
1 AATTTATTAATATT
24470515 A
1 A
24470516 TATATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTATTAATATT
Found at i:24471195 original size:25 final size:25
Alignment explanation
Indices: 24471142--24471200 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
24471132 CTTATTTCAT
* * *
24471142 TAAATAAA-AAATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
24471166 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
24471192 -AAATAAATA
1 TAAATAAATA
24471201 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:24471225 original size:19 final size:20
Alignment explanation
Indices: 24471182--24471225 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
24471172 AAATACATTT
*
24471182 AAAAACATAAAAATAAATAT
1 AAAAACATAAAAATAAATAA
* *
24471202 TAAAACA-AGAAATAAATAA
1 AAAAACATAAAAATAAATAA
24471221 AAAAA
1 AAAAA
24471226 TGAGACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAACATAAAAATAAATAA
Found at i:24472732 original size:17 final size:18
Alignment explanation
Indices: 24472695--24472733 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24472685 TTCCCTTCTA
*
24472695 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAACTTT
*
24472713 ATTTCTCTCTC-AACTTT
1 ATTTCTCACTCAAACTTT
24472730 ATTT
1 ATTT
24472734 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTCTCACTCAAACTTT
Found at i:24473121 original size:20 final size:19
Alignment explanation
Indices: 24473087--24473139 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
24473077 TACATCTCAA
*
24473087 AAAAT-TATAAAAAAACTT
1 AAAATATATATAAAAACTT
24473105 AAAAATAATATATAAAAAACTT
1 -AAAAT-ATATAT-AAAAACTT
24473127 AAAATATATATAA
1 AAAATATATATAA
24473140 TAAAAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 9 0.30
22 8 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATATATAAAAACTT
Found at i:24473122 original size:23 final size:22
Alignment explanation
Indices: 24473085--24473148 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 22
24473075 TTTACATCTC
24473085 AAAA-AAT-TATAAAAAAACTT
1 AAAATAATATATAAAAAAACTT
24473105 AAAAATAATATAT-AAAAAACTT
1 -AAAATAATATATAAAAAAACTT
24473127 AAAATATATATAATAAAAAAAC
1 AAAATA-ATAT-ATAAAAAAAC
24473149 CTCAAAACCC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.26
22 16 0.42
23 5 0.13
24 7 0.18
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATAATATATAAAAAAACTT
Found at i:24475276 original size:3 final size:3
Alignment explanation
Indices: 24475268--24475386 Score: 50
Period size: 3 Copynumber: 39.0 Consensus size: 3
24475258 TACGTTAAAT
* * *
24475268 TTA TTA TTA TTA TTA CTT- TTA TTCT TTA TTCA CTA TTA TTA TTC TTA
1 TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA
* * * *
24475315 CTAA TGCA TTA TTA TTA TTC TTA -TA TT- CTA CTTCA TTA TTA -TA TTA
1 -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA -TT-A TTA TTA TTA TTA
* * *
24475361 TTA CTA TTG TTA TTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
24475387 AACTAATTAA
Statistics
Matches: 85, Mismatches: 19, Indels: 24
0.66 0.15 0.19
Matches are distributed among these distances:
2 8 0.09
3 63 0.74
4 13 0.15
5 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:24475311 original size:20 final size:21
Alignment explanation
Indices: 24475286--24475356 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 21
24475276 ATTATTACTT
24475286 TTATTCTT-TATTCACTATTA
1 TTATTCTTATATTCACTATTA
* *
24475306 TTATTCTTACTAATGCATTATTA
1 TTATTCTTA-T-ATTCACTATTA
24475329 TTATTCTTATATTCTACTTCATTA
1 TTATTCTTATATTC-AC-T-ATTA
24475353 TTAT
1 TTAT
24475357 ATTATTACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 8 0.20
21 3 0.07
22 3 0.07
23 19 0.46
24 8 0.20
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.58
Consensus pattern (21 bp):
TTATTCTTATATTCACTATTA
Found at i:24475365 original size:49 final size:51
Alignment explanation
Indices: 24475270--24475366 Score: 128
Period size: 49 Copynumber: 1.9 Consensus size: 51
24475260 CGTTAAATTT
* *
24475270 ATTATTATTATTACTTTTATTCTTTATTCACTATTATTATTCTTACTAATGC
1 ATTATTATTATTACTTATATTC-TTATTCACTATTATTATTATTACTAATGC
*
24475322 ATTATTATTATT-CTTATATTC-TACTTCATTATTA-TATTATTACTA
1 ATTATTATTATTACTTATATTCTTA-TTCACTATTATTATTATTACTA
24475367 TTGTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 12 0.29
50 9 0.22
51 8 0.20
52 12 0.29
ACGTcount: A:0.29, C:0.12, G:0.01, T:0.58
Consensus pattern (51 bp):
ATTATTATTATTACTTATATTCTTATTCACTATTATTATTATTACTAATGC
Found at i:24475455 original size:3 final size:3
Alignment explanation
Indices: 24475447--24475496 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
24475437 ATATATTTAC
** *
24475447 ATT ATT ATT GCT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24475495 AT
1 AT
24475497 ATCTTCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:24479338 original size:21 final size:20
Alignment explanation
Indices: 24479313--24479358 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
24479303 TGCATCAAAT
24479313 ATAATCATTAATAAATAAAAA
1 ATAATCATTAATAAA-AAAAA
* *
24479334 ATAATCCTTAATAAAAACAA
1 ATAATCATTAATAAAAAAAA
24479354 ATAAT
1 ATAAT
24479359 TACTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATCATTAATAAAAAAAA
Found at i:24485973 original size:22 final size:22
Alignment explanation
Indices: 24485946--24485997 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24485936 GCTCTAATAG
*
24485946 TTTTATTTATTATTG-CATTTAT
1 TTTTATTTATTATAGTC-TTTAT
24485968 TTTTATTTATTATAGTCTTTAT
1 TTTTATTTATTATAGTCTTTAT
*
24485990 TTTAATTT
1 TTTTATTT
24485998 TTTTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTATTTATTATAGTCTTTAT
Found at i:24486743 original size:16 final size:16
Alignment explanation
Indices: 24486701--24486732 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24486691 TAATTACAGT
24486701 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
24486717 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
24486733 CTTATTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (16 bp):
TCTATTCCATTACAAC
Found at i:24487670 original size:15 final size:15
Alignment explanation
Indices: 24487650--24487715 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
24487640 ACTACAAAAC
24487650 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
24487665 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
24487684 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
24487699 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
24487712 ATTT
1 ATTT
24487716 TTCAATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:24491992 original size:18 final size:18
Alignment explanation
Indices: 24491959--24492009 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
24491949 GTTTGCAAGG
24491959 AAAAGAAAGCAAGAAAAACA
1 AAAAGAAA--AAGAAAAACA
*
24491979 AAAAGAAAAAGAAATACA
1 AAAAGAAAAAGAAAAACA
* *
24491997 AAATGGAAAAGAA
1 AAAAGAAAAAGAA
24492010 TAAAGAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 20 0.71
20 8 0.29
ACGTcount: A:0.75, C:0.06, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAACA
Found at i:24500934 original size:93 final size:93
Alignment explanation
Indices: 24500827--24500995 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
24500817 CCATAAACGA
*
24500827 ACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 ACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
24500891 GAGTTCGGATGCCTAGTTACATCTCACGG
65 GAGTTCGGATGCCTAGTTACATCTCACGG
*
24500920 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
24500985 AGTTCGGATGC
66 AGTTCGGATGC
24500996 TCAATCATCC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCACGG
Found at i:24500990 original size:46 final size:46
Alignment explanation
Indices: 24500825--24500992 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
24500815 GCCCATAAAC
* *
24500825 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGT
* *
24500871 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCACG-
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT-AAGT
24500919 G-ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
24500964 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
24500993 TGCTCAATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 4 0.04
46 52 0.50
47 27 0.26
48 2 0.02
49 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:24503454 original size:20 final size:19
Alignment explanation
Indices: 24503431--24503473 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
24503421 AGATATTATA
24503431 AAAATATATTAGA-ACATTGT
1 AAAATATATTA-ACA-ATTGT
*
24503451 AAAATTTATTAACAATTGT
1 AAAATATATTAACAATTGT
24503470 AAAA
1 AAAA
24503474 ATTATTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAATATATTAACAATTGT
Found at i:24508110 original size:15 final size:15
Alignment explanation
Indices: 24508090--24508134 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 15
24508080 TTTCAAATTT
24508090 ACTTTTCTAATAAGC
1 ACTTTTCTAATAAGC
*
24508105 ACTTTTC-CAT-AGC
1 ACTTTTCTAATAAGC
24508118 ACTTTT-TAA-AAGC
1 ACTTTTCTAATAAGC
24508131 ACTT
1 ACTT
24508135 CTCACTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 17 0.65
14 2 0.08
15 7 0.27
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (15 bp):
ACTTTTCTAATAAGC
Found at i:24508676 original size:19 final size:19
Alignment explanation
Indices: 24508639--24508675 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
24508629 TTATAAAAGT
24508639 TCAAAAAATATTTAAAAAA
1 TCAAAAAATATTTAAAAAA
*
24508658 TCAACAAAT-TTTAAAAAA
1 TCAAAAAATATTTAAAAAA
24508676 AAATTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAAAAATATTTAAAAAA
Found at i:24508817 original size:19 final size:19
Alignment explanation
Indices: 24508793--24508834 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
24508783 CTTTTTTATA
24508793 AAAAGAAAGTAATTTAACT
1 AAAAGAAAGTAATTTAACT
24508812 AAAAGAAAGTAATTTAACT
1 AAAAGAAAGTAATTTAACT
24508831 AAAA
1 AAAA
24508835 TTTAAAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAGAAAGTAATTTAACT
Found at i:24509085 original size:12 final size:12
Alignment explanation
Indices: 24509068--24509092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24509058 ACACTGTATA
24509068 TATATATATATT
1 TATATATATATT
24509080 TATATATATATT
1 TATATATATATT
24509092 T
1 T
24509093 GTGTAAAATT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:24519785 original size:35 final size:35
Alignment explanation
Indices: 24519739--24519810 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
24519729 AGAATTTTTA
24519739 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
1 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
*
24519774 ATAAAAAGGACTAATTGTTATTTGATTTAACATAT
1 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
24519809 AT
1 AT
24519811 GAATTAGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (35 bp):
ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
Found at i:24526451 original size:34 final size:33
Alignment explanation
Indices: 24526396--24526486 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 33
24526386 GTATGCATTT
* *
24526396 CTGATATTGTACTGAAATGGGCTAAGGCCCACA
1 CTGATACTGTACTGAAATGGGCTAAGACCCACA
* *
24526429 CTGATACTGTTACTGTATTGGGCTAAGACCCACA
1 CTGATACTG-TACTGAAATGGGCTAAGACCCACA
* *
24526463 CTGATATTGCGACTGAAATGGGCT
1 CTGATACTG-TACTGAAATGGGCT
24526487 TAGGCCCAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
33 8 0.17
34 40 0.83
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (33 bp):
CTGATACTGTACTGAAATGGGCTAAGACCCACA
Found at i:24528152 original size:66 final size:66
Alignment explanation
Indices: 24528075--24528207 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
24528065 TAGTGGCTAC
* *
24528075 TGAGTATGAGCGCTGTGTGCATTTTGAGGATGGTCTCAGAAATGATCTACGAGTTTTGATAGCTC
1 TGAGTATGAGCGCTGTGTGCATTTTGAGAACGGTCTCAGAAATGATCTACGAGTTTTGATAGCTC
24528140 T
66 T
24528141 TGAGTATGAGCGCTGTGTGCATTTTGAGAACGGTCTCAGAAATGATCTACGAGTTTTGATAGCTC
1 TGAGTATGAGCGCTGTGTGCATTTTGAGAACGGTCTCAGAAATGATCTACGAGTTTTGATAGCTC
24528206 T
66 T
24528207 T
1 T
24528208 CAGAGGGAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (66 bp):
TGAGTATGAGCGCTGTGTGCATTTTGAGAACGGTCTCAGAAATGATCTACGAGTTTTGATAGCTC
T
Found at i:24537065 original size:67 final size:67
Alignment explanation
Indices: 24536957--24537097 Score: 273
Period size: 67 Copynumber: 2.1 Consensus size: 67
24536947 AGTCTAAGCA
24536957 ATGCTCAAACTTGGTTATAGGAAGTGACTTAGTCATCATATCTGTAGGATTTTCATGAATACTAA
1 ATGCTCAAACTTGGTTATAGGAAGTGACTTAGTCATCATATCTGTAGGATTTTCATGAATACTAA
24537022 TT
66 TT
24537024 ATGCTCAAACTTGGTTATAGGAAGTGACTTAGTCATCATATCTGTAGGATTTTCATGAATACTAA
1 ATGCTCAAACTTGGTTATAGGAAGTGACTTAGTCATCATATCTGTAGGATTTTCATGAATACTAA
24537089 TT
66 TT
*
24537091 TTGCTCA
1 ATGCTCA
24537098 CAACAATATC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (67 bp):
ATGCTCAAACTTGGTTATAGGAAGTGACTTAGTCATCATATCTGTAGGATTTTCATGAATACTAA
TT
Found at i:24540953 original size:11 final size:11
Alignment explanation
Indices: 24540937--24540964 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24540927 AATATATTGC
24540937 AAAGAAAAAAT
1 AAAGAAAAAAT
24540948 AAAGAAAAAAT
1 AAAGAAAAAAT
24540959 AAAGAA
1 AAAGAA
24540965 CATACCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (11 bp):
AAAGAAAAAAT
Found at i:24552704 original size:27 final size:29
Alignment explanation
Indices: 24552643--24552704 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
24552633 AAAATAATAA
*
24552643 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
24552672 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
24552699 AAATAT
1 AAATAT
24552705 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:24552889 original size:36 final size:32
Alignment explanation
Indices: 24552849--24552922 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
24552839 TATAATAACA
* *
24552849 ATAATATAATGAATAATATATATATAGTAAAATGAT
1 ATAATAT-AT-AATAAAATATATA-AATAAAATG-T
*
24552885 ATAATATATTATAAAATATATAAATAAAATGT
1 ATAATATATAATAAAATATATAAATAAAATGT
24552917 ATAATA
1 ATAATA
24552923 ATGTAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 7 0.20
33 8 0.23
34 11 0.31
35 2 0.06
36 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
ATAATATATAATAAAATATATAAATAAAATGT
Found at i:24552893 original size:20 final size:19
Alignment explanation
Indices: 24552866--24552907 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
24552856 AATGAATAAT
24552866 ATATATATAGTAAAATGATATA
1 ATATAT-TA-TAAAAT-ATATA
24552888 ATATATTATAAAATATATA
1 ATATATTATAAAATATATA
24552907 A
1 A
24552908 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 2 0.10
22 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATATTATAAAATATATA
Found at i:24554718 original size:21 final size:21
Alignment explanation
Indices: 24554694--24554765 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
24554684 ATACGCCAAA
24554694 TCTGTCATCTTCGATCTGCTC
1 TCTGTCATCTTCGATCTGCTC
* *
24554715 TCTGTCAAT-ATAGATAC-GC-C
1 TCTGTC-ATCTTCGAT-CTGCTC
24554735 AAATCTGTCATCTTCGATCTGCTC
1 ---TCTGTCATCTTCGATCTGCTC
24554759 TCTGTCA
1 TCTGTCA
24554766 ATACAGAGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 19 0.49
22 6 0.15
23 12 0.31
24 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (21 bp):
TCTGTCATCTTCGATCTGCTC
Found at i:24554930 original size:44 final size:44
Alignment explanation
Indices: 24554484--24554917 Score: 654
Period size: 44 Copynumber: 9.9 Consensus size: 44
24554474 TTCGTTATCC
24554484 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-CTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC-ATCT
* * ** * * *
24554528 CCGATCTGATCTCTAACAATATAGAGACGCCAAACCTGTTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24554572 TCGATCTGCTCTCTGTCAATACAGAAACTCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * * *
24554616 TTGATCTGTTCTCTGACAATACAGAGACGCCAAATCTGTCATCA
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24554660 TCGATCTGCTCTCTGACAATACAGATACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24554704 TCGATCTGCTCTCTGTCAATATAGATACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
24554748 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
24554792 TTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
24554836 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTATCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24554880 TCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTG
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
24554918 CTATTGGTGA
Statistics
Matches: 351, Mismatches: 38, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
44 351 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
Found at i:24566863 original size:27 final size:29
Alignment explanation
Indices: 24566802--24566863 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
24566792 AAAATAATAA
*
24566802 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
24566831 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
24566858 AAATAT
1 AAATAT
24566864 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:24567038 original size:26 final size:23
Alignment explanation
Indices: 24567009--24567056 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
24566999 ATAATAAAAA
24567009 TAAAATAATGAATAATATATATATAG
1 TAAAATAAT--ATAATATAT-TATAG
*
24567035 TAAAATGATATAATATATTATA
1 TAAAATAATATAATATATTATA
24567057 AAATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
26 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
TAAAATAATATAATATATTATAG
Found at i:24567052 original size:20 final size:19
Alignment explanation
Indices: 24567025--24567066 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
24567015 AATGAATAAT
24567025 ATATATATAGTAAAATGATATA
1 ATATAT-TA-TAAAAT-ATATA
24567047 ATATATTATAAAATATATA
1 ATATATTATAAAATATATA
24567066 A
1 A
24567067 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 2 0.10
22 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATATTATAAAATATATA
Found at i:24567069 original size:20 final size:23
Alignment explanation
Indices: 24567015--24567069 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 23
24567005 AAAATAAAAT
24567015 AATGA-ATAATATATATATAGTAA
1 AATGATATAA-ATATATATAGTAA
24567038 AATGATAT-AATATAT-TA-TAA
1 AATGATATAAATATATATAGTAA
24567058 AAT-ATATAAATA
1 AATGATATAAATA
24567070 AAATGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.13
20 10 0.33
21 2 0.07
22 6 0.20
23 6 0.20
24 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
AATGATATAAATATATATAGTAA
Found at i:24581286 original size:6 final size:6
Alignment explanation
Indices: 24581277--24581316 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
24581267 GTAGTACCAT
24581277 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATT
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATT
24581317 GCCTCCACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:24585260 original size:6 final size:6
Alignment explanation
Indices: 24585240--24585272 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
24585230 TCTATATTAT
24585240 AAATAA AAA-ATA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATA-A AAATAA AAATAA AAATAA AAA
24585273 AGAGGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 23 0.92
7 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:24586515 original size:17 final size:16
Alignment explanation
Indices: 24586477--24586508 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24586467 GAAGAAAGTT
24586477 AAAATAAGTAATATAC
1 AAAATAAGTAATATAC
24586493 AAAATAA-TAATATAC
1 AAAATAAGTAATATAC
24586508 A
1 A
24586509 CAAAATACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATAAGTAATATAC
Found at i:24586759 original size:15 final size:13
Alignment explanation
Indices: 24586727--24586756 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24586717 AAAATAGTTC
*
24586727 AAAATAATATGTT
1 AAAATAATATATT
24586740 AAAATAATATATT
1 AAAATAATATATT
24586753 AAAA
1 AAAA
24586757 AATGAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATAATATATT
Found at i:24586818 original size:21 final size:21
Alignment explanation
Indices: 24586794--24586834 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24586784 TATAAAAACA
*
24586794 TGAACTAAAAA-AAAACTCAAT
1 TGAAATAAAAACAAAA-TCAAT
24586815 TGAAATAAAAACAAAATCAA
1 TGAAATAAAAACAAAATCAA
24586835 AGGGATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (21 bp):
TGAAATAAAAACAAAATCAAT
Found at i:24588444 original size:44 final size:43
Alignment explanation
Indices: 24588312--24588536 Score: 143
Period size: 45 Copynumber: 5.0 Consensus size: 43
24588302 GAGACTAGCC
* * *
24588312 TTGTAGCTTTTAATCTGCTTTACTGCAATTTCAGGGAGATAAGGT
1 TTGTAGC-TTTAATCTGCTTCACTGCAACTTCAGGGAGATAA-GA
** * * * **
24588357 TTGTATATTTTTATCCTG-TTCTACTACAACTTTAAAGAGATAAGGA
1 TTGTA-GCTTTAAT-CTGCTTC-ACTGCAACTTCAGGGAGATAA-GA
*
24588403 TTGTAGCTTTGATCTGCTTCACTGCAACTTCAGGGAGATAAGA
1 TTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
* * * * *
24588446 TCTGATATCTTCAACCTG-TACCTCTGCAACTTCAGGGAGATAAGA
1 T-TG-TAGCTTTAATCTGCT-TCACTGCAACTTCAGGGAGATAAGA
* * *
24588491 CTTGTAGCTTAAATCTGC-TCCCTTGCTACCTT-AGGGAGATAAGA
1 -TTGTAGCTTTAATCTGCTTCAC-TGC-AACTTCAGGGAGATAAGA
24588535 TT
1 TT
24588537 CGCCGTCTTC
Statistics
Matches: 140, Mismatches: 29, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
43 7 0.05
44 48 0.34
45 58 0.41
46 27 0.19
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (43 bp):
TTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
Found at i:24588507 original size:89 final size:91
Alignment explanation
Indices: 24588311--24588535 Score: 228
Period size: 89 Copynumber: 2.5 Consensus size: 91
24588301 AGAGACTAGC
* * * * * * *
24588311 CTTGTAGCTTTTAATCTGCTTTACTGCAATTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGT
1 CTTGTAGC-TTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGT
* *
24588376 TCTACTACAACTTTAAAGAGATAAGGA
65 CCTACTACAACTTCAAAGAGATAAGGA
*
24588403 -TTGTAGCTTTGATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTG-ATATCTTCAACCTGTA
1 CTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGT-
* **
24588466 CCT-CTGCAACTTCAGGGAGATAA-GA
65 CCTACTACAACTTCAAAGAGATAAGGA
* * *
24588491 CTTGTAGCTTAAATCTGC-TCCCTTGCTACCTT-AGGGAGATAAGAT
1 CTTGTAGCTTTAATCTGCTTCAC-TGC-AACTTCAGGGAGATAAGAT
24588536 TCGCCGTCTT
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
88 5 0.04
89 59 0.53
90 41 0.37
91 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (91 bp):
CTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGTC
CTACTACAACTTCAAAGAGATAAGGA
Found at i:24588633 original size:44 final size:44
Alignment explanation
Indices: 24588582--24588875 Score: 168
Period size: 44 Copynumber: 6.6 Consensus size: 44
24588572 ATAAGATCCT
*
24588582 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATGAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * * *
24588626 CAATCTTCAG-CTTGTTTCCTTGTTACCTCAGGGAGATAAGGCTA
1 CAATCTTCAGTC-TGCTCCCTTGCTACCTCAGGAAGATAAGACTA
**** ** * * * * ** *
24588670 GTGGCTAAAATCTGCTCCCCTACTA-TTTTGGAAAGATAAGATTCA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGG-AAGATAAGACT-A
** * * * *
24588715 CCGTTTTCTA-TCTGC-CCCACTGCTATCTCGAGG-AGACAAGATCTA
1 CAATCTTC-AGTCTGCTCCC-TTGCTACCTC-AGGAAGATAAGA-CTA
* * *
24588760 CAATATTCGGTCTGCTCCCTTTCTACCTCAGGAAGATAAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * * *
24588804 CAATCTTTAGTTTCCTCCCTTGCTACCTTAAGAAGATAAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
*
24588848 CAATCATT-AGCCTGCTCCCTTGCTACCT
1 CAATC-TTCAGTCTGCTCCCTTGCTACCT
24588876 TAGGGAGAGA
Statistics
Matches: 182, Mismatches: 55, Indels: 26
0.69 0.21 0.10
Matches are distributed among these distances:
43 4 0.02
44 122 0.67
45 48 0.26
46 6 0.03
47 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (44 bp):
CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
Found at i:24604703 original size:43 final size:42
Alignment explanation
Indices: 24604626--24604728 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 42
24604616 GATAAATCCC
* *
24604626 GCAGGCCTAGTGCTGGT-ATTATATTCGGGACTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATTATATTCGGGACTTCGTGCCTA
* *
24604667 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGAT-TATATTCGGGACTTCGTGCCTA
* * *
24604710 GTAGGCTTCGTACCGGTGA
1 GCAGGCTTAGTGCCGGTGA
24604729 AATGATATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 15 0.28
42 2 0.04
43 36 0.68
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (42 bp):
GCAGGCTTAGTGCCGGTGATTATATTCGGGACTTCGTGCCTA
Found at i:24605611 original size:13 final size:13
Alignment explanation
Indices: 24605573--24605638 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
24605563 AGTTTGGCAA
*
24605573 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
24605586 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
24605599 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
24605612 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
*
24605625 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
24605638 T
1 T
24605639 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 3 0.07
13 39 0.87
14 3 0.07
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24607483 original size:8 final size:8
Alignment explanation
Indices: 24607470--24607500 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
24607460 CAAGTGTACC
24607470 TATCGAAT
1 TATCGAAT
24607478 TATCGAAT
1 TATCGAAT
*
24607486 TATCGAAC
1 TATCGAAT
24607494 TATCGAA
1 TATCGAA
24607501 CTTAGGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (8 bp):
TATCGAAT
Found at i:24613478 original size:27 final size:28
Alignment explanation
Indices: 24613447--24613506 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 28
24613437 ATGATAAAAT
24613447 TCAAAGCAAACAAAGAG-AAAAAAATAG
1 TCAAAGCAAACAAAGAGAAAAAAAATAG
24613474 TCAAAGCAAACAAAGAGAAAAAAAATAG
1 TCAAAGCAAACAAAGAGAAAAAAAATAG
24613502 TCAAA
1 TCAAA
24613507 CACCTATCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.67, C:0.12, G:0.13, T:0.08
Consensus pattern (28 bp):
TCAAAGCAAACAAAGAGAAAAAAAATAG
Found at i:24616795 original size:47 final size:45
Alignment explanation
Indices: 24616649--24616909 Score: 181
Period size: 47 Copynumber: 5.6 Consensus size: 45
24616639 TTATCAATGC
* * * **
24616649 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTG-G-GCCGATG
* * * * *
24616698 CATGTCCCAGGCATGTCTTACACTAGCACAGCTCT-T-AGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGGGCCGATG
* *
24616742 CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTG-TG-GGCCGATG
*
24616789 CATGTCCTAGACATGTCTTACACTGGCACTCATCTCTGT--GCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTGGGCCGATG
* * * * * * *
24616835 CCATATCCCAGATATGGACTTACACTAGCTCTCATAATGT-GGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTGGGCCGATG
24616883 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
24616910 GCACAAATCA
Statistics
Matches: 168, Mismatches: 31, Indels: 29
0.74 0.14 0.13
Matches are distributed among these distances:
43 5 0.03
44 28 0.17
45 3 0.02
46 21 0.12
47 57 0.34
48 30 0.18
49 17 0.10
50 7 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGGGCCGATG
Found at i:24619644 original size:13 final size:12
Alignment explanation
Indices: 24619623--24619655 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
24619613 AAAATTTTTG
24619623 TATTTTATATTT
1 TATTTTATATTT
24619635 TATCTTTATATTT
1 TAT-TTTATATTT
24619648 TATTTTAT
1 TATTTTAT
24619656 CTACAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:24632849 original size:87 final size:87
Alignment explanation
Indices: 24632529--24632912 Score: 448
Period size: 89 Copynumber: 4.3 Consensus size: 87
24632519 AGTTATCGTG
* ** *
24632529 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCCACAAATCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCT-AAGTTGCA-TAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAG
* *
24632594 TTGTAGTGGAGCAGATTGAAAATA
64 TTGCAGTGGAGCAGATTGAAGATA
* ** *
24632618 GTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAG
1 GCAAATCTTATCTCTCT-AAGTTGCA-TAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAG
*
24632683 TTGTAGTGGAGCAGATTGAAGATA
64 TTGCAGTGGAGCAGATTGAAGATA
* * *
24632707 GCAAATCTTATCTCTCTAAAGTTGCATAGAGTAGATTAAAGTTACAAATCTTATCTCCCTAAAGT
1 GCAAATCTTATCTCTCT-AAGTTGCATAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAGT
*
24632772 TGCAGTGGAGCAGATTGAAGTTA
65 TGCAGTGGAGCAGATTGAAGATA
* * * * *
24632795 -CAAATCTCATTTCCCTAACGTTGCATGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAGT
1 GCAAATCTTATCTCTCTAA-GTTGCATAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAGT
* * *
24632859 TGCAATGGAGTAGATTGAAGTTA
65 TGCAGTGGAGCAGATTGAAGATA
* * *
24632882 -CAAGTCTTATCTCCCTGAAGTTACACTAGAG
1 GCAAATCTTATCTCTCT-AAGTTGCA-TAGAG
24632913 TAGAACCTCT
Statistics
Matches: 260, Mismatches: 32, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.01
87 92 0.35
88 60 0.23
89 106 0.41
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (87 bp):
GCAAATCTTATCTCTCTAAGTTGCATAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGATA
Found at i:24632916 original size:44 final size:44
Alignment explanation
Indices: 24632495--24632903 Score: 421
Period size: 44 Copynumber: 9.2 Consensus size: 44
24632485 CCTATACCAT
*
24632495 TGAAGTTGCAGTGTGA-CAGATTGAAGTTATCGTGGCAAATCTTATCTCTC
1 TGAAGTTGCAGTG-GAGCAGATTGAAGTTA------CAAATCTTATCTCCC
* * * **
24632545 TGAAGTTGCAGTAGAGCAAATTAAAGCCACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* ** * *
24632589 TGAAGTTGTAGTGGAGCAGATTGAAAATAGTAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
* * ** * *
24632634 TGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * *
24632678 TGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
* * * *
24632723 TAAAGTTGCA-TAGAGTAGATTAAAGTTACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * *
24632766 TAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTCATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
*
24632810 T-AACGTTGCA-TGGAGCAGATTGAAGTTATAAATCTTATCTCCC
1 TGAA-GTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * *
24632853 TGAAGTTGCAATGGAGTAGATTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
24632897 TGAAGTT
1 TGAAGTT
24632904 ACACTAGAGT
Statistics
Matches: 304, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
43 63 0.21
44 161 0.53
45 57 0.19
49 2 0.01
50 21 0.07
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
Found at i:24634836 original size:27 final size:28
Alignment explanation
Indices: 24634805--24634867 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
24634795 ATCTACTATA
*
24634805 TTATTTATTTGCACATGTTATT-TTATT
1 TTATTTATTTGCACATGTCATTATTATT
* ** *
24634832 TTA-TTCTTTGTGCTTGTCATTATTATT
1 TTATTTATTTGCACATGTCATTATTATT
24634859 TTATTTATT
1 TTATTTATT
24634868 CAATTTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 13 0.46
27 11 0.39
28 4 0.14
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (28 bp):
TTATTTATTTGCACATGTCATTATTATT
Found at i:24635309 original size:19 final size:19
Alignment explanation
Indices: 24635285--24635346 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
24635275 AATCTTTAAG
24635285 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24635304 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24635323 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24635344 GAT
1 GAT
24635347 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24635868 original size:25 final size:22
Alignment explanation
Indices: 24635809--24635868 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 22
24635799 GTTCTATTTA
24635809 TTCATTTTTTTT-TTTGTGTAT
1 TTCATTTTTTTTATTTGTGTAT
* * *
24635830 GTCATTTATCTTATTTGTGCATAGT
1 TTCATTTTTTTTATTTGTG--TA-T
24635855 TTCATTTTTTTTAT
1 TTCATTTTTTTTAT
24635869 ATGCTATGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 9 0.31
22 6 0.21
24 2 0.07
25 12 0.41
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (22 bp):
TTCATTTTTTTTATTTGTGTAT
Found at i:24639650 original size:18 final size:18
Alignment explanation
Indices: 24639627--24639662 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24639617 TGAATCAAGG
24639627 GTTTTTGAATTTATTTTA
1 GTTTTTGAATTTATTTTA
* *
24639645 GTTTTTTAATTTTTTTTA
1 GTTTTTGAATTTATTTTA
24639663 ATCGAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (18 bp):
GTTTTTGAATTTATTTTA
Found at i:24643105 original size:15 final size:16
Alignment explanation
Indices: 24643079--24643111 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24643069 ATTTGATCAT
24643079 TAAAATAATAATTATA
1 TAAAATAATAATTATA
*
24643095 TAAAA-AATAATTTTA
1 TAAAATAATAATTATA
24643110 TA
1 TA
24643112 CTAATATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATAATTATA
Found at i:24646579 original size:3 final size:3
Alignment explanation
Indices: 24646571--24646616 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
24646561 GTTGTTTTAG
24646571 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24646617 TTTCTTTCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24646761 original size:26 final size:22
Alignment explanation
Indices: 24646724--24646774 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 22
24646714 TTCCTTTTTA
*
24646724 TTTTTTGTTTTCTTCGTTTGTCGTT
1 TTTTTTCTTTTCTT--TTTGT-GTT
24646749 TTTTTTCTATTTCTTTTTGTGTT
1 TTTTTTCT-TTTCTTTTTGTGTT
24646772 TTT
1 TTT
24646775 GGTTATCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 5 0.21
25 7 0.29
26 6 0.25
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.76
Consensus pattern (22 bp):
TTTTTTCTTTTCTTTTTGTGTT
Found at i:24650640 original size:12 final size:12
Alignment explanation
Indices: 24650623--24650668 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
24650613 AGGCAGAAGG
*
24650623 AGATGCAATAAC
1 AGATGCAAGAAC
24650635 AGATGCAAGAAC
1 AGATGCAAGAAC
*
24650647 AGATGCAAGTAC
1 AGATGCAAGAAC
*
24650659 AAATGCAAGA
1 AGATGCAAGA
24650669 GCAATTGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.50, C:0.15, G:0.22, T:0.13
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:24650962 original size:83 final size:83
Alignment explanation
Indices: 24650807--24650966 Score: 266
Period size: 83 Copynumber: 1.9 Consensus size: 83
24650797 GGAATAATAA
* * *
24650807 TGAAGATCCTCTCTACCCCCTAGTTTCACCCCGAAAAATGCTCAAACGCAACCCGAGATGTACAC
1 TGAAAATCCTCTCTACCCCCTAGTTTCACCCCGAAAAATACTCAAACGCAACCCGAGATGCACAC
*
24650872 GCAAAGGCCATCCGTTAC
66 ACAAAGGCCATCCGTTAC
*
24650890 TGAAAATCCTCTCTACCCCCTAGTTTCACCCTGAAAAATACTCAAACGCAACCCGAGATGCACAC
1 TGAAAATCCTCTCTACCCCCTAGTTTCACCCCGAAAAATACTCAAACGCAACCCGAGATGCACAC
*
24650955 ACGAAGGCCATC
66 ACAAAGGCCATC
24650967 TATTACAATC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (83 bp):
TGAAAATCCTCTCTACCCCCTAGTTTCACCCCGAAAAATACTCAAACGCAACCCGAGATGCACAC
ACAAAGGCCATCCGTTAC
Found at i:24651715 original size:9 final size:9
Alignment explanation
Indices: 24651701--24651725 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24651691 ACTAAACCGA
24651701 AAATTTTGG
1 AAATTTTGG
24651710 AAATTTTGG
1 AAATTTTGG
24651719 AAATTTT
1 AAATTTT
24651726 ACCTAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
AAATTTTGG
Found at i:24653032 original size:54 final size:53
Alignment explanation
Indices: 24652827--24653031 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 53
24652817 TATCATACCG
* * * * * *
24652827 ATGCCATATCCCGGATATGGTCTTACACGGGAA-CACTTATCACATTTCTT-CA
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCAC-TTTATTCCA
* * * *
24652879 ATGCCATAGCCTAGTTATGGTCTTATAC--AAATCACTTGTATCACTTTAATCTGA
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAATCAC-T-TATCACTTTATTC-CA
* * *
24652933 A-GCCATAGCCCAACTATGGTCTTATACGAAAATCACTTATCACTTGTTTTCCA
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTT-TATTCCA
*
24652986 ATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTT
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTT
24653032 GCCGCCATGG
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
50 2 0.02
51 3 0.02
52 28 0.22
53 39 0.31
54 47 0.37
55 7 0.06
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (53 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTTATTCCA
Found at i:24653127 original size:17 final size:17
Alignment explanation
Indices: 24653107--24653152 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
24653097 AATCCGATGT
24653107 TTTATTCAATTTGATTA
1 TTTATTCAATTTGATTA
24653124 TTTATTCAATTTGATTA
1 TTTATTCAATTTGATTA
*
24653141 TTTCTTCAATTT
1 TTTATTCAATTT
24653153 CATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTATTCAATTTGATTA
Found at i:24661498 original size:15 final size:16
Alignment explanation
Indices: 24661471--24661500 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24661461 CCAAATATTA
24661471 AAAAATAATCATTCTC
1 AAAAATAATCATTCTC
24661487 AAAAATAA-CATTCT
1 AAAAATAATCATTCT
24661501 GCATTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATAATCATTCTC
Found at i:24661916 original size:44 final size:44
Alignment explanation
Indices: 24661850--24662051 Score: 164
Period size: 44 Copynumber: 4.6 Consensus size: 44
24661840 AATAAGCAGA
* *
24661850 TCTTAT-TCCCTGAAGTTACAGTAGAGCAGATCGAAGCCA-CAAT
1 TCTTATCT-CCTGAAGTTGCAGTAGAGTAGATCGAAGCCAGCAAT
* * * *
24661893 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAG-TAGCAAG
1 TCTTATCTC-CTGAAGTTGCAGTAGAGTAGATCGAAGCCAGCAAT
* *
24661937 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGA-CTGAAGACAGCAGA-
1 TCTTATCTCC-TGAAGTTGCAGTAGAGTAGATC-GAAGCCAGCA-AT
* * * * *
24661982 TCTTCTCTACCTAAAGTTGCAGTGGAGTAGATTGAAGCCA-CGAT
1 TCTTATCT-CCTGAAGTTGCAGTAGAGTAGATCGAAGCCAGCAAT
* *
24662026 CCTTATCTCTCTGAAGTTGCACTAGA
1 TCTTATCTC-CTGAAGTTGCAGTAGA
24662052 TTAGGATAAA
Statistics
Matches: 128, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
43 11 0.09
44 78 0.61
45 36 0.28
46 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCTGAAGTTGCAGTAGAGTAGATCGAAGCCAGCAAT
Found at i:24662031 original size:133 final size:134
Alignment explanation
Indices: 24661844--24662098 Score: 325
Period size: 133 Copynumber: 1.9 Consensus size: 134
24661834 GCTATAAATA
* * *
24661844 AGCAGATCTTATTCCCTGAAGTTACAGTAGAGCAGATCGAAGCCACAATTCTTATCTCTCTGAAG
1 AGCAGATCTTATTACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAG
* ** * * ** *
24661909 TTGCAGTAGAGTAGG-TTGAAGTA-GCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGA
66 TTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGA
24661972 AGAC
131 AGAC
* * * * * *
24661976 AGCAGATCTTCTCTACCTAAAGTTGCAGTGGAGTAGATTGAAGCCACGATCCTTATCTCTCTGAA
1 AGCAGATCTTAT-TACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAA
*
24662041 GTTGCACTAGATTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAG
65 GTTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAG
24662099 CAAGTTGAAG
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
132 11 0.11
133 58 0.57
134 5 0.05
135 28 0.27
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (134 bp):
AGCAGATCTTATTACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAG
TTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGA
AGAC
Found at i:24663662 original size:3 final size:3
Alignment explanation
Indices: 24663654--24663699 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
24663644 GTTTTAGTAA
24663654 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24663700 TCTTATTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24663850 original size:27 final size:25
Alignment explanation
Indices: 24663807--24663863 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
24663797 AAATTATTCC
24663807 TTTTTATTTTTATTTTCTTCGTTTGTCG
1 TTTTTATTTTTATTTTCTT--TTTGT-G
24663835 TTTTT-TTTTCTA-TTTCTTTTTGTG
1 TTTTTATTTT-TATTTTCTTTTTGTG
24663859 TTTTT
1 TTTTT
24663864 GTTATCAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 6 0.21
25 5 0.18
27 10 0.36
28 7 0.25
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTTATTTTCTTTTTGTG
Found at i:24675901 original size:12 final size:12
Alignment explanation
Indices: 24675884--24675917 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
24675874 ATATTAATAA
24675884 TTTTATATAATT
1 TTTTATATAATT
*
24675896 TTTTATTTAAATT
1 TTTTATAT-AATT
24675909 TTTTATATA
1 TTTTATATA
24675918 TAGATAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:24678621 original size:21 final size:22
Alignment explanation
Indices: 24678582--24678623 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24678572 TTTTTCTCTC
* *
24678582 ATTTTATCTTTTTCCAAACACT
1 ATTTTATCTTCTTCAAAACACT
24678604 ATTTT-TCTTCTTCAAAACAC
1 ATTTTATCTTCTTCAAAACAC
24678624 AACATTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTATCTTCTTCAAAACACT
Found at i:24684440 original size:23 final size:22
Alignment explanation
Indices: 24684349--24684475 Score: 69
Period size: 23 Copynumber: 5.5 Consensus size: 22
24684339 TACATGAAAA
*
24684349 TTATTTTAAACTCTTTTATTAT
1 TTATTTTAAACTTTTTTATTAT
* * **
24684371 TCATTGTAAACTTTTATTATTGC
1 TTATTTTAAACTTTT-TTATTAT
* * * *
24684394 TAATTTTAAGAC-TATATAGGTAT
1 TTATTTTAA-ACTTTTTTA-TTAT
24684417 TTATTTTAAACTTTTTTA-TAT
1 TTATTTTAAACTTTTTTATTAT
*
24684438 ATTATTTTAGATATATATATTTTATTAT
1 -TTATTTTA-A-A-CT-T-TTTTATTAT
24684466 TTATTTTAAA
1 TTATTTTAAA
24684476 TTTCTCTTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 24 0.31
23 28 0.36
24 3 0.04
25 2 0.03
26 2 0.03
27 13 0.17
28 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (22 bp):
TTATTTTAAACTTTTTTATTAT
Found at i:24685080 original size:4 final size:4
Alignment explanation
Indices: 24685071--24685096 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24685061 GTCATATATG
24685071 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
24685097 TTGCTCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:24688577 original size:25 final size:25
Alignment explanation
Indices: 24688549--24688615 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
24688539 GCAAATTTTG
24688549 ATTAATAAAAGTAAAATATAATTAA
1 ATTAATAAAAGTAAAATATAATTAA
* * *
24688574 ATTAA-ATTAATTAAAGTATAATTAA
1 ATTAATA-AAAGTAAAATATAATTAA
*
24688599 ATT-ATAAATAGGAAAAT
1 ATTAATAAA-AGTAAAAT
24688616 TTTAACTTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
ATTAATAAAAGTAAAATATAATTAA
Found at i:24690316 original size:45 final size:44
Alignment explanation
Indices: 24690236--24690326 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
24690226 AATAGGAAAA
* *
24690236 GAGAAATGGGAAACATTTAGGAATGATTATGGGTTTTTCCAAAATG
1 GAGAAATGGGAAACATTTAGGAATGAATATAGG--TTTCCAAAATG
* *
24690282 GAGAAAT-GGAACCATTT-GGAAATGAATGTAGGTTTCCAAAATG
1 GAGAAATGGGAAACATTTAGG-AATGAATATAGGTTTCCAAAATG
24690325 GA
1 GA
24690327 AATGAAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 13 0.32
44 2 0.05
45 18 0.45
46 7 0.17
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (44 bp):
GAGAAATGGGAAACATTTAGGAATGAATATAGGTTTCCAAAATG
Found at i:24695476 original size:13 final size:13
Alignment explanation
Indices: 24695458--24695482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24695448 TACCCCAAAA
24695458 AAAATTTTACCTC
1 AAAATTTTACCTC
24695471 AAAATTTTACCT
1 AAAATTTTACCT
24695483 GATCAGAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTTACCTC
Found at i:24699633 original size:16 final size:16
Alignment explanation
Indices: 24699612--24699642 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24699602 GCTCATCACA
*
24699612 TAGCAGCGATACAACG
1 TAGCAGCGACACAACG
24699628 TAGCAGCGACACAAC
1 TAGCAGCGACACAAC
24699643 ACCCTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.29, G:0.23, T:0.10
Consensus pattern (16 bp):
TAGCAGCGACACAACG
Done.