Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 163 of 211
Found at i:48007198 original size:15 final size:15
Alignment explanation
Indices: 48007160--48007198 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
48007150 TTTAATATTT
48007160 TTAATAAATAAGATA
1 TTAATAAATAAGATA
* * *
48007175 ATAACAAATAATATA
1 TTAATAAATAAGATA
48007190 TTAATAAAT
1 TTAATAAAT
48007199 TTTATATTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
TTAATAAATAAGATA
Found at i:48007242 original size:127 final size:125
Alignment explanation
Indices: 48007016--48007243 Score: 284
Period size: 127 Copynumber: 1.8 Consensus size: 125
48007006 TAAAATAACT
*
48007016 GTTTTTAATTTTAATTTTTAATAAATAGGATAATAAAAATTAATATATATTATATAAAATATAAT
1 GTTTTTAATTTTAATTTTTAATAAATAAGATAATAAAAATTAATATATATTATATAAAATATAAT
* * *
48007081 AATATATTAGTTGTTATTAACCTTGTATAGGATTAGAATTGTTCATTATTTTACTTTAGA
66 AATATATTAATTGTTATTAACCTTATATAAGATTAGAATTGTTCATTATTTTACTTTAGA
* *
48007141 GTTTTTATTTTTAATATTTTTAATAAATAAGATAATAACAAA-T-A-ATATATTA-ATAAATTTT
1 GTTTTTAATTTT-A-ATTTTTAATAAATAAGATAATAA-AAATTAATATATATTATATAAA--AT
* ** *
48007202 ATATTATATATATTAATTGTTATTGTCTTTATATAAGATTAG
61 ATAATA-ATATATTAATTGTTATTAACCTTATATAAGATTAG
48007244 GAGTTATAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
124 5 0.06
125 19 0.22
126 8 0.09
127 52 0.60
128 3 0.03
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (125 bp):
GTTTTTAATTTTAATTTTTAATAAATAAGATAATAAAAATTAATATATATTATATAAAATATAAT
AATATATTAATTGTTATTAACCTTATATAAGATTAGAATTGTTCATTATTTTACTTTAGA
Found at i:48011873 original size:3 final size:3
Alignment explanation
Indices: 48011865--48011913 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
48011855 AGAGAGAGAG
48011865 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
48011913 A
1 A
48011914 TAGAGCATAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48025385 original size:5 final size:5
Alignment explanation
Indices: 48025375--48025401 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48025365 ATAACTTCCC
48025375 TAATT TAATT TAATT TAATT TAATT TA
1 TAATT TAATT TAATT TAATT TAATT TA
48025402 CTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:48025801 original size:29 final size:30
Alignment explanation
Indices: 48025739--48025802 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
48025729 TAAAATAAAT
*
48025739 AAAAACTATTGAAATTTAAAAAGAAAAACT
1 AAAAACTATTGAAATTTAAAAAGAAAAACG
*
48025769 AAAAA-TATTTAAA-TTATAAAAGATAAAA-G
1 AAAAACTATTGAAATTTA-AAAAGA-AAAACG
48025798 AAAAA
1 AAAAA
48025803 AACTTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.10
29 18 0.60
30 9 0.30
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAAACTATTGAAATTTAAAAAGAAAAACG
Found at i:48034348 original size:43 final size:43
Alignment explanation
Indices: 48034286--48034458 Score: 202
Period size: 43 Copynumber: 4.0 Consensus size: 43
48034276 CTATTTTTCA
* * * *
48034286 AATATAATTTCTTCGATTTATCCGACGATGCACTATGTGTGCC
1 AATATAATTGCTTCAATTTATCCGATGATGCACTACGTGTGCC
* *
48034329 AATATAATTGCTTCAATTTATCGGATGATGCACTACGCGTGCC
1 AATATAATTGCTTCAATTTATCCGATGATGCACTACGTGTGCC
* * * ** * *
48034372 AATATAATTTCTTCAGTTTATCCAATGATGCACTATTTGTACT
1 AATATAATTGCTTCAATTTATCCGATGATGCACTACGTGTGCC
* * *
48034415 AGTATAATTGTTTCAATTTATCCGATGATACACTACGTGTGCC
1 AATATAATTGCTTCAATTTATCCGATGATGCACTACGTGTGCC
48034458 A
1 A
48034459 GTAAATTACT
Statistics
Matches: 105, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (43 bp):
AATATAATTGCTTCAATTTATCCGATGATGCACTACGTGTGCC
Found at i:48034392 original size:86 final size:86
Alignment explanation
Indices: 48034286--48034481 Score: 243
Period size: 86 Copynumber: 2.3 Consensus size: 86
48034276 CTATTTTTCA
* *
48034286 AATATAATTTCTTCGATTTATCCGACGATGCACTATGTGTGCCAATATAATTGCTTCAATTTATC
1 AATATAATTTCTTCGATTTATCCAACGATGCACTATGTGTACCAATATAATTGCTTCAATTTATC
* *
48034351 GGATGATGCACTACGCGTGCC
66 CGATGATACACTACGCGTGCC
* * * * *
48034372 AATATAATTTCTTC-AGTTTATCCAATGATGCACTATTTGTACTAGTATAATTGTTTCAATTTAT
1 AATATAATTTCTTCGA-TTTATCCAACGATGCACTATGTGTACCAATATAATTGCTTCAATTTAT
*
48034436 CCGATGATACACTACGTGTGCC
65 CCGATGATACACTACGCGTGCC
* * * *
48034458 AGTA-AATTACTTCGACTTGTCCAA
1 AATATAATTTCTTCGATTTATCCAA
48034482 TGGTACACTG
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
85 16 0.17
86 78 0.83
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (86 bp):
AATATAATTTCTTCGATTTATCCAACGATGCACTATGTGTACCAATATAATTGCTTCAATTTATC
CGATGATACACTACGCGTGCC
Found at i:48037970 original size:38 final size:36
Alignment explanation
Indices: 48037891--48037984 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 36
48037881 TGTATGCGAG
48037891 CCCATATGTTGTATGCGAGCCATGAATATGTGAGAA
1 CCCATATGTTGTATGCGAGCCATGAATATGTGAGAA
* * **
48037927 TCCATATGTTGTATG-GGGACCATGAATATATGTTCGAA
1 CCCATATGTTGTATGCGAG-CCATG-A-ATATGTGAGAA
* *
48037965 CCCATATGTTGAATGTGAGC
1 CCCATATGTTGTATGCGAGC
48037985 ACTAATTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
35 2 0.04
36 19 0.40
37 1 0.02
38 23 0.49
39 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (36 bp):
CCCATATGTTGTATGCGAGCCATGAATATGTGAGAA
Found at i:48044214 original size:94 final size:94
Alignment explanation
Indices: 48044039--48044215 Score: 203
Period size: 94 Copynumber: 1.9 Consensus size: 94
48044029 ACTGTGACTC
* ** * *
48044039 AGTTGGGCCTTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCATTAGAAGGGTTAGCAA
1 AGTTGGGCCCTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCACAAAAAGGCTTAGCAA
* * * *
48044104 GGGAAGTTCGCGGTCCTAGTTCGCAACCT
66 AGGAAATTCACAGTCCTAGTTCGCAACCT
* * * * * *
48044133 AGTTGGGCCCTACTAGTTGGATGTGTGTAGGCCTTGTAATGGGGGTTCGCCAAAAAGGCTTA-TA
1 AGTTGGGCCCTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTC-ACAAAAAGGCTTAGCA
48044197 AAGGAAATTCACAGTCCTA
65 AAGGAAATTCACAGTCCTA
48044216 ATTTGCATAT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
94 59 0.88
95 8 0.12
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (94 bp):
AGTTGGGCCCTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCACAAAAAGGCTTAGCAA
AGGAAATTCACAGTCCTAGTTCGCAACCT
Found at i:48046613 original size:68 final size:67
Alignment explanation
Indices: 48046416--48046620 Score: 163
Period size: 68 Copynumber: 3.0 Consensus size: 67
48046406 CACAGCTTCA
* * * * * **
48046416 ACACAGCTAGCGAACCTATGCTCCTAGTTGATGTCATAAAGGTTTGTCGGTTTAAGATTGCAACC
1 ACACAACTAGTGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAA-C
48046481 TCC
65 TCC
* * * * *
48046484 AAAGCAACT-GTG-GACCTACGCTCCCAATTGA---CATTACAAGAGCTTG-CAAAG-TTAAGCT
1 ACA-CAACTAGTGAG-CCTACGCTCCCAGTTGATGTCA-TA-AAG-GTTTGTC--GGTTTAAGAT
48046542 CACAACTCC
59 CACAACTCC
48046551 GACACAACTAGTGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAAC
1 -ACACAACTAGTGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAA-
48046616 CTCC
64 CTCC
48046620 A
1 A
48046621 AATCTAGCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
65 2 0.02
66 2 0.02
67 14 0.13
68 68 0.65
69 14 0.13
70 2 0.02
71 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (67 bp):
ACACAACTAGTGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAACT
CC
Found at i:48046840 original size:137 final size:137
Alignment explanation
Indices: 48046402--48047091 Score: 656
Period size: 137 Copynumber: 5.1 Consensus size: 137
48046392 GCATTACAAG
* * * * * * * * *
48046402 AGCTCACAGCTTCAACACAGCTAGCGAACCTATGCTCCTAGTTGATGTCATAAAGGTTTGTCGGT
1 AGCTCGCAGCTCCGACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGAT
* ** *
48046467 TTAAGATTGCAACCTCCAAAGCAACT-GTGGACCTACGCTCCCAATTGACATTACAAGAGCTTGC
66 TTAAGATCGCAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGC
*
48046531 AAAGTTA
131 AGAGTTA
* * * * *
48046538 AGCTCACAACTCCGACACAACTAG-TGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGG
1 AGCTCGCAGCTCCGACACAACTAGCGGA-CCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGA
* * *** *** *
48046602 TTTAAGATCACAACCTCC-AA--ATCTAGCAGACCTGTACTCCCCGCTGACATTACAAGAGCTCA
65 TTTAAGATCGCAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCG
** *
48046664 TGGAGTTT
130 CAGAGTTA
* * * * * * * * *
48046672 AGCTCTCAGATCTGACATAGCTAGCGAACCTAGGCTCCCAGCTGATGTTATAAAGGTTTATCGAT
1 AGCTCGCAGCTCCGACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGAT
* * ** *
48046737 TTAAGATCGTAACCTCCAAAGCAACTACCAGACCTACGCTCCCAGCTGACATTATAAGAGCTCGC
66 TTAAGATCGCAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGC
48046802 AGAGTTA
131 AGAGTTA
* * * * * * * *
48046809 AGCTCGCAGCTCCGGCACAACCAGTGGACCTACACTCCTAACTTATGTCATAAAGGTTTGTCAAT
1 AGCTCGCAGCTCCGACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGAT
* * * * * * *
48046874 TTAAGATCGCAATCTCCAAAGCAGCTAGCGGACCTTCGGTCTCAATTGACATTACAAGAGCTCGT
66 TTAAGATCGCAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGC
*
48046939 AAAGTTA
131 AGAGTTA
* * * *
48046946 AGCTCGCAGCTCCAACACAGCTAGCAGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTC-AG
1 AGCTCGCAGCTCCGACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGA-
* * * * *
48047010 TTTAAGATCACAACCTCCAAAGCAACTA-AAGGATCTACGCTCCCAATTGACATTATAAGAGCTT
65 TTTAAGATCGCAACCTCCAAAGCAACTAGCA-GACCTACGCTCCCAATTGACATTACAAGAGCTC
**
48047074 GGGGAGTTA
129 GCAGAGTTA
48047083 AGCTCGCAG
1 AGCTCGCAG
48047092 ATCCAACATA
Statistics
Matches: 442, Mismatches: 104, Indels: 15
0.79 0.19 0.03
Matches are distributed among these distances:
133 3 0.01
134 96 0.22
135 6 0.01
136 71 0.16
137 266 0.60
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (137 bp):
AGCTCGCAGCTCCGACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGAT
TTAAGATCGCAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGC
AGAGTTA
Found at i:48047015 original size:68 final size:67
Alignment explanation
Indices: 48046806--48047015 Score: 158
Period size: 68 Copynumber: 3.1 Consensus size: 67
48046796 GCTCGCAGAG
** * * * * *
48046806 TTAAGCTCGCAGCTCCGGCACAACCAGTGGACCTACACTCCTAACTTATGTCATAAAGGTTTGTC
1 TTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGCTCCCAAC-TATGTCATAAAGGTTTGTC
*
48046871 AAT
65 AGT
* * * * * * *
48046874 TTAAGATCGCAATCTCCAA-AGCAGCTAGCGGACCTTCGGTCTCAA-T-TGACATTACAAGAGCT
1 TTAAGCTCGC-AGCTCCAACA-CAGCTAGCGGACCTACGCTCCCAACTATGTCA-TA-AAG-GTT
* *
48046936 CGTAAAG-
61 TGT-CAGT
*
48046943 TTAAGCTCGCAGCTCCAACACAGCTAGCAGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTC
1 TTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGCTCCCAACT-ATGTCATAAAGGTTTGTC
48047008 AGT
65 AGT
48047011 TTAAG
1 TTAAG
48047016 ATCACAACCT
Statistics
Matches: 104, Mismatches: 27, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
66 4 0.04
67 5 0.05
68 49 0.47
69 39 0.38
70 3 0.03
71 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (67 bp):
TTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGCTCCCAACTATGTCATAAAGGTTTGTCA
GT
Found at i:48047036 original size:274 final size:269
Alignment explanation
Indices: 48046402--48047091 Score: 778
Period size: 274 Copynumber: 2.5 Consensus size: 269
48046392 GCATTACAAG
* * * *
48046402 AGCTCACAGCTTCAACACAGCTAGCGAACCTATGCTCCTAGTTGATGTCATAAAGGTTTGTCGGT
1 AGCTCACAGCTCCAACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTC-GT
* *** *
48046467 TTAAGATTGCAACCTCCAAAGCAACTGTGGACCTACGCTCCCAATTGACATTACAAGAGCTTGCA
65 TTAAGATCGCAACCTCCAAAGCAACTAAAGACCTACGCTCCCAATTGACATTATAAGAGCTTGCA
* * * * * * *
48046532 AAGTTAAGCTCACAACTCCGACACAACTAGTGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTT
130 GAGTTAAGCTCGCAGCTCCGACACAACCAGTGAGCCTACACTCCAACTTGATGTCATAAAGGTTT
** * **
48046597 GTCGGTTTAAGATCACAACCTCCAAATCTAGCAGACCTGTACTCCCCGCTGACATTACAAGAGCT
195 GTCAATTTAAGATCACAACCTCCAAAGCTAGCAGACCTGTACTCCCAACTGACATTACAAGAGCT
** *
48046662 CATGGAGTTT
260 CATAAAGTTA
* * ** * * * *
48046672 AGCTCTCAGATCTGACATAGCTAGCGAACCTAGGCTCCCAGCTGATGTTATAAAGGTTTATCGAT
1 AGCTCACAGCTCCAACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCG-T
* * ** *
48046737 TTAAGATCGTAACCTCCAAAGCAACTACCAGACCTACGCTCCCAGCTGACATTATAAGAGCTCGC
65 TTAAGATCGCAACCTCCAAAGCAACTA-AAGACCTACGCTCCCAATTGACATTATAAGAGCTTGC
*
48046802 AGAGTTAAGCTCGCAGCTCCGGCACAACCAGTG-GACCTACACTCCTAACTT-ATGTCATAAAGG
129 AGAGTTAAGCTCGCAGCTCCGACACAACCAGTGAG-CCTACACTCC-AACTTGATGTCATAAAGG
* * * * *
48046865 TTTGTCAATTTAAGATCGCAATCTCCAAAGCAGCTAGCGGACCT-T-CGGTCTCAATTGACATTA
192 TTTGTCAATTTAAGATCACAACCTCC-AA--AGCTAGCAGACCTGTAC--TCCCAACTGACATTA
*
48046928 CAAGAGCTCGTAAAGTTA
252 CAAGAGCTCATAAAGTTA
* *
48046946 AGCTCGCAGCTCCAACACAGCTAGC-AGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCAG
1 AGCTCACAGCTCCAACACAGCTAGCGA-ACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTC-G
* *
48047010 TTTAAGATCACAACCTCCAAAGCAACTAAAGGATCTACGCTCCCAATTGACATTATAAGAGCTTG
64 TTTAAGATCGCAACCTCCAAAGCAACTAAA-GACCTACGCTCCCAATTGACATTATAAGAGCTTG
**
48047075 GGGAGTTAAGCTCGCAG
128 CAGAGTTAAGCTCGCAG
48047092 ATCCAACATA
Statistics
Matches: 348, Mismatches: 60, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
269 1 0.00
270 77 0.22
271 102 0.29
272 6 0.02
273 3 0.01
274 158 0.45
275 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (269 bp):
AGCTCACAGCTCCAACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGTT
TAAGATCGCAACCTCCAAAGCAACTAAAGACCTACGCTCCCAATTGACATTATAAGAGCTTGCAG
AGTTAAGCTCGCAGCTCCGACACAACCAGTGAGCCTACACTCCAACTTGATGTCATAAAGGTTTG
TCAATTTAAGATCACAACCTCCAAAGCTAGCAGACCTGTACTCCCAACTGACATTACAAGAGCTC
ATAAAGTTA
Found at i:48049805 original size:13 final size:13
Alignment explanation
Indices: 48049787--48049819 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
48049777 ATAGGTATTC
48049787 ATTTATTTATAAT
1 ATTTATTTATAAT
48049800 ATTTATTTATAAT
1 ATTTATTTATAAT
48049813 -TTTATTT
1 ATTTATTT
48049820 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATTTATAAT
Found at i:48050402 original size:11 final size:11
Alignment explanation
Indices: 48050386--48050411 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48050376 TTGTCACTCG
48050386 TTAATCCAATT
1 TTAATCCAATT
48050397 TTAATCCAATT
1 TTAATCCAATT
48050408 TTAA
1 TTAA
48050412 AATTATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATCCAATT
Found at i:48050543 original size:23 final size:26
Alignment explanation
Indices: 48050517--48050567 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 26
48050507 AATGAGAATA
48050517 ATTAATATCT-TAAGT-TTTT-TTAC
1 ATTAATATCTATAAGTATTTTGTTAC
* *
48050540 ATTATTATTTATAAGTATTTTGTTAC
1 ATTAATATCTATAAGTATTTTGTTAC
48050566 AT
1 AT
48050568 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 5 0.22
25 4 0.17
26 6 0.26
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (26 bp):
ATTAATATCTATAAGTATTTTGTTAC
Found at i:48055942 original size:19 final size:20
Alignment explanation
Indices: 48055920--48055972 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
48055910 TATGTGTTAG
48055920 GATGCATTTCGTGTGAC-AA
1 GATGCATTTCGTGTGACTAA
* *
48055939 GATGCGTTTCGTG-CACTAA
1 GATGCATTTCGTGTGACTAA
*
48055958 GATGCACTTCGTGTG
1 GATGCATTTCGTGTG
48055973 CCAGCATGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
GATGCATTTCGTGTGACTAA
Found at i:48066409 original size:22 final size:23
Alignment explanation
Indices: 48066381--48066425 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48066371 ATGCAATCTT
48066381 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
48066403 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
48066426 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:48066435 original size:22 final size:23
Alignment explanation
Indices: 48066391--48066435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48066381 AGATATGATA
*
48066391 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
48066414 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
48066436 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:48067144 original size:23 final size:22
Alignment explanation
Indices: 48067117--48067159 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
48067107 ATAATTCACA
*
48067117 TACATATATATTTTTCTTATAAG
1 TACATATATATATTT-TTATAAG
48067140 TACATATATATATTTTTATA
1 TACATATATATATTTTTATA
48067160 TTTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TACATATATATATTTTTATAAG
Found at i:48067148 original size:25 final size:27
Alignment explanation
Indices: 48067097--48067156 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
48067087 TATATATTTT
* *
48067097 TATTTTTTTTATAATTCACATACATATA
1 TATTTTTCTTATAAGTCACATA-ATATA
48067125 TATTTTTCTTATAAGT-ACAT-ATATA
1 TATTTTTCTTATAAGTCACATAATATA
48067150 TATTTTT
1 TATTTTT
48067157 ATATTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 12 0.40
27 4 0.13
28 14 0.47
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (27 bp):
TATTTTTCTTATAAGTCACATAATATA
Found at i:48067344 original size:3 final size:3
Alignment explanation
Indices: 48067338--48067370 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
48067328 TTATCTTTTC
48067338 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48067371 GTTGTTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48067375 original size:3 final size:3
Alignment explanation
Indices: 48067369--48067394 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48067359 ATTATTATTA
48067369 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
48067395 CTTGATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:48072978 original size:22 final size:22
Alignment explanation
Indices: 48072936--48072981 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
48072926 AAAATTATGA
* *
48072936 AATTATATTTTATTATTTATAT
1 AATTATATTTAATTATATATAT
48072958 AATTATATTTAA-TATA-ATAT
1 AATTATATTTAATTATATATAT
48072978 AATT
1 AATT
48072982 TAAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATATTTAATTATATATAT
Found at i:48078275 original size:21 final size:22
Alignment explanation
Indices: 48078246--48078292 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
48078236 CAGAAGGAGT
*
48078246 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
48078268 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
48078289 GAGT
1 GAGT
48078293 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:48079566 original size:14 final size:15
Alignment explanation
Indices: 48079539--48079567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48079529 TGATTTGCAG
48079539 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
48079554 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
48079568 AAATAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:48079844 original size:3 final size:3
Alignment explanation
Indices: 48079836--48079875 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
48079826 TGAGTGAGAG
48079836 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48079876 GAGATCAGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48093148 original size:23 final size:19
Alignment explanation
Indices: 48093121--48093168 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
48093111 GTGTCTCTTT
48093121 TATTTAACTATTTATTTTTTTAA
1 TATTTAACTA--TA-TTTTTT-A
*
48093144 TATTTTACTATATTTTTTA
1 TATTTAACTATATTTTTTA
48093163 TATTTA
1 TATTTA
48093169 TCAACTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
23 9 0.39
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTAACTATATTTTTTA
Found at i:48095927 original size:26 final size:29
Alignment explanation
Indices: 48095876--48095931 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
48095866 TTTCCTTTAT
48095876 TCATACATATAACACAATATCACATATCA
1 TCATACATATAACACAATATCACATATCA
48095905 TCATATCAT-TAACA-AAT-TC-CATATCA
1 TCATA-CATATAACACAATATCACATATCA
48095931 T
1 T
48095932 TCCATATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.31
27 2 0.08
28 3 0.12
29 10 0.38
30 3 0.12
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (29 bp):
TCATACATATAACACAATATCACATATCA
Found at i:48096372 original size:12 final size:12
Alignment explanation
Indices: 48096355--48096384 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48096345 ATTATTATAC
48096355 TTTATTTAATAA
1 TTTATTTAATAA
48096367 TTTATTTAATAA
1 TTTATTTAATAA
*
48096379 TATATT
1 TTTATT
48096385 AATTATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATTTAATAA
Found at i:48103225 original size:13 final size:14
Alignment explanation
Indices: 48103204--48103240 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
48103194 TCCAAGTCAG
48103204 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
48103218 AT-AAATAACTAAA
1 ATAAAATAATTAAA
48103231 ATAAAATAAT
1 ATAAAATAAT
48103241 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:48108820 original size:9 final size:9
Alignment explanation
Indices: 48108806--48108839 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
48108796 CATGGATCTA
48108806 ATAAACAAT
1 ATAAACAAT
48108815 ATAAACAAT
1 ATAAACAAT
*
48108824 ATAAACAAA
1 ATAAACAAT
48108833 ATAAACA
1 ATAAACA
48108840 TAAAGAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (9 bp):
ATAAACAAT
Found at i:48108848 original size:18 final size:18
Alignment explanation
Indices: 48108808--48108849 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48108798 TGGATCTAAT
* *
48108808 AAACAATATAAACAATAT
1 AAACAAAATAAACAATAA
48108826 AAACAAAATAAAC-ATAA
1 AAACAAAATAAACAATAA
48108843 AGAACAA
1 A-AACAA
48108850 TTCAAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.71, C:0.12, G:0.02, T:0.14
Consensus pattern (18 bp):
AAACAAAATAAACAATAA
Found at i:48113645 original size:37 final size:37
Alignment explanation
Indices: 48113604--48113674 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
48113594 TTTAAATTTC
*
48113604 AAGTATATGGTTATTTGATATGTGAATGAAAATGAAT
1 AAGTATATGCTTATTTGATATGTGAATGAAAATGAAT
*
48113641 AAGTATATGCTTATTTGATATGTGTATGAAAATG
1 AAGTATATGCTTATTTGATATGTGAATGAAAATG
48113675 TTCAAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (37 bp):
AAGTATATGCTTATTTGATATGTGAATGAAAATGAAT
Found at i:48114860 original size:26 final size:27
Alignment explanation
Indices: 48114803--48114860 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
48114793 TATAAACAGG
* * * *
48114803 TGTTTTGGTTTTAAGTGTATATATGTA
1 TGTTATGGTTTGAAATGTATATATGGA
*
48114830 AGTTATGGTTTGAAATG-ATATATGGA
1 TGTTATGGTTTGAAATGTATATATGGA
48114856 TGTTA
1 TGTTA
48114861 AAATGGTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (27 bp):
TGTTATGGTTTGAAATGTATATATGGA
Found at i:48116000 original size:13 final size:13
Alignment explanation
Indices: 48115984--48116025 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
48115974 TACATAACAT
*
48115984 GTTCACATATAGG
1 GTTCACATATAAG
* *
48115997 GTTCGCACATAAG
1 GTTCACATATAAG
48116010 GTTCACATATAAG
1 GTTCACATATAAG
48116023 GTT
1 GTT
48116026 TGCATATTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (13 bp):
GTTCACATATAAG
Found at i:48116031 original size:13 final size:13
Alignment explanation
Indices: 48115984--48116032 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
48115974 TACATAACAT
* *
48115984 GTTCACATATAGG
1 GTTCGCATATAAG
*
48115997 GTTCGCACATAAG
1 GTTCGCATATAAG
*
48116010 GTTCACATATAAG
1 GTTCGCATATAAG
*
48116023 GTTTGCATAT
1 GTTCGCATAT
48116033 TGAATCACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (13 bp):
GTTCGCATATAAG
Found at i:48116875 original size:40 final size:40
Alignment explanation
Indices: 48116812--48116903 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
48116802 TCTCGGGTAG
* *
48116812 CCCGATTTC-ATTGACCTTATTAAATTACCATCCTGGTTTA
1 CCCGATTTCGA-TGACCTTATTAAACTACCATCCCGGTTTA
* * *
48116852 CCCGATTTCGATGGCCTTTTTAAACTATCATCCCGGTTTA
1 CCCGATTTCGATGACCTTATTAAACTACCATCCCGGTTTA
*
48116892 CCCAATTTCGAT
1 CCCGATTTCGAT
48116904 AGCATTACCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (40 bp):
CCCGATTTCGATGACCTTATTAAACTACCATCCCGGTTTA
Found at i:48120099 original size:13 final size:13
Alignment explanation
Indices: 48120051--48120097 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
48120041 CATAACATGC
48120051 TTGCATATAGGGT
1 TTGCATATAGGGT
* *
48120064 TCGCACATAGGGT
1 TTGCATATAGGGT
*
48120077 TTGCATATTGGGT
1 TTGCATATAGGGT
48120090 TTGCATAT
1 TTGCATAT
48120098 TGAATCGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (13 bp):
TTGCATATAGGGT
Found at i:48123682 original size:31 final size:31
Alignment explanation
Indices: 48123646--48123704 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
48123636 TTATTAGCTG
48123646 CTACAAACCTTCAAGAAAACACAAAAAACTC
1 CTACAAACCTTCAAGAAAACACAAAAAACTC
*
48123677 CTACAACCCTTCAAGAAAACACAAAAAA
1 CTACAAACCTTCAAGAAAACACAAAAAA
48123705 ATTGATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.29, G:0.03, T:0.12
Consensus pattern (31 bp):
CTACAAACCTTCAAGAAAACACAAAAAACTC
Found at i:48125457 original size:24 final size:22
Alignment explanation
Indices: 48125408--48125459 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
48125398 CACGTGATTT
48125408 TATATTTTTTAATTTATTAATAA
1 TATATTTTTTAATTTA-TAATAA
48125431 TATATTTTTATAATTTCA-AAT-A
1 TATATTTTT-TAATTT-ATAATAA
48125453 TATATTT
1 TATATTT
48125460 AAACTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.30
23 12 0.44
24 6 0.22
25 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTTTTTAATTTATAATAA
Found at i:48126240 original size:35 final size:35
Alignment explanation
Indices: 48126200--48126269 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
48126190 AAAAAAGTCA
48126200 TTTTTA-TAATAA-TGTAAATATTAAATTATAATTAT
1 TTTTTACTAATAATTGT-AA-ATTAAATTATAATTAT
*
48126235 TTTTTACTGATAATTGTAAATTAAATTATAATTAT
1 TTTTTACTAATAATTGTAAATTAAATTATAATTAT
48126270 CACAAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 22 0.69
36 7 0.22
37 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (35 bp):
TTTTTACTAATAATTGTAAATTAAATTATAATTAT
Found at i:48128357 original size:13 final size:13
Alignment explanation
Indices: 48128339--48128363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48128329 GATTTTTGGT
48128339 CCCTTTTGATCAC
1 CCCTTTTGATCAC
48128352 CCCTTTTGATCA
1 CCCTTTTGATCA
48128364 ATAAAGTACA
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:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (13 bp):
CCCTTTTGATCAC
Found at i:48128501 original size:25 final size:23
Alignment explanation
Indices: 48128441--48128502 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
48128431 ATAACAAATG
*
48128441 TAAATTA-AATTATAACTATTTT
1 TAAATTATAATTATAACAATTTT
* *
48128463 TAAATGTGTAATTATCACAATTTT
1 TAAAT-TATAATTATAACAATTTT
48128487 ACTAAATTATAATTAT
1 --TAAATTATAATTAT
48128503 TTTAAATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 5 0.16
23 1 0.03
24 13 0.41
25 8 0.25
26 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (23 bp):
TAAATTATAATTATAACAATTTT
Found at i:48129506 original size:15 final size:16
Alignment explanation
Indices: 48129468--48129509 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48129458 ATATTTTATT
*
48129468 TTAATAATTAAAATAA
1 TTAATAAATAAAATAA
*
48129484 TAAATAAATAAAAT-A
1 TTAATAAATAAAATAA
48129499 TTAATAAATAA
1 TTAATAAATAA
48129510 TAAAAGCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAATAAATAAAATAA
Found at i:48131323 original size:32 final size:32
Alignment explanation
Indices: 48131276--48131336 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
48131266 GGGCCTAGTA
48131276 AAATTTTTTTAAAAAATTAGGAGTTTAATGAG
1 AAATTTTTTTAAAAAATTAGGAGTTTAATGAG
*
48131308 AAATATTTTTT-AAAAATTAGGGGTTTAAT
1 AAAT-TTTTTTAAAAAATTAGGAGTTTAAT
48131337 TAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (32 bp):
AAATTTTTTTAAAAAATTAGGAGTTTAATGAG
Found at i:48132040 original size:27 final size:27
Alignment explanation
Indices: 48131997--48132074 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
48131987 TAGTATTGGC
* *
48131997 GCCTATCTCAGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAAGCGCCAATGGTGGT
* *
48132024 GCCTATCTGAGAAGCGCCATTAGTGGT
1 GCCTATCTGAGAAGCGCCAATGGTGGT
* *
48132051 GTC-ATGCTGAGATGCGCCAATGGT
1 GCCTAT-CTGAGAAGCGCCAATGGT
48132075 CTGATTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (27 bp):
GCCTATCTGAGAAGCGCCAATGGTGGT
Found at i:48139542 original size:27 final size:27
Alignment explanation
Indices: 48139504--48139558 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
48139494 ATAAATAGTA
48139504 GATATAAATAACATTATTACTATTTAT
1 GATATAAATAACATTATTACTATTTAT
48139531 GATATAAATAACATTATTACTATTTAT
1 GATATAAATAACATTATTACTATTTAT
48139558 G
1 G
48139559 TTTAGTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (27 bp):
GATATAAATAACATTATTACTATTTAT
Found at i:48139957 original size:30 final size:30
Alignment explanation
Indices: 48139911--48140001 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
48139901 GGGTTGGGAG
*
48139911 GGGAGAGGAGTCAAAGTTTTGGGGGGAAAGT
1 GGGA-AGGAGTAAAAGTTTTGGGGGGAAAGT
48139942 GGGAAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGGAGTAAAAGTTTTGGGGGGAAAGT
* *
48139972 GGGAAGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGAGTAAAAGTTTTGGGGGGAAAGT
48140002 AAAAAGGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 53 0.93
31 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.45, T:0.20
Consensus pattern (30 bp):
GGGAAGGAGTAAAAGTTTTGGGGGGAAAGT
Found at i:48141296 original size:19 final size:19
Alignment explanation
Indices: 48141274--48141362 Score: 106
Period size: 19 Copynumber: 4.4 Consensus size: 19
48141264 CATTCAAAAT
*
48141274 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
48141293 TACAAAAAAATTACAATATTCA
1 TAC---AAAATTACAATATTCA
* *
48141315 TAAAAAATTACTATATTCA
1 TACAAAATTACAATATTCA
48141334 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
48141355 TACAAAAT
1 TACAAAAT
48141363 ACTAATCCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
19 25 0.42
21 18 0.30
22 17 0.28
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.31
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:48141323 original size:49 final size:46
Alignment explanation
Indices: 48141200--48141362 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 46
48141190 AATTAATTAT
* *
48141200 AAAATAATTACAATATTCATACAAAAAATTATAATATTACAATATATC
1 AAAAAAATTACAATATTCAT--AAAAAATTACAATATTACAATATATC
*** * **
48141248 -CCGAAATTACAATATCCATTCAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTACAATA-T-AT-C
*
48141296 AAAAAAATTACAATATTCATAAAAAATTACTATATT-C---ATA-C
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTACAATATATC
*
48141337 -AAAAAATTACAATATTCATACAAAAT
1 AAAAAAATTACAATATTCATAAAAAAT
48141363 ACTAATCCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
40 25 0.26
41 1 0.01
43 1 0.01
44 1 0.01
45 20 0.21
46 1 0.01
47 16 0.17
48 2 0.02
49 28 0.29
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (46 bp):
AAAAAAATTACAATATTCATAAAAAATTACAATATTACAATATATC
Found at i:48141340 original size:21 final size:21
Alignment explanation
Indices: 48141280--48141361 Score: 132
Period size: 21 Copynumber: 4.0 Consensus size: 21
48141270 AAATTACAAT
48141280 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC-AAAAA
48141302 ATTACAATATTCAT--AAAAA
1 ATTACAATATTCATACAAAAA
*
48141321 ATTACTATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
48141342 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
48141362 TACTAATCCA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
19 18 0.32
21 24 0.43
22 14 0.25
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:48141352 original size:40 final size:41
Alignment explanation
Indices: 48141280--48141366 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 41
48141270 AAATTACAAT
*
48141280 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
1 ATTACTATATTCATACAAAAAAATTACAATATTCATAAAAA
*
48141321 ATTACTATATTCATAC-AAAAAATTACAATATTCATACAAA
1 ATTACTATATTCATACAAAAAAATTACAATATTCATAAAAA
48141361 A-TACTA
1 ATTACTA
48141367 ATCCAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 5 0.11
40 24 0.55
41 15 0.34
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (41 bp):
ATTACTATATTCATACAAAAAAATTACAATATTCATAAAAA
Found at i:48141646 original size:19 final size:19
Alignment explanation
Indices: 48141619--48141657 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
48141609 CCCTGTTTTA
48141619 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
48141638 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
48141657 C
1 C
48141658 TTCCTTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:48144804 original size:16 final size:16
Alignment explanation
Indices: 48144783--48144821 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
48144773 TTATTAAATT
*
48144783 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48144799 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48144814 AT-TATTTT
1 ATATATTTT
48144822 TAAATATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48145017 original size:44 final size:44
Alignment explanation
Indices: 48144969--48145059 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 44
48144959 ACCTTTATTC
*
48144969 CATTCAACCAAACACAAGATTAT-TATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATT-TCTATTACACCTCTATTCCATTA
***
48145013 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTT-CTATTACACCTCTATTCCATTA
48145058 CA
1 CA
48145060 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.44
45 22 0.54
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTTCTATTACACCTCTATTCCATTA
Found at i:48145059 original size:16 final size:16
Alignment explanation
Indices: 48145038--48145075 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48145028 TTGATTTGCT
*
48145038 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
48145054 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
48145070 AATACA
1 ATTACA
48145076 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:48145269 original size:14 final size:15
Alignment explanation
Indices: 48145244--48145282 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
48145234 TTTTTTTTTT
*
48145244 CTTTCTTCTTCTTCTT
1 CTTTC-TCTTCTTCTC
48145260 C-TTCTCTTCTTCTC
1 CTTTCTCTTCTTCTC
48145274 CTTTCTCTT
1 CTTTCTCTT
48145283 TTTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.48
15 10 0.48
16 1 0.05
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (15 bp):
CTTTCTCTTCTTCTC
Found at i:48145433 original size:27 final size:27
Alignment explanation
Indices: 48145402--48145462 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
48145392 AGAAGGCCAC
48145402 CATTGGCGCCTCCCTATGAGCCACATT
1 CATTGGCGCCTCCCTATGAGCCACATT
* * *
48145429 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCCCTATGAGCCACATT
48145456 CATTGGC
1 CATTGGC
48145463 ACCTACCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.16, C:0.34, G:0.21, T:0.28
Consensus pattern (27 bp):
CATTGGCGCCTCCCTATGAGCCACATT
Found at i:48145550 original size:20 final size:20
Alignment explanation
Indices: 48145518--48145565 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
48145508 TATTTTTATT
*
48145518 TAAT-TTTTTTTAAAAAAAA
1 TAATATTTTATTAAAAAAAA
48145537 TAATATTTTATTAAAAAAAA
1 TAATATTTTATTAAAAAAAA
48145557 TAATATTTT
1 TAATATTTT
48145566 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATATTTTATTAAAAAAAA
Found at i:48147107 original size:38 final size:39
Alignment explanation
Indices: 48147057--48147130 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 39
48147047 AACCCAACCT
*
48147057 AATTACCCAACCCAATAAAACTAAAACTAAAGTCTACCC
1 AATTACCCAACCCAATAAAAATAAAACTAAAGTCTACCC
48147096 AATTA-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 AATTACCCAACCCAATAAAAATAAAACTAAAGTCTA
48147131 ACTCTTAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 29 0.85
39 5 0.15
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.19
Consensus pattern (39 bp):
AATTACCCAACCCAATAAAAATAAAACTAAAGTCTACCC
Found at i:48147348 original size:9 final size:9
Alignment explanation
Indices: 48147334--48147364 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48147324 GTATTGATTC
48147334 AATTCGGGT
1 AATTCGGGT
48147343 AATTCGGGT
1 AATTCGGGT
*
48147352 AATTCGGTT
1 AATTCGGGT
48147361 AATT
1 AATT
48147365 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:48147884 original size:2 final size:2
Alignment explanation
Indices: 48147877--48147938 Score: 115
Period size: 2 Copynumber: 30.5 Consensus size: 2
48147867 TGGGGAGTTT
48147877 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
48147919 TC TC TC TC TC TC TC TGC TC T
1 TC TC TC TC TC TC TC T-C TC T
48147939 TTCTTCAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 57 0.97
3 2 0.03
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48151352 original size:27 final size:26
Alignment explanation
Indices: 48151322--48151380 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
48151312 GCACATAATT
48151322 GGGAAGCCCTC-TCTCGAGCCATATAAC
1 GGGAAG-CCTCATCT-GAGCCATATAAC
* *
48151349 GGGAAG-CTCATGTGAGCCATGTAAC
1 GGGAAGCCTCATCTGAGCCATATAAC
48151374 GGGAAGC
1 GGGAAGC
48151381 TTATCCAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 20 0.71
26 2 0.07
27 6 0.21
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.17
Consensus pattern (26 bp):
GGGAAGCCTCATCTGAGCCATATAAC
Found at i:48151491 original size:25 final size:24
Alignment explanation
Indices: 48151436--48151491 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
48151426 AAGCTCATGC
* *
48151436 GAGCCAATAACAGGTAGCTCCAAA
1 GAGCCATTAACAGGAAGCTCCAAA
* *
48151460 GATCCATTAATCAGGAAGCTCCAGA
1 GAGCCATTAA-CAGGAAGCTCCAAA
*
48151485 TAGCCAT
1 GAGCCAT
48151492 ATATCGAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.18
Consensus pattern (24 bp):
GAGCCATTAACAGGAAGCTCCAAA
Found at i:48151551 original size:25 final size:25
Alignment explanation
Indices: 48151451--48151569 Score: 75
Period size: 25 Copynumber: 4.8 Consensus size: 25
48151441 AATAACAGGT
* * *
48151451 AGCTCCAAAGATCCATTAATCAGGA
1 AGCTCCAGAGAGCCATTAATCAAGA
* *
48151476 AGCTCCAGATAGCCA-TATATCGAGA
1 AGCTCCAGAGAGCCATTA-ATCAAGA
* ** * *
48151501 AGTTTAAGCGAGTCA-T-ATC-AGAA
1 AGCTCCAGAGAGCCATTAATCAAG-A
48151524 AGCTCCAGAGAGCCATTAATCAAGA
1 AGCTCCAGAGAGCCATTAATCAAGA
* *
48151549 AGCTCACAAAGAGCCTTTAAT
1 AGCTC-CAGAGAGCCATTAAT
48151570 TGGGAAGCTC
Statistics
Matches: 70, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
22 2 0.03
23 14 0.20
24 3 0.04
25 36 0.51
26 15 0.21
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (25 bp):
AGCTCCAGAGAGCCATTAATCAAGA
Found at i:48151561 original size:26 final size:26
Alignment explanation
Indices: 48151523--48151596 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
48151513 TCATATCAGA
*
48151523 AAGCTC-CAGAGAGCCATTAATCAAG
1 AAGCTCACAAAGAGCCATTAATCAAG
* ***
48151548 AAGCTCACAAAGAGCCTTTAATTGGG
1 AAGCTCACAAAGAGCCATTAATCAAG
* *
48151574 AAGCTCACGAAGAACCATATAAT
1 AAGCTCACAAAGAGCCAT-TAAT
48151597 GGGACGCTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 6 0.15
26 29 0.74
27 4 0.10
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCAAG
Found at i:48151599 original size:26 final size:26
Alignment explanation
Indices: 48151547--48151606 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
48151537 CATTAATCAA
* *
48151547 GAAGCTCACAAAGAGCCTTTAATTGG
1 GAAGCTCACAAAGAACCTATAATTGG
*
48151573 GAAGCTCACGAAGAACCATATAA-TGG
1 GAAGCTCACAAAGAACC-TATAATTGG
*
48151599 GACGCTCA
1 GAAGCTCA
48151607 TAAGAGCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
GAAGCTCACAAAGAACCTATAATTGG
Found at i:48160911 original size:19 final size:19
Alignment explanation
Indices: 48160887--48160924 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48160877 CTTTAGACTT
*
48160887 GGTTAATTGTCTGTATTCA
1 GGTTAATTGTCTATATTCA
48160906 GGTTAATTGTCTATATTCA
1 GGTTAATTGTCTATATTCA
48160925 AGTGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (19 bp):
GGTTAATTGTCTATATTCA
Found at i:48160932 original size:19 final size:19
Alignment explanation
Indices: 48160891--48160933 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
48160881 AGACTTGGTT
* * *
48160891 AATTGTCTGTATTCAGGTT
1 AATTGTCTATATTCAAGTG
48160910 AATTGTCTATATTCAAGTG
1 AATTGTCTATATTCAAGTG
48160929 AATTG
1 AATTG
48160934 AGTTGCATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (19 bp):
AATTGTCTATATTCAAGTG
Found at i:48185090 original size:24 final size:24
Alignment explanation
Indices: 48185058--48185150 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
48185048 TACCACGCTC
48185058 AAAATCAGTCATACACATCACAAA
1 AAAATCAGTCATACACATCACAAA
* *
48185082 AAAATCAGTAATAC-CAATCACAGA
1 AAAATCAGTCATACAC-ATCACAAA
* * ** *
48185106 CAAATCATTCATTTAAATCACAAA
1 AAAATCAGTCATACACATCACAAA
* * *
48185130 CAATTCAGTCATTCACATCAC
1 AAAATCAGTCATACACATCAC
48185151 GGACAAATCA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.02
24 53 0.98
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAATCAGTCATACACATCACAAA
Found at i:48185230 original size:27 final size:27
Alignment explanation
Indices: 48185187--48185410 Score: 162
Period size: 27 Copynumber: 8.3 Consensus size: 27
48185177 GGGCAAAATA
* *
48185187 GTCA-TTTACCCTCCAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
48185213 GTCATTTTAACTTACAGGAGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * ** * *
48185240 GTTATTTAACCTTATGGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
48185267 GTCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
48185294 ATCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
48185321 GTCATTTTACCCTACGGGGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * ** *
48185348 GTTATTTTACCCTATAAGGGTTTTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
48185375 ATCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
*
48185402 GTAATTTTA
1 GTCATTTTA
48185411 TCCATTGGGG
Statistics
Matches: 154, Mismatches: 43, Indels: 1
0.78 0.22 0.01
Matches are distributed among these distances:
26 4 0.03
27 150 0.97
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:48185409 original size:54 final size:53
Alignment explanation
Indices: 48185324--48185709 Score: 325
Period size: 54 Copynumber: 7.1 Consensus size: 53
48185314 CATTACGGTC
* * * * * * *
48185324 ATTTTACCCTACGGGGGCATTAT-AGTTATTTTACCCTATAAGGGTTTTTCGATC
1 ATTTTACCCTACAGGGGTATT-TCGGTAATTTTACCC-ATGAGGGTATTTCGATA
* * *
48185378 ATTTTACCCTACAGGGGTATTTCGGTAATTTTATCCATTGGGGGTATTTTGATA
1 ATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCA-TGAGGGTATTTCGATA
* * *
48185432 ATTTTACCC-ATCGGGGGTATTTCAGTAATTTTACCCATTG-GGAGTATTTTGATA
1 ATTTTACCCTA-CAGGGGTATTTCGGTAATTTTACCCA-TGAGG-GTATTTCGATA
* * * *
48185486 ATTTTTCCC-ATCAGGGGTATTTCGGTAATTTTACCAATTAAGGGCATTTCGATA
1 ATTTTACCCTA-CAGGGGTATTTCGGTAATTTTACCCA-TGAGGGTATTTCGATA
* * * * *
48185540 ATTTTTCCCATCCA-GGGTATTTTGGTAATTTTAGCCATCGAGGGTATTTCAATA
1 ATTTTACCC-TACAGGGGTATTTCGGTAATTTTACCCAT-GAGGGTATTTCGATA
* * *
48185594 ATCTTACCC-ATCGGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCTA-CAGGGGTATTTCGGTAATTTTACCCAT-GAGGGTATTTCGATA
* * * * * *
48185648 ATTTTACCGTTCGGGGGTATTTCAGTAATTTTACCCATCGAGAGTATTTCGGTA
1 ATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCAT-GAGGGTATTTCGATA
48185702 ATTATTAC
1 ATT-TTAC
48185710 GACCTCATAA
Statistics
Matches: 280, Mismatches: 40, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
53 7 0.03
54 265 0.95
55 8 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (53 bp):
ATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCATGAGGGTATTTCGATA
Found at i:48185409 original size:81 final size:81
Alignment explanation
Indices: 48185184--48185410 Score: 224
Period size: 81 Copynumber: 2.8 Consensus size: 81
48185174 AAGGGGCAAA
** * * * * * * * *
48185184 ATAGTCA-TTTACCCTCCAGGGGCATTATGGTCATTTTAACTTACAGGAGTATTACGGTTATTTA
1 ATAGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTACAGGGGTATTACGGTAATTTT
* * *
48185248 ACCTTATGGGGGTATT
66 ACCCTACGGGGGCATT
* * * * *
48185264 ATGGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTATAGAGGCATTACGGTCATTTT
1 ATAGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTACAGGGGTATTACGGTAATTTT
48185329 ACCCTACGGGGGCATT
66 ACCCTACGGGGGCATT
* ** * *
48185345 ATAGTTATTTTACCCTATA-AGGGTTTTTCGATCATTTTACCCTACAGGGGTATTTCGGTAATTT
1 ATAGTCATTTTACCCTATAGA-GGCATTACGATCATTTTACCCTACAGGGGTATTACGGTAATTT
48185409 TA
65 TA
48185411 TCCATTGGGG
Statistics
Matches: 118, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
80 7 0.06
81 111 0.94
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
ATAGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTACAGGGGTATTACGGTAATTTT
ACCCTACGGGGGCATT
Found at i:48185421 original size:27 final size:27
Alignment explanation
Indices: 48185378--48185709 Score: 324
Period size: 27 Copynumber: 12.3 Consensus size: 27
48185368 TTTTTCGATC
*
48185378 ATTTTACCC-TACAGGGGTATTTCGGTA
1 ATTTTACCCAT-CGGGGGTATTTCGGTA
* * * *
48185405 ATTTTATCCATTGGGGGTATTTTGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
*
48185432 ATTTTACCCATCGGGGGTATTTCAGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* * * *
48185459 ATTTTACCCATTGGGAGTATTTTGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
48185486 ATTTTTCCCATCAGGGGTATTTCGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *** * *
48185513 ATTTTACCAATTAAGGGCATTTCGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* ** *
48185540 ATTTTTCCCATCCAGGGTATTTTGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* * **
48185567 ATTTTAGCCATCGAGGGTATTTCAATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
48185594 ATCTTACCCATCGGGGGTATTTTGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
48185621 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
** *
48185648 ATTTTACCGTTCGGGGGTATTTCAGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
48185675 ATTTTACCCATCGAGAGTATTTCGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
48185702 ATTATTAC
1 ATT-TTAC
48185710 GACCTCATAA
Statistics
Matches: 243, Mismatches: 60, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
27 238 0.98
28 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCCATCGGGGGTATTTCGGTA
Found at i:48185436 original size:81 final size:79
Alignment explanation
Indices: 48185255--48185709 Score: 251
Period size: 81 Copynumber: 5.6 Consensus size: 79
48185245 TTAACCTTAT
* * * * * * * * * *
48185255 GGGGGTATTATGGTCATTTTACCC-TATAGAGGCATTACGATCATTTTACCCTATAGAGGCATTA
1 GGGGGTATTTTGATAATTTTACCCATA-AG-GGTATTTCGATAATTTTACCCTACAGGGGTATTT
* *
48185319 CGGTCATTTTACCCTAC
64 CGGTAATTTTACCAT-C
* * * * *
48185336 GGGGGCATTAT-AGTTATTTTACCCTATAAGGGTTTTTCGATCATTTTACCCTACAGGGGTATTT
1 GGGGGTATTTTGA-TAATTTTACCC-ATAAGGGTATTTCGATAATTTTACCCTACAGGGGTATTT
*
48185400 CGGTAATTTTATCCATT
64 CGGTAATTTTA-CCATC
** **
48185417 GGGGGTATTTTGATAATTTTACCCATCGGGGGTATTTC-AGTAATTTTACCC-ATTGGGAGTATT
1 GGGGGTATTTTGATAATTTTACCCAT-AAGGGTATTTCGA-TAATTTTACCCTACAGGG-GTATT
* * *
48185480 TTGATAATTTTTCCCATC
63 TCGGTAA-TTTTACCATC
* * * * * * *
48185498 AGGGGTATTTCGGTAATTTTACCAATTAAGGGCATTTCGATAATTTTTCCCATCCA-GGGTATTT
1 GGGGGTATTTTGATAATTTTACCCA-TAAGGGTATTTCGATAATTTTACCC-TACAGGGGTATTT
*
48185562 TGGTAATTTTAGCCATC
64 CGGTAATTTTA-CCATC
* ** * ** * *
48185579 GAGGGTATTTCAATAATCTTACCCATCGGGGGTATTTTGGTAATTTTACCC-ATC-GAGGGTATT
1 GGGGGTATTTTGATAATTTTACCCAT-AAGGGTATTTCGATAATTTTACCCTA-CAG-GGGTATT
* *
48185642 TCGATAATTTTACCGTTC
63 TCGGTAATTTTACC-ATC
* * * *
48185660 GGGGGTA-TTTCAGTAATTTTACCCATCGAGAGTATTTCGGTAATTATTAC
1 GGGGGTATTTTGA-TAATTTTACCCAT-AAGGGTATTTCGATAATT-TTAC
48185710 GACCTCATAA
Statistics
Matches: 291, Mismatches: 62, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
80 18 0.06
81 253 0.87
82 18 0.06
83 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (79 bp):
GGGGGTATTTTGATAATTTTACCCATAAGGGTATTTCGATAATTTTACCCTACAGGGGTATTTCG
GTAATTTTACCATC
Found at i:48185467 original size:108 final size:106
Alignment explanation
Indices: 48185324--48185685 Score: 381
Period size: 108 Copynumber: 3.4 Consensus size: 106
48185314 CATTACGGTC
* * *
48185324 ATTTTACCC-TACGGGGGCATTAT-AGTTATTTTACCCTATAAGGGTTTTTCGATCATTTTACCC
1 ATTTTACCCAT-CGGGGGTATT-TCAGTAATTTTACCC-ATAAGGGTTTTTCGATAATTTTACCC
* *
48185387 -TACAGGGGTATTTCGGTAATTTTATCCATTGGGGGTATTTTGATA
63 AT-CAGGGGTATTTCGGTAATTTTA-CCATTGAGGGTATTTCGATA
** *
48185432 ATTTTACCCATCGGGGGTATTTCAGTAATTTTACCCATTGGGAGTATTTT-GATAATTTTTCCCA
1 ATTTTACCCATCGGGGGTATTTCAGTAATTTTACCCATAAGG-GT-TTTTCGATAATTTTACCCA
* *
48185496 TCAGGGGTATTTCGGTAATTTTACCAATTAAGGGCATTTCGATA
64 TCAGGGGTATTTCGGTAATTTTACC-ATTGAGGGTATTTCGATA
* ** ** * * * * *
48185540 ATTTTTCCCATCCAGGGTATTTTGGTAATTTTAGCCATCGAGGGTATTTCAATAATCTTACCCAT
1 ATTTTACCCATCGGGGGTATTTCAGTAATTTTACCCAT-AAGGGTTTTTCGATAATTTTACCCAT
* * *
48185605 CGGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATA
65 CAGGGGTATTTCGGTAATTTTA-CCATTGAGGGTATTTCGATA
**
48185648 ATTTTACCGTTCGGGGGTATTTCAGTAATTTTACCCAT
1 ATTTTACCCATCGGGGGTATTTCAGTAATTTTACCCAT
48185686 CGAGAGTATT
Statistics
Matches: 210, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
107 10 0.05
108 190 0.90
109 10 0.05
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (106 bp):
ATTTTACCCATCGGGGGTATTTCAGTAATTTTACCCATAAGGGTTTTTCGATAATTTTACCCATC
AGGGGTATTTCGGTAATTTTACCATTGAGGGTATTTCGATA
Found at i:48185928 original size:18 final size:17
Alignment explanation
Indices: 48185895--48185928 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48185885 TTCACCCGTG
*
48185895 TGGGCCCATAAGCCCAC
1 TGGGCCCACAAGCCCAC
48185912 TGGGCCCACACAGCCCA
1 TGGGCCCACA-AGCCCA
48185929 TTTCGGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.44, G:0.24, T:0.09
Consensus pattern (17 bp):
TGGGCCCACAAGCCCAC
Found at i:48188318 original size:13 final size:13
Alignment explanation
Indices: 48188300--48188325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48188290 CCTTATCACC
48188300 AAAATTGAATTTT
1 AAAATTGAATTTT
48188313 AAAATTGAATTTT
1 AAAATTGAATTTT
48188326 CCTAAATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAATTGAATTTT
Found at i:48188798 original size:29 final size:29
Alignment explanation
Indices: 48188765--48188820 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
48188755 ATAAAACAAA
*
48188765 AAATAAAAAAACAAATTAAT-AAGAAAAGG
1 AAAT-AAAAAACAAATAAATAAAGAAAAGG
* *
48188794 AAATATAAAATAAATAAATAAAGAAAA
1 AAATAAAAAACAAATAAATAAAGAAAA
48188821 TAAAGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (29 bp):
AAATAAAAAACAAATAAATAAAGAAAAGG
Found at i:48213325 original size:22 final size:22
Alignment explanation
Indices: 48213274--48213325 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
48213264 CCTAATCTCA
* *
48213274 TCGCGACGACATACATTCAATG
1 TCGCGACAACATACACTCAATG
** *
48213296 TCATGACAACATACACTCGATG
1 TCGCGACAACATACACTCAATG
48213318 TCGCGACA
1 TCGCGACA
48213326 TGACATCCTG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (22 bp):
TCGCGACAACATACACTCAATG
Found at i:48217114 original size:87 final size:86
Alignment explanation
Indices: 48216969--48217131 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 86
48216959 GTACATGCTA
* *
48216969 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTAGATGGTCATATTGAGATGAACT
1 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAACT
48217034 TAATGAATTCATCGACATGTG
66 TAATGAATTCATCGACATGTG
* * * * * **
48217055 AGGTTAAGTTTCTTACTCTTAATGAGTTCATATCCTAAAGTTTGGGTGGTCCTAATGAGATGGGC
1 AGGTTAAG-TTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAAC
*
48217120 TTGATGAATTCA
65 TTAATGAATTCA
48217132 CCGAATTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 8 0.12
87 58 0.88
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (86 bp):
AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAACT
TAATGAATTCATCGACATGTG
Found at i:48218828 original size:14 final size:13
Alignment explanation
Indices: 48218809--48218853 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 13
48218799 AATCTTTAAA
48218809 ATATTTTTAAATTT
1 ATATTTTT-AATTT
48218823 ATATTTTTAATTT
1 ATATTTTTAATTT
*
48218836 -T-TTTATAATTT
1 ATATTTTTAATTT
48218847 ATATTTT
1 ATATTTT
48218854 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 9 0.33
12 2 0.07
13 8 0.30
14 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTTAATTT
Found at i:48225818 original size:20 final size:20
Alignment explanation
Indices: 48225764--48225821 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 20
48225754 CCATGTCAAC
48225764 GTATTTTAACAATG-T--TA
1 GTATTTTAACAATGTTGGTA
** *
48225781 GTATAATACCAA-GTTGGTA
1 GTATTTTAACAATGTTGGTA
48225800 GTATTTTAACAATGTTGGTA
1 GTATTTTAACAATGTTGGTA
48225820 GT
1 GT
48225822 CAATGCCATG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
19 11 0.35
20 9 0.29
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (20 bp):
GTATTTTAACAATGTTGGTA
Found at i:48227977 original size:71 final size:71
Alignment explanation
Indices: 48227861--48227996 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 71
48227851 CTTGATAGAC
* * * *
48227861 TTGTCCGACAACAAAATTCCTTTTACCATATAAAGCATTTGAGCTCTAACATATCAATCAATCTC
1 TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
48227926 ACAAAT
66 ACAAAT
* *
48227932 TTGTCCGACAACAACATTCATCTTACCATCTAAAGCATTCGAGCTCTAACATATCAACCAATCTC
1 TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
48227997 CTTCACAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (71 bp):
TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
ACAAAT
Found at i:48235773 original size:18 final size:18
Alignment explanation
Indices: 48235750--48235804 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
48235740 AAAGTTCCCT
*
48235750 AACCTGAATCCGAATCGG
1 AACCTGAATCCGAATCCG
* *
48235768 AACCTGAACCCGAACCCG
1 AACCTGAATCCGAATCCG
* *
48235786 AACCAGAATCGGAATCCG
1 AACCTGAATCCGAATCCG
48235804 A
1 A
48235805 TTTACGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.33, G:0.20, T:0.11
Consensus pattern (18 bp):
AACCTGAATCCGAATCCG
Found at i:48238650 original size:33 final size:34
Alignment explanation
Indices: 48238603--48238666 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
48238593 AATAAATTGC
*
48238603 TCCCCTTTAAT-AAAATTCATTTTCAATTTAAACT
1 TCCCCTATAATAAAAATT-ATTTTCAATTTAAACT
48238637 TCCCCTAT-ATAAAAATTATTTTCAATTTAA
1 TCCCCTATAATAAAAATTATTTTCAATTTAA
48238667 GGCATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (34 bp):
TCCCCTATAATAAAAATTATTTTCAATTTAAACT
Found at i:48240381 original size:43 final size:43
Alignment explanation
Indices: 48240256--48240401 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
48240246 TATCTCAAAT
* * * * * *
48240256 ATGGTTTTACATGTTATCACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
* * * *
48240299 AGGGTCTTATATG-AA-ATCATATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGAC
*
48240341 ATGGTCTTACACGTAATCTCATATTGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
*
48240384 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGTAATC
48240402 ACACCTCGGG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.06
42 28 0.33
43 47 0.55
44 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:48247684 original size:85 final size:85
Alignment explanation
Indices: 48247539--48247696 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 85
48247529 ATACAATGTC
* * * * * * * *
48247539 ATATCTCAGATATGGTGTTACATGTTATCACATATCGATGCCATTGTCCCAGACTGGGTCTTATA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACTGGGTCTTACA
*
48247604 TGAAATCATATACGATGCCA
66 CGAAATCATATACGATGCCA
* * *
48247624 ATATCCCAGACATGGTCTTACACGTAATCTCATATTGATGCCAATGTCTCAAAC-GTGGTCTTAC
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACTG-GGTCTTAC
48247688 ACGAAATCA
65 ACGAAATCA
48247697 CACCTCGAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 1 0.02
85 59 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (85 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACTGGGTCTTACA
CGAAATCATATACGATGCCA
Found at i:48248113 original size:9 final size:9
Alignment explanation
Indices: 48248093--48248126 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
48248083 GTCCCTATTT
48248093 CAAAACTACA
1 CAAAA-TACA
48248103 CAAAATACA
1 CAAAATACA
48248112 CAAAATACA
1 CAAAATACA
48248121 CAAAAT
1 CAAAAT
48248127 TTCATCATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAAATACA
Found at i:48252948 original size:17 final size:17
Alignment explanation
Indices: 48252926--48252959 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48252916 TTAAAAAATA
48252926 ATTATTAGTTTTATTTT
1 ATTATTAGTTTTATTTT
* *
48252943 ATTATTATTTTTGTTTT
1 ATTATTAGTTTTATTTT
48252960 GAACTACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
ATTATTAGTTTTATTTT
Found at i:48255820 original size:8 final size:8
Alignment explanation
Indices: 48255807--48255832 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48255797 TCAAATCAAA
48255807 AATAAAAT
1 AATAAAAT
48255815 AATAAAAT
1 AATAAAAT
48255823 AATAAAAT
1 AATAAAAT
48255831 AA
1 AA
48255833 AACCAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:48257618 original size:14 final size:14
Alignment explanation
Indices: 48257586--48257614 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48257576 TTAAAAAAAA
48257586 TTATTAGTTTTATT
1 TTATTAGTTTTATT
48257600 TTATTA-TTTTATT
1 TTATTAGTTTTATT
48257613 TT
1 TT
48257615 TATTTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTATTAGTTTTATT
Found at i:48266650 original size:32 final size:32
Alignment explanation
Indices: 48266613--48266679 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
48266603 TTAGGGGTAA
* *
48266613 TATGTATGTAAATTAATGATTTATGTTATGTT
1 TATGTATGTAAATTAATGATTTACGTTATATT
*
48266645 TATGTATGTGAATTAATGATTTACGTTATATT
1 TATGTATGTAAATTAATGATTTACGTTATATT
48266677 TAT
1 TAT
48266680 ATTAATGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.52
Consensus pattern (32 bp):
TATGTATGTAAATTAATGATTTACGTTATATT
Found at i:48268303 original size:34 final size:34
Alignment explanation
Indices: 48268265--48268334 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
48268255 TTACAGTGTT
* * *
48268265 ATTTGGTGTGCTGGATGGATTTGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
*
48268299 ATTTGGTGTGCTGGATGGGCTGGCTCATACAAGC
1 ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
48268333 AT
1 AT
48268335 ATAGTATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
Found at i:48288845 original size:3 final size:3
Alignment explanation
Indices: 48288837--48288862 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48288827 GGAGTTATAG
48288837 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
48288863 CGTATAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:48290084 original size:18 final size:18
Alignment explanation
Indices: 48290045--48290089 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
48290035 CGTTCGTTCC
* *
48290045 CAAAACATTATTCACTTA
1 CAAAACGTTATTCAATTA
* *
48290063 CAAATCGTTATTCAATTT
1 CAAAACGTTATTCAATTA
48290081 CAAAACGTT
1 CAAAACGTT
48290090 TTTTATTGCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (18 bp):
CAAAACGTTATTCAATTA
Found at i:48296249 original size:18 final size:18
Alignment explanation
Indices: 48296226--48296265 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48296216 AATCGTGTCG
*
48296226 TTCATTTCCAAAACATTA
1 TTCATTTACAAAACATTA
* *
48296244 TTCATTTACAAATCGTTA
1 TTCATTTACAAAACATTA
48296262 TTCA
1 TTCA
48296266 ATTTTCAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (18 bp):
TTCATTTACAAAACATTA
Found at i:48302760 original size:13 final size:13
Alignment explanation
Indices: 48302744--48302780 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
48302734 ATTTTTTATT
48302744 TTTAGTTTAATTA
1 TTTAGTTTAATTA
48302757 TTTAG-TTAATTA
1 TTTAGTTTAATTA
*
48302769 TTTAGTGTAATT
1 TTTAGTTTAATT
48302781 GATCACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (13 bp):
TTTAGTTTAATTA
Found at i:48306438 original size:45 final size:46
Alignment explanation
Indices: 48306379--48306476 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 46
48306369 TCTTTTCATT
* * *
48306379 TCCATTT-TGAGAAAATTACATTCATTTCGAAATG-ATTCCATTTC
1 TCCATTTCGGAGAAAATCACAATCATTTCGAAATGTATTCCATTTC
* * *
48306423 TCCATTTCGGAGAAAATCATAATCATTTCTAAATGTTTTCCATTTC
1 TCCATTTCGGAGAAAATCACAATCATTTCGAAATGTATTCCATTTC
*
48306469 TCTATTTC
1 TCCATTTC
48306477 TATTCATTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 7 0.16
45 22 0.49
46 16 0.36
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (46 bp):
TCCATTTCGGAGAAAATCACAATCATTTCGAAATGTATTCCATTTC
Found at i:48307097 original size:17 final size:17
Alignment explanation
Indices: 48307075--48307110 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48307065 AATCAAATTC
48307075 ATATATTAATTTTATCT
1 ATATATTAATTTTATCT
48307092 ATATATTAATTTTATCT
1 ATATATTAATTTTATCT
48307109 AT
1 AT
48307111 GTTCTCTATT
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:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTAATTTTATCT
Found at i:48309496 original size:50 final size:50
Alignment explanation
Indices: 48309425--48309565 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
48309415 TTAAAGGAAT
* *
48309425 GAGGTCCCATGTAAGAACATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * *
48309475 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
48309525 GAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48309566 ATACAAGAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:48313805 original size:42 final size:42
Alignment explanation
Indices: 48313746--48313834 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
48313736 ACTGTCACAT
* *
48313746 TGCTCCTAATCACAAGCCTAAACAATTCATCCAAAATGTTGA
1 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
* *
48313788 TGCTCCTAAGCACAAGCCTAAACAGTTCATCCAGAATGATGA
1 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
48313830 TGCTC
1 TGCTC
48313835 TTAAACATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (42 bp):
TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
Found at i:48318341 original size:31 final size:31
Alignment explanation
Indices: 48318303--48318361 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
48318293 AATTGATTAT
** *
48318303 TGAACTATTCGAATGCTTTCATTTAAGTCAC
1 TGAACTATTAAAAAGCTTTCATTTAAGTCAC
*
48318334 TGAACTATTAAAAAGCTTTTATTTAAGT
1 TGAACTATTAAAAAGCTTTCATTTAAGT
48318362 TACTAGGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (31 bp):
TGAACTATTAAAAAGCTTTCATTTAAGTCAC
Found at i:48319625 original size:21 final size:20
Alignment explanation
Indices: 48319597--48319639 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
48319587 ATCTCACTGC
*
48319597 TAATTTTAATTTCACCATTA
1 TAATTTTAATCTCACCATTA
*
48319617 TAATATTTAATCTCACCTTTA
1 TAAT-TTTAATCTCACCATTA
48319638 TA
1 TA
48319640 GTAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTTAATCTCACCATTA
Found at i:48328983 original size:16 final size:16
Alignment explanation
Indices: 48328962--48328995 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48328952 CTTCTCCATG
48328962 GAACTTTTAATTTTTA
1 GAACTTTTAATTTTTA
48328978 GAACTTTTAATTTTTA
1 GAACTTTTAATTTTTA
48328994 GA
1 GA
48328996 GTGAGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
GAACTTTTAATTTTTA
Found at i:48331512 original size:128 final size:128
Alignment explanation
Indices: 48331339--48331573 Score: 391
Period size: 128 Copynumber: 1.8 Consensus size: 128
48331329 ATGTTAGTTA
48331339 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
1 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
** * *
48331404 ATGAATTCTAATGAGTTGATGTAGTGTGCAATAAATTACTTGCACACTAATGAATAAAATGAG
66 ATGAATTCTAACAAGTTGATGTAGTATGCAAGAAATTACTTGCACACTAATGAATAAAATGAG
* *
48331467 TCTATAATTGAATAAAATGAGTCTTTTTATGATGTTTCT-TGACCAATTAGTCCAATTTGAGCCT
1 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTT-TGTGACCAATTAGGCCAATTTGAGCCT
*
48331531 AATGAATTCTAACAAGTTGTTGTAGTATGCAAGAAATTACTTG
65 AATGAATTCTAACAAGTTGATGTAGTATGCAAGAAATTACTTG
48331574 AACTAAATAA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 98 0.99
129 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (128 bp):
TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
ATGAATTCTAACAAGTTGATGTAGTATGCAAGAAATTACTTGCACACTAATGAATAAAATGAG
Found at i:48336951 original size:101 final size:101
Alignment explanation
Indices: 48336837--48337019 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
48336827 TGATTTTCAT
*
48336837 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAAT-G-ATGGGTCGCATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGG-ATGGAAT-GGTCACATGTGTAGTACTA
48336900 TGTGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
64 TGTGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
* * *
48336938 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCACTTGTGTAGTACTGT
1 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGG-AATGGTCACATGTGTAGTACTAT
*
48337003 GTGTAGGCTACTATGTG
65 GTGCAGGCTACTATGTG
48337020 AATCGGGTAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.50
102 33 0.45
103 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGAATGGTCACATGTGTAGTACTATG
TGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
Found at i:48336955 original size:51 final size:49
Alignment explanation
Indices: 48336837--48337025 Score: 200
Period size: 51 Copynumber: 3.8 Consensus size: 49
48336827 TGATTTTCAT
* *
48336837 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGA-ATGATGGGTCGC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA-GAT-GGTCAC
* * * * *
48336887 ATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-AT-GGTCAC
*
48336938 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT--AGATGGTCAC
* * * * *
48336989 TTGTGTAGTACTGTGTGTAGGCTACTATGTGAATCGG
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG
48337026 GTACCATTAA
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 35 0.30
51 79 0.68
52 1 0.01
53 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATGGTCAC
Found at i:48353835 original size:28 final size:28
Alignment explanation
Indices: 48353795--48353852 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48353785 AAACATGTCC
48353795 TTAATCTAATTCAAAATGAGCAAACTGA
1 TTAATCTAATTCAAAATGAGCAAACTGA
48353823 TTAATCTAATTCAAAATGAGCAAACTGA
1 TTAATCTAATTCAAAATGAGCAAACTGA
48353851 TT
1 TT
48353853 GAAAGACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (28 bp):
TTAATCTAATTCAAAATGAGCAAACTGA
Found at i:48355012 original size:25 final size:25
Alignment explanation
Indices: 48354941--48355013 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
48354931 TATTTTCTTG
* *
48354941 AAATTTTACAAGGGGTAAAATCATCA
1 AAATTTTACTA-GGGTAAAATTATCA
* *
48354967 AAATTTTATTAAGGGTAAAATTGTCA
1 AAATTTTACT-AGGGTAAAATTATCA
48354993 AAATTTTACTAGGGTAAAATT
1 AAATTTTACTAGGGTAAAATT
48355014 TGGGTGAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.27
26 29 0.71
27 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATTATCA
Found at i:48368223 original size:11 final size:10
Alignment explanation
Indices: 48368205--48368267 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
48368195 ACAAGCCGAA
48368205 ACACCACCAT
1 ACACCACCAT
48368215 ACAACCACCAT
1 AC-ACCACCAT
48368226 ATCACCACCAT
1 A-CACCACCAT
**
48368237 ACGACCAGTAT
1 AC-ACCACCAT
*
48368248 AACACCACCACA
1 -ACACCACCA-T
48368260 ACACCACC
1 ACACCACC
48368268 GTACCACCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 3 0.07
11 37 0.86
12 3 0.07
ACGTcount: A:0.41, C:0.46, G:0.03, T:0.10
Consensus pattern (10 bp):
ACACCACCAT
Found at i:48368232 original size:22 final size:22
Alignment explanation
Indices: 48368204--48368257 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
48368194 TACAAGCCGA
48368204 AACACCACCATACAACCACCAT
1 AACACCACCATACAACCACCAT
* * **
48368226 ATCACCACCATACGACCAGTAT
1 AACACCACCATACAACCACCAT
48368248 AACACCACCA
1 AACACCACCA
48368258 CAACACCACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.43, G:0.04, T:0.11
Consensus pattern (22 bp):
AACACCACCATACAACCACCAT
Found at i:48373307 original size:37 final size:37
Alignment explanation
Indices: 48373252--48373386 Score: 184
Period size: 37 Copynumber: 3.7 Consensus size: 37
48373242 AGTACACAAG
* *
48373252 TAATCCAACCGA-AACACGCC-AGTCGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAAAT-GCTCATAAGAGC
*
48373288 TAATCCACCCGGTAACACGCCAAATGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAAATGCTCATAAGAGC
*
48373325 TAATCCACCCGATAACACGCCAAATGCTTATAAGAGC
1 TAATCCACCCGATAACACGCCAAATGCTCATAAGAGC
* * *
48373362 TAATCCACCCAATAGCACACCAAAT
1 TAATCCACCCGATAACACGCCAAAT
48373387 TAGGATAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
36 10 0.11
37 77 0.87
38 2 0.02
ACGTcount: A:0.38, C:0.33, G:0.13, T:0.16
Consensus pattern (37 bp):
TAATCCACCCGATAACACGCCAAATGCTCATAAGAGC
Found at i:48380534 original size:9 final size:9
Alignment explanation
Indices: 48380520--48380550 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48380510 GTTAAACGAA
48380520 TCGAGTTAT
1 TCGAGTTAT
*
48380529 TCGAGTTAA
1 TCGAGTTAT
48380538 TCGAGTTAT
1 TCGAGTTAT
48380547 TCGA
1 TCGA
48380551 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:48380633 original size:9 final size:9
Alignment explanation
Indices: 48380603--48380640 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
48380593 TTGAATTTTC
48380603 TAATTCGAA
1 TAATTCGAA
*
48380612 TAACTCGAA
1 TAATTCGAA
48380621 TAATTCGAA
1 TAATTCGAA
*
48380630 TAATCCGAA
1 TAATTCGAA
48380639 TA
1 TA
48380641 TCAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (9 bp):
TAATTCGAA
Found at i:48380911 original size:30 final size:30
Alignment explanation
Indices: 48380854--48380911 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
48380844 AAACCTTTTA
* *
48380854 TTTTCCCCCAAAATTTTTACTCCCTTCCAC
1 TTTTCCCCCAAAACTTTTACTACCTTCCAC
* * *
48380884 TTTTCCCCTAAAACTTTTATTATCTTCC
1 TTTTCCCCCAAAACTTTTACTACCTTCC
48380912 CATCCCACCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTACCTTCCAC
Found at i:48389761 original size:44 final size:44
Alignment explanation
Indices: 48389698--48389786 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
48389688 TTAACTTTAC
48389698 AAATATAGTTGAGATTTTATGACATGGTTTATATTCATTTATTT
1 AAATATAGTTGAGATTTTATGACATGGTTTATATTCATTTATTT
48389742 AAATATAGTTGAGATTTTATGACATGGTTTATATTCATTTATTT
1 AAATATAGTTGAGATTTTATGACATGGTTTATATTCATTTATTT
48389786 A
1 A
48389787 TTTAAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (44 bp):
AAATATAGTTGAGATTTTATGACATGGTTTATATTCATTTATTT
Found at i:48398995 original size:30 final size:29
Alignment explanation
Indices: 48398938--48398998 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
48398928 ATTTTTGCCC
*
48398938 TTATTGTTGTTTGTCTATTAATCTGTTTA
1 TTATTGTTATTTGTCTATTAATCTGTTTA
* * *
48398967 TTATTGTTTATTTGTGTATTTATTTGTTTA
1 TTATTG-TTATTTGTCTATTAATCTGTTTA
48398997 TT
1 TT
48398999 CTCTTGTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.67
Consensus pattern (29 bp):
TTATTGTTATTTGTCTATTAATCTGTTTA
Found at i:48403729 original size:45 final size:44
Alignment explanation
Indices: 48403618--48404520 Score: 245
Period size: 44 Copynumber: 19.9 Consensus size: 44
48403608 TGTCATAGTC
* * *
48403618 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATAGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATAG
* *
48403662 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAGATAG
* * * * * *
48403706 AGAATCTCATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATC
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAG--AT--A-G
* * * * **
48403756 ACAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTA-AAGCCA-
1 A-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAGATAG
* * ** *
48403801 ACAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTA-AAG-T-C
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAGATAG
* * * * * *
48403844 AAGTCTTATCCCCCCGAAGTTGTAGTGGGGCAGGCT-GAAGATAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAGAAGATAG
* * *
48403888 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTA-AAGCTATAAATTG
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAG--AT--A--G
* * * ** *
48403939 CAGATCTTATCTCTCTGAAGTTGCAGT--AG-ATA-AGATCATATC
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATA-G
* * * * *
48403981 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTACG-TTGAAGGTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAGAAGATAG
* * *
48404025 CAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACGA-A-
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAA-GATAG
* ** * * * * * * *
48404069 AAATCCTATAC-CTTTGAATTTGTAGTAGG-TCGGATCAAATTCACCAAAG
1 AAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGAT-AGA---A-GATAG
* * * * * *
48404118 CCAAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATATC
1 --AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATA-G
* * * * * *
48404165 AAACCTTATCTTCCTGAAGCTGCAGTGGAGCAGATTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATAG
* * *
48404209 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGAT-G
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAA-GATAG
* * * * * *
48404254 -AATCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCTACCATTAC
1 AAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGA-TAGA---A-GA-TAG
* * *
48404303 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATATC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAGATA-G
* * * *
48404348 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATAG
* * * * *
48404392 AAATCATAT-TCCCTTAAAGTTGCAGTGGGGCAGATTGAA-ACTAC
1 AAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATAGAAGA-TAG
* * * * * * *
48404436 AAGTCTTGTCTACCAGAAGTTGTAGTGGAGTAGACT-GAAGATGG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAGATAG
* * * * * * *
48404480 CAAATCTCATTTTCTTAAAGTTGTAGTGGAGCAGATTGAAG
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAG
48404521 CTATAAATTA
Statistics
Matches: 636, Mismatches: 156, Indels: 133
0.69 0.17 0.14
Matches are distributed among these distances:
41 23 0.04
42 29 0.05
43 13 0.02
44 247 0.39
45 191 0.30
46 7 0.01
47 13 0.02
48 4 0.01
49 7 0.01
50 30 0.05
51 71 0.11
52 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATAG
Done.