Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 76 of 106
Found at i:14545618 original size:31 final size:31
Alignment explanation
Indices: 14545544--14545618 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 31
14545534 AATAATATAA
14545544 AATATTAAAATATTATATATTTATATTATATTT
1 AATA-TAAAA-ATTATATATTTATATTATATTT
* * *
14545577 TATATTAAAATTAT-TTTTTATAATT-TATGTT
1 AATATAAAAATTATATATTTAT-ATTATAT-TT
14545608 AATATAAAAAT
1 AATATAAAAAT
14545619 ATAAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
30 9 0.26
31 19 0.54
32 4 0.11
33 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
AATATAAAAATTATATATTTATATTATATTT
Found at i:14545647 original size:21 final size:20
Alignment explanation
Indices: 14545623--14545661 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14545613 AAAAATATAA
*
14545623 AAATATATTTTTTATTTTATT
1 AAATATA-TTTATATTTTATT
*
14545644 AAATTTATTTATATTTTA
1 AAATATATTTATATTTTA
14545662 AATTATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AAATATATTTATATTTTATT
Found at i:14545669 original size:16 final size:17
Alignment explanation
Indices: 14545642--14545675 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14545632 TTTTATTTTA
*
14545642 TTAAATTTATTTATATT
1 TTAAATTTATTTAAATT
14545659 TTAAA-TTATTTAAATT
1 TTAAATTTATTTAAATT
14545675 T
1 T
14545676 ATATTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAAATTTATTTAAATT
Found at i:14555318 original size:6 final size:6
Alignment explanation
Indices: 14555307--14555331 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14555297 TATTAAGAGC
14555307 TTGATT TTGATT TTGATT TTGATT T
1 TTGATT TTGATT TTGATT TTGATT T
14555332 GGATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTGATT
Found at i:14557256 original size:16 final size:16
Alignment explanation
Indices: 14557232--14557270 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14557222 GCTATTGCTC
14557232 AGTGAACATTCTCTCA
1 AGTGAACATTCTCTCA
*
14557248 AGTGGACATTCTCTCA
1 AGTGAACATTCTCTCA
14557264 AGATGAA
1 AG-TGAA
14557271 TTGGGTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (16 bp):
AGTGAACATTCTCTCA
Found at i:14561364 original size:34 final size:34
Alignment explanation
Indices: 14561326--14561409 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
14561316 AAAATTAAAT
* **
14561326 ATATAATTTATTATTAT-TTATTTTAAATTATTA
1 ATATAATTTATTATTATCTTAATTTAAAAGATTA
*
14561359 GATATAATATATT-TTATCTTAATTTAAAAGATTA
1 -ATATAATTTATTATTATCTTAATTTAAAAGATTA
14561393 A-ATAATTTATTTATTAT
1 ATATAATTTA-TTATTAT
14561410 GTGATCTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
32 7 0.17
33 7 0.17
34 28 0.67
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (34 bp):
ATATAATTTATTATTATCTTAATTTAAAAGATTA
Found at i:14563131 original size:3 final size:3
Alignment explanation
Indices: 14563118--14563148 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14563108 GAAAATGTAG
*
14563118 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
14563149 TTCCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14567126 original size:17 final size:17
Alignment explanation
Indices: 14567104--14567162 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
14567094 TTCAAATCGA
14567104 TTTAATGCATTTAAAAT
1 TTTAATGCATTTAAAAT
* *
14567121 TTTAATTC-TTTCAAATCAA
1 TTTAATGCATTT-AAA--AT
14567140 TTTAATGCATTTAAAAT
1 TTTAATGCATTTAAAAT
14567157 TTTAAT
1 TTTAAT
14567163 CTTAAACGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 3 0.09
17 17 0.50
19 11 0.32
20 3 0.09
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATGCATTTAAAAT
Found at i:14567131 original size:36 final size:36
Alignment explanation
Indices: 14567091--14567162 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
14567081 AAGTGCACAC
*
14567091 TCTTTCAAATCGATTTAATGCATTTAAAATTTTAAT
1 TCTTTCAAATCAATTTAATGCATTTAAAATTTTAAT
14567127 TCTTTCAAATCAATTTAATGCATTTAAAATTTTAAT
1 TCTTTCAAATCAATTTAATGCATTTAAAATTTTAAT
14567163 CTTAAACGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (36 bp):
TCTTTCAAATCAATTTAATGCATTTAAAATTTTAAT
Found at i:14567156 original size:20 final size:19
Alignment explanation
Indices: 14567097--14567156 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
14567087 ACACTCTTTC
14567097 AAATCGATTTAATGCATTTA
1 AAATC-ATTTAATGCATTTA
* *
14567117 AAAT--TTTAATTC-TTTC
1 AAATCATTTAATGCATTTA
14567133 AAATCAATTTAATGCATTTA
1 AAATC-ATTTAATGCATTTA
14567153 AAAT
1 AAAT
14567157 TTTAATCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 7 0.22
17 7 0.22
19 7 0.22
20 11 0.34
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (19 bp):
AAATCATTTAATGCATTTA
Found at i:14570161 original size:24 final size:24
Alignment explanation
Indices: 14570121--14570183 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
14570111 TTTATTATAA
* *
14570121 AATTTTTTCAATCATAATTAAAAT
1 AATTTTTTTAATTATAATTAAAAT
*
14570145 AATTTTTTTAATTATAATTATAAT
1 AATTTTTTTAATTATAATTAAAAT
14570169 AATTTTTATT-ATTAT
1 AATTTTT-TTAATTAT
14570184 TTTATATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (24 bp):
AATTTTTTTAATTATAATTAAAAT
Found at i:14575713 original size:23 final size:23
Alignment explanation
Indices: 14575686--14575736 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
14575676 GACTAAAAGT
14575686 TCATGAAATGACCCTGTGCTTTC
1 TCATGAAATGACCCTGTGCTTTC
**
14575709 TCATGTCATGACCCTGTGCTTTC
1 TCATGAAATGACCCTGTGCTTTC
14575732 TCATG
1 TCATG
14575737 TCATATTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (23 bp):
TCATGAAATGACCCTGTGCTTTC
Found at i:14575737 original size:23 final size:23
Alignment explanation
Indices: 14575693--14575740 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
14575683 AGTTCATGAA
14575693 ATGACCCTGTGCTTTCTCATGTC
1 ATGACCCTGTGCTTTCTCATGTC
14575716 ATGACCCTGTGCTTTCTCATGTC
1 ATGACCCTGTGCTTTCTCATGTC
14575739 AT
1 AT
14575741 ATTTGCGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.40
Consensus pattern (23 bp):
ATGACCCTGTGCTTTCTCATGTC
Found at i:14579665 original size:13 final size:13
Alignment explanation
Indices: 14579647--14579673 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14579637 TCTTGAAAGC
14579647 TTATGCTTTATCT
1 TTATGCTTTATCT
14579660 TTATGCTTTATCT
1 TTATGCTTTATCT
14579673 T
1 T
14579674 CAAAGCTTCG
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGCTTTATCT
Found at i:14586196 original size:13 final size:13
Alignment explanation
Indices: 14586178--14586209 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
14586168 TTCAAAATAC
14586178 TAACAATAATTAT
1 TAACAATAATTAT
14586191 TAACAATAATTAT
1 TAACAATAATTAT
14586204 T-ACAAT
1 TAACAAT
14586210 TTATATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (13 bp):
TAACAATAATTAT
Found at i:14597967 original size:2 final size:2
Alignment explanation
Indices: 14597960--14598004 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
14597950 GAATTTGTTT
*
14597960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14598002 TA T
1 TA T
14598005 TGAGGAATGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14598486 original size:13 final size:13
Alignment explanation
Indices: 14598468--14598492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14598458 AATATAAAAT
14598468 AAAAATTATATAA
1 AAAAATTATATAA
14598481 AAAAATTATATA
1 AAAAATTATATA
14598493 TAAGTTTAGT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATTATATAA
Found at i:14601368 original size:12 final size:12
Alignment explanation
Indices: 14601351--14601408 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
14601341 ATATATATAA
*
14601351 TTATTTAATTTT
1 TTATTTAATTAT
14601363 TTATTT-A-TAT
1 TTATTTAATTAT
*
14601373 ATATTT-ATCTAT
1 TTATTTAAT-TAT
*
14601385 TTATTTAATTTT
1 TTATTTAATTAT
14601397 TTATTTATATTA
1 TTATTTA-ATTA
14601409 AAAATAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
12 23 0.62
13 5 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTAATTAT
Found at i:14601420 original size:34 final size:34
Alignment explanation
Indices: 14601343--14601429 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
14601333 TTAACCCGAT
* * *
14601343 ATATATAATTATTTAATTTTTTATTTATATATAT
1 ATATATATTTATTTAATTTTTTATTTATATAAAA
* *
14601377 TTATCTATTTATTTAATTTTTTATTTATATTAAAA
1 ATATATATTTATTTAATTTTTTATTTATA-TAAAA
14601412 ATA-ATATTT-TATTAATTT
1 ATATATATTTAT-TTAATTT
14601430 CATGTTTGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 1 0.02
34 38 0.86
35 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (34 bp):
ATATATATTTATTTAATTTTTTATTTATATAAAA
Found at i:14602450 original size:2 final size:2
Alignment explanation
Indices: 14602440--14602470 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14602430 ATATGTTGTA
14602440 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14602471 TAGATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14604288 original size:21 final size:21
Alignment explanation
Indices: 14604240--14604290 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
14604230 TTAAAAAATT
*
14604240 TAAAA-AAAT-ATTTTTATGA
1 TAAAATAAATAATTTTTATAA
*
14604259 T-AAAT-AATAATTTTTTTAA
1 TAAAATAAATAATTTTTATAA
14604278 TAAAATAAATAAT
1 TAAAATAAATAAT
14604291 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.23
19 10 0.38
20 4 0.15
21 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATAAATAATTTTTATAA
Found at i:14606480 original size:12 final size:12
Alignment explanation
Indices: 14606463--14606492 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14606453 TCTCCGGGAC
14606463 TATAAGCAAGAA
1 TATAAGCAAGAA
14606475 TATAAGCAAGAA
1 TATAAGCAAGAA
14606487 -ATAAGC
1 TATAAGC
14606493 GTATATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.17
Consensus pattern (12 bp):
TATAAGCAAGAA
Found at i:14610926 original size:32 final size:32
Alignment explanation
Indices: 14610884--14610944 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
14610874 ATATTTTTTT
* *
14610884 ATTCTAATGAGTTCAATTCTTGTTGATATTTA
1 ATTCCAATGAGTTCAACTCTTGTTGATATTTA
*
14610916 ATTCCAATGAGTTCAACTGTTGTTGATAT
1 ATTCCAATGAGTTCAACTCTTGTTGATAT
14610945 CAAGTTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (32 bp):
ATTCCAATGAGTTCAACTCTTGTTGATATTTA
Found at i:14617308 original size:14 final size:13
Alignment explanation
Indices: 14617289--14617327 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
14617279 TTGTTATAAT
14617289 TAATAATAAAATTA
1 TAATAA-AAAATTA
14617303 TAAT-AAAAATTA
1 TAATAAAAAATTA
14617315 TAAATAAAAAATT
1 T-AATAAAAAATT
14617328 CTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATAAAAAATTA
Found at i:14617322 original size:13 final size:12
Alignment explanation
Indices: 14617286--14617324 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
14617276 TTTTTGTTAT
14617286 AATTAATAAT-AA
1 AATT-ATAATAAA
14617298 AATTATAATAAA
1 AATTATAATAAA
14617310 AATTATAAATAAA
1 AATTAT-AATAAA
14617323 AA
1 AA
14617325 ATTCTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.20
12 12 0.48
13 8 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTATAATAAA
Found at i:14617853 original size:30 final size:30
Alignment explanation
Indices: 14617817--14617873 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14617807 CGAAATTAAT
* * *
14617817 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
14617847 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
14617874 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:14621066 original size:2 final size:2
Alignment explanation
Indices: 14621059--14621093 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14621049 TGCTCCCATA
14621059 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14621094 ACACGCATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:14622835 original size:15 final size:15
Alignment explanation
Indices: 14622817--14622890 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
14622807 CCCTCGCCAC
14622817 CACCACCACCACCAT
1 CACCACCACCACCAT
* *
14622832 CACCACCTCCGCCAT
1 CACCACCACCACCAT
* *
14622847 CCCCACCCCCACCAT
1 CACCACCACCACCAT
* * * * *
14622862 CGCCTCCCCCGCCTT
1 CACCACCACCACCAT
*
14622877 CACCTCCACCACCA
1 CACCACCACCACCA
14622891 ACTTATCCAT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.20, C:0.65, G:0.04, T:0.11
Consensus pattern (15 bp):
CACCACCACCACCAT
Found at i:14622853 original size:30 final size:30
Alignment explanation
Indices: 14622802--14622890 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 30
14622792 CCTCCCCCAC
* *
14622802 CACCGCCCTCGCCA-CCACCACCACCACCAT
1 CACCACCCCCGCCATCC-CCACCACCACCAT
* *
14622832 CACCACCTCCGCCATCCCCACCCCCACCAT
1 CACCACCCCCGCCATCCCCACCACCACCAT
* * * * *
14622862 CGCCTCCCCCGCCTTCACCTCCACCACCA
1 CACCACCCCCGCCATCCCCACCACCACCA
14622891 ACTTATCCAT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
30 45 0.96
31 2 0.04
ACGTcount: A:0.19, C:0.65, G:0.06, T:0.10
Consensus pattern (30 bp):
CACCACCCCCGCCATCCCCACCACCACCAT
Found at i:14623079 original size:21 final size:21
Alignment explanation
Indices: 14623053--14623106 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14623043 CTCCCCACCA
* * *
14623053 CCACCACCTCCGCCACATTCT
1 CCACCACCGCCACCACATTCG
14623074 CCACCACCGCCACCACATTCG
1 CCACCACCGCCACCACATTCG
*
14623095 CCTCCACCGCCA
1 CCACCACCGCCA
14623107 ATTTATCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.59, G:0.07, T:0.13
Consensus pattern (21 bp):
CCACCACCGCCACCACATTCG
Found at i:14627303 original size:24 final size:24
Alignment explanation
Indices: 14627262--14627309 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14627252 CTTATTCAAT
*
14627262 TAAAAAAATTACATAAAATTTTAA
1 TAAAAAAATTACATAAAATATTAA
*
14627286 TAAAATAATTAC-TAAAAATATTAA
1 TAAAAAAATTACAT-AAAATATTAA
14627310 AATAAGGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAAAATTACATAAAATATTAA
Found at i:14636560 original size:18 final size:21
Alignment explanation
Indices: 14636524--14636566 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14636514 CCCGTTGTGA
14636524 TTTTTATTTTTCATTTGAT-TT
1 TTTTTATTTTTCA-TTGATCTT
14636545 TTTTTATTTTT-A-TGATCTT
1 TTTTTATTTTTCATTGATCTT
14636564 TTT
1 TTT
14636567 CTTTCATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.19
19 5 0.24
20 1 0.05
21 11 0.52
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTTCATTGATCTT
Found at i:14637814 original size:20 final size:21
Alignment explanation
Indices: 14637778--14637829 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
14637768 TCAAAAATTA
14637778 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
14637800 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
14637821 AT-AAATATT
1 ATAAAATATT
14637830 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:14637820 original size:21 final size:22
Alignment explanation
Indices: 14637778--14637829 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14637768 TCAAAAATTA
14637778 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
14637800 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
14637821 AT-AAATATT
1 ATAAAATATT
14637830 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:14637822 original size:14 final size:14
Alignment explanation
Indices: 14637814--14637856 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
14637804 AATATTATTT
14637814 TTTAAATATAAATA
1 TTTAAATATAAATA
14637828 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
* *
14637844 TATAAATAAAAAT
1 TTTAAATATAAAT
14637857 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.44
15 4 0.16
16 10 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:14637865 original size:16 final size:15
Alignment explanation
Indices: 14637814--14637865 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
14637804 AATATTATTT
*
14637814 TTTAAATATAAA-TA
1 TTTAAATAAAAATTA
*
14637828 TTTAAATATATAATTA
1 TTTAAATA-AAAATTA
*
14637844 TATAAATAAAAATTAA
1 TTTAAATAAAAATT-A
14637860 TTTAAA
1 TTTAAA
14637866 ATTATTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.27
15 7 0.23
16 15 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAAATAAAAATTA
Found at i:14639468 original size:29 final size:29
Alignment explanation
Indices: 14639436--14639495 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
14639426 ATATTATATT
*
14639436 AAATTAAAAAGTTT-TAAATATATATTTAA
1 AAATTAAAAAGTTTACAAATATAT-TTTAA
** *
14639465 AAATTTTAAAGTTTACAAATTTATTTTAA
1 AAATTAAAAAGTTTACAAATATATTTTAA
14639494 AA
1 AA
14639496 TTTTAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (29 bp):
AAATTAAAAAGTTTACAAATATATTTTAA
Found at i:14639479 original size:28 final size:29
Alignment explanation
Indices: 14639443--14639501 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
14639433 ATTAAATTAA
14639443 AAAGTTTTA-AATATATATTTAAAAATTTT
1 AAAGTTTTACAA-ATATATTTAAAAATTTT
* *
14639472 AAAG-TTTACAAATTTATTTTAAAATTTT
1 AAAGTTTTACAAATATATTTAAAAATTTT
14639500 AA
1 AA
14639502 TAATTTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (29 bp):
AAAGTTTTACAAATATATTTAAAAATTTT
Found at i:14640274 original size:283 final size:283
Alignment explanation
Indices: 14639773--14640307 Score: 806
Period size: 284 Copynumber: 1.9 Consensus size: 283
14639763 CAAAACAGAA
* * * *
14639773 AGGAAAAGAGAAGGTAAACGATGGCTACAACGACGCCTGTACGTTTCCAAGAACTGGTGCGTTTA
1 AGGAAAAAAGAAGGTAAACGATGGCGACAACGACGCCTGTACGGTTCCAAGAACCGGTGCGTTTA
* * * *
14639838 CATGCACAACGATCGTTTTGGCGGTCTTCGTCGTCGAAGTCGTGATCAAGGCAGGTATATTCGCT
66 CATGCACAACGACCGTTTTGGCGGTCTTCGTCGTCAAAGTCGCGATCAAGGCAGGTATATCCGCT
*
14639903 TTCTCTTTAGGTCGAGTTTGAATATAAAACGGTTAAAAGTCATTGAACAATAATTAAATTATAAG
131 TTCTCTTTAGGTCGAGTTTGAATATAAAACGATTAAAAGTCATTGAACAATAATTAAATTATAAG
* * * * *
14639968 ATTCATTTTCTTCACCGGTTAAGGTACCGCGTTTTGATTTGTTTTGTTGAGAATGTTTGAACTAC
196 ATTCATTTTCTCCACCAGTTAAGGTACAGCGTCTTGATTTGTTTTGGTGAGAATGTTTGAACTAC
14640033 CAAGTAACGGTGAAGAAACCGAG
261 CAAGTAACGGTGAAGAAACCGAG
* *
14640056 AGGAAAAAAGAAGGTAAACGATGGCGACAACGACGCCTTTGCGGTTCCAAGAACCGGTGCGTTTT
1 AGGAAAAAAGAAGGTAAACGATGGCGACAACGACGCCTGTACGGTTCCAAGAACCGGTGCG-TTT
* * *
14640121 ACATGCACGACGACCGTTTTGGCGGTCTTCGTCGTCAAAGTCGCGATCAAGGCAGGTATCTCCGT
65 ACATGCACAACGACCGTTTTGGCGGTCTTCGTCGTCAAAGTCGCGATCAAGGCAGGTATATCCGC
* * * *
14640186 TTTCTCTTTAGGTCGAGTTTGCATGCT-AAACGATTAAATGTCATCT-AACAATAATTAAA-TGT
130 TTTCTCTTTAGGTCGAGTTTGAAT-ATAAAACGATTAAAAGTCAT-TGAACAATAATTAAATTAT
*
14640248 AAGATTCATTTTCTCCACCAGTTAAGGTACAGTGTCTTGATTTGTTTTGGTGAGAATGTT
193 AAGATTCATTTTCTCCACCAGTTAAGGTACAGCGTCTTGATTTGTTTTGGTGAGAATGTT
14640308 GAAATACATT
Statistics
Matches: 225, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
283 111 0.49
284 112 0.50
285 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (283 bp):
AGGAAAAAAGAAGGTAAACGATGGCGACAACGACGCCTGTACGGTTCCAAGAACCGGTGCGTTTA
CATGCACAACGACCGTTTTGGCGGTCTTCGTCGTCAAAGTCGCGATCAAGGCAGGTATATCCGCT
TTCTCTTTAGGTCGAGTTTGAATATAAAACGATTAAAAGTCATTGAACAATAATTAAATTATAAG
ATTCATTTTCTCCACCAGTTAAGGTACAGCGTCTTGATTTGTTTTGGTGAGAATGTTTGAACTAC
CAAGTAACGGTGAAGAAACCGAG
Found at i:14658241 original size:19 final size:20
Alignment explanation
Indices: 14658204--14658246 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
14658194 AAAATATATT
*
14658204 TTATT-AAATTTATATATTA
1 TTATTAAAATTTATAAATTA
14658223 TTATTAAAATTT-TAAATTA
1 TTATTAAAATTTATAAATTA
14658242 -TATTA
1 TTATTA
14658247 TTTTTTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTAAAATTTATAAATTA
Found at i:14669277 original size:19 final size:18
Alignment explanation
Indices: 14669245--14669291 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
14669235 TTTACATTTT
14669245 AAATTAA-ATTTAAATTC
1 AAATTAATATTTAAATTC
*
14669262 AAATTAATACTTTAAATTT
1 AAATTAATA-TTTAAATTC
14669281 AAATTAATATT
1 AAATTAATATT
14669292 ATATTAACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.26
18 3 0.11
19 17 0.63
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTAATATTTAAATTC
Found at i:14669888 original size:28 final size:28
Alignment explanation
Indices: 14669834--14669887 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
14669824 TCTAAAATTT
*
14669834 TTTTAAAAAATTATGAAAACTTAAAAAC
1 TTTTAAAAAATTATCAAAACTTAAAAAC
* *
14669862 TTTTAAAAAA-TCTCAAAATTTAAAAA
1 TTTTAAAAAATTATCAAAACTTAAAAA
14669888 AAATTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (28 bp):
TTTTAAAAAATTATCAAAACTTAAAAAC
Found at i:14670375 original size:21 final size:22
Alignment explanation
Indices: 14670339--14670386 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
14670329 TTCATTTTTT
* **
14670339 AATTTTTTGAATTTTTTACTAA
1 AATTTTTAGAATTTTTTAAAAA
14670361 AATTTTTAGAA-TTTTTAAAAA
1 AATTTTTAGAATTTTTTAAAAA
14670382 AATTT
1 AATTT
14670387 CATATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
AATTTTTAGAATTTTTTAAAAA
Found at i:14670478 original size:26 final size:26
Alignment explanation
Indices: 14670438--14670500 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 26
14670428 AAAATTTCAA
* *
14670438 AATTTTTTAGAATTTATC-AAATTAT
1 AATTTTTAAGAATTTAACAAAATTAT
14670463 AATTTTTAAGATATTTAACAAAAAATTAT
1 AATTTTTAAGA-ATTTAAC--AAAATTAT
14670492 AATTTTTAA
1 AATTTTTAA
14670501 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 10 0.31
26 6 0.19
29 16 0.50
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (26 bp):
AATTTTTAAGAATTTAACAAAATTAT
Found at i:14671104 original size:70 final size:70
Alignment explanation
Indices: 14670991--14671134 Score: 182
Period size: 70 Copynumber: 2.1 Consensus size: 70
14670981 TAAAAACTAG
* * *
14670991 AGCTAAAGCTTGAATGCGATCATAGGCATATGTACGTGTCACGTGGCCATTACCCTCTTCC-CTC
1 AGCTAAAGCTTGAATGCGATCATAAGCATATGTACGTATCACGTGGACATTACCCTC-TCCTCTC
14671055 AAAATC
65 AAAATC
* * * * * *
14671061 AGCTAGAGCTTGAATGCGATTATAAGCATATTTATGTATCACGTGGATATTACTCTCTCCTCTCA
1 AGCTAAAGCTTGAATGCGATCATAAGCATATGTACGTATCACGTGGACATTACCCTCTCCTCTCA
*
14671126 AAATT
66 AAATC
14671131 AGCT
1 AGCT
14671135 TATCAAAGTG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 3 0.05
70 60 0.95
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (70 bp):
AGCTAAAGCTTGAATGCGATCATAAGCATATGTACGTATCACGTGGACATTACCCTCTCCTCTCA
AAATC
Found at i:14672245 original size:32 final size:31
Alignment explanation
Indices: 14672148--14672333 Score: 98
Period size: 32 Copynumber: 5.9 Consensus size: 31
14672138 CTAAAGCGAC
* * * * *
14672148 AATTTAAATATTTATATTGTATAAAACATTAA
1 AATTTATATATTTATATTATATTATATA-TAA
*
14672180 AATTTATATATTTATATTATATTTTATATAA
1 AATTTATATATTTATATTATATTATATATAA
*
14672211 AATTTATGTA-TTATAATTTATATTA-ATATAAA
1 AATTTATATATTTAT-A-TTATATTATATAT-AA
*
14672243 AATATATAATATTT-T-TTAT-TT-TAT-TAA
1 AATTTAT-ATATTTATATTATATTATATATAA
* * *
14672270 AGTTATATATAATTATTATTATAATTTATATTATAT
1 AATT-TATATATTTA-TATTAT-A-TTATA-TATAA
* * *
14672306 TATTTTTATATGTTATTTTATATTATAT
1 AATTTATATAT-TTATATTATATTATAT
14672334 TATATTTTAA
Statistics
Matches: 118, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
27 9 0.08
28 4 0.03
29 5 0.04
30 12 0.10
31 17 0.14
32 38 0.32
33 10 0.08
34 5 0.04
35 11 0.09
36 7 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (31 bp):
AATTTATATATTTATATTATATTATATATAA
Found at i:14672305 original size:5 final size:5
Alignment explanation
Indices: 14672272--14672339 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
14672262 TTTATTAAAG
* *
14672272 TTATA -TATAA TTATTA TTATAA TTTATA TTATA TTAT- TTTTA -TATG
1 TTATA TTAT-A TTA-TA TTAT-A -TTATA TTATA TTATA TTATA TTATA
*
14672318 TTATT TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TT
14672340 TTAAGTTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 8 0.16
5 30 0.59
6 8 0.16
7 5 0.10
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:14672321 original size:23 final size:24
Alignment explanation
Indices: 14672259--14672337 Score: 82
Period size: 23 Copynumber: 3.5 Consensus size: 24
14672249 TAATATTTTT
14672259 TATT-TTATTA-AA-GTTATA-TA
1 TATTATTATTATAATGTTATATTA
14672279 TAATTATTATTATAAT-TTATATTA
1 T-ATTATTATTATAATGTTATATTA
* *
14672303 TATTATTTTTAT-ATGTTATTTTA
1 TATTATTATTATAATGTTATATTA
14672326 TATTA-TATTATA
1 TATTATTATTATA
14672338 TTTTAAGTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 13 0.27
23 29 0.59
24 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (24 bp):
TATTATTATTATAATGTTATATTA
Found at i:14672335 original size:67 final size:69
Alignment explanation
Indices: 14672157--14672302 Score: 160
Period size: 69 Copynumber: 2.1 Consensus size: 69
14672147 CAATTTAAAT
* **
14672157 ATTTATATT-GTATAAAACAT-TA-AA-ATTTATATATTTATATTATATTTTATATAAAATTTAT
1 ATTTATATTAATATAAAA-ATATATAATATTT-TATA-TTATATTA-AAGTTATATAAAATTTAT
14672218 GTATTATA
62 GTATTATA
* * *
14672226 ATTTATATTAATATAAAAATATATAATATTTTTTATTTTATTAAAGTTATATATAA-TTAT-TAT
1 ATTTATATTAATATAAAAATATATAATATTTTATATTATATTAAAGTTATATAAAATTTATGTAT
14672289 TATA
66 TATA
14672293 ATTTATATTA
1 ATTTATATTA
14672303 TATTATTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
67 17 0.25
68 4 0.06
69 21 0.31
70 16 0.24
71 5 0.07
72 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (69 bp):
ATTTATATTAATATAAAAATATATAATATTTTATATTATATTAAAGTTATATAAAATTTATGTAT
TATA
Found at i:14672777 original size:28 final size:29
Alignment explanation
Indices: 14672720--14672782 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
14672710 TTAAATTTGA
*
14672720 TTATATAATTGATATATTTTATAAATATT
1 TTATATAATTGATATAATTTATAAATATT
14672749 TTATATAA-T-ATCATAATTTATAAATATT
1 TTATATAATTGAT-ATAATTTATAAATATT
14672777 TTATAT
1 TTATAT
14672783 GACACTTCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.06
28 22 0.69
29 8 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TTATATAATTGATATAATTTATAAATATT
Found at i:14674020 original size:13 final size:13
Alignment explanation
Indices: 14673984--14674025 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
14673974 TTTAACAAAA
* *
14673984 ATTTTAATTTATC
1 ATTTTAATTTTTT
14673997 ATTTTAATTTTTT
1 ATTTTAATTTTTT
14674010 ATTTTAA-TTTTT
1 ATTTTAATTTTTT
14674022 ATTT
1 ATTT
14674026 AATAGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:14674363 original size:77 final size:81
Alignment explanation
Indices: 14674210--14674368 Score: 238
Period size: 77 Copynumber: 2.0 Consensus size: 81
14674200 TAGGAGTTTA
* *
14674210 AAATTATCGCTTCACTAAAAAAAATATTTATATATAATATATTTCTATTTTTTTTGTAGTATCAA
1 AAATTATCGCTTCACTAAAAAAAATATTTATATAT-ATATATTTATATTTTTTTAGTAGTATCAA
14674275 ATATTTCGATTTATACT
65 ATATTTCGATTTATACT
*
14674292 AAATTATTGCTTCACTAAAAAAAA-ATTTATATAT-TA-ATTTATA-TTTTTTAGTAGTATCAAA
1 AAATTATCGCTTCACTAAAAAAAATATTTATATATATATATTTATATTTTTTTAGTAGTATCAAA
14674353 TATATT-GATTTATACT
66 TAT-TTCGATTTATACT
14674369 TTATTTTCTA
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
77 30 0.41
78 8 0.11
79 2 0.03
81 10 0.14
82 23 0.32
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (81 bp):
AAATTATCGCTTCACTAAAAAAAATATTTATATATATATATTTATATTTTTTTAGTAGTATCAAA
TATTTCGATTTATACT
Found at i:14676229 original size:79 final size:77
Alignment explanation
Indices: 14676104--14676250 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 77
14676094 ATTCCAAATT
* * * * *
14676104 AACAAAAAAAAATTTATATGCTTACACATGCTTAAGAGTTATTTTTTATACATTAGCAATGAAAA
1 AACAAAAAAAAATTAATATGCCTACACATGCTTAAGAGTTAATTTTTATACATCACCAAT-AAAA
14676169 TTTTAAATTAACA
65 TTTTAAATTAACA
* * * *
14676182 AACAAATAAAAAATTAATATGCCTATACGTGTTTAATAGTTAATTTTTATACATCACCAATAAAA
1 AACAAA-AAAAAATTAATATGCCTACACATGCTTAAGAGTTAATTTTTATACATCACCAATAAAA
14676247 TTTT
65 TTTT
14676251 TTAATTTTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.24
79 45 0.76
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (77 bp):
AACAAAAAAAAATTAATATGCCTACACATGCTTAAGAGTTAATTTTTATACATCACCAATAAAAT
TTTAAATTAACA
Found at i:14678217 original size:21 final size:22
Alignment explanation
Indices: 14678193--14678239 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14678183 TATATAAATA
*
14678193 TAAAATATATT-TTTTAAATTT
1 TAAAATATATTATATTAAATTT
* *
14678214 TAAATTATATTATATTATATTT
1 TAAAATATATTATATTAAATTT
14678236 TAAA
1 TAAA
14678240 TTATTGGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAAATATATTATATTAAATTT
Found at i:14678238 original size:22 final size:21
Alignment explanation
Indices: 14678180--14678243 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
14678170 TTATATTAAA
* *
14678180 ATTTATATAAA-TATAAAATAT
1 ATTTAT-TAAATTTTAAATTAT
*
14678201 ATTTTTTAAATTTTAAATTAT
1 ATTTATTAAATTTTAAATTAT
*
14678222 ATTATATTATATTTTAAATTAT
1 ATT-TATTAAATTTTAAATTAT
14678244 TGGATACCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.11
21 16 0.44
22 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTATTAAATTTTAAATTAT
Found at i:14695242 original size:11 final size:11
Alignment explanation
Indices: 14695187--14695245 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
14695177 GAAATTTGTT
*
14695187 ATTTAAAATTTT
1 ATTT-AAATTTA
14695199 ATTTAAATTTA
1 ATTTAAATTTA
14695210 A-TTAAATTTTA
1 ATTTAAA-TTTA
*
14695221 ATTTTAA---A
1 ATTTAAATTTA
14695229 ATTTAAATTTA
1 ATTTAAATTTA
14695240 ATTTAA
1 ATTTAA
14695246 TATAAAAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
8 7 0.18
10 5 0.13
11 19 0.49
12 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:14695253 original size:24 final size:24
Alignment explanation
Indices: 14695203--14695253 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
14695193 AATTTTATTT
* *
14695203 AAATTTAATTAAATTTTAATTTTA
1 AAATTTAATTAAATTTTAATATAA
*
14695227 AAATTTAAATTTAA-TTTAATATAA
1 AAATTT-AATTAAATTTTAATATAA
14695251 AAA
1 AAA
14695254 GTAAATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTTAATTAAATTTTAATATAA
Found at i:14695500 original size:27 final size:26
Alignment explanation
Indices: 14695448--14695508 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
14695438 ATTCAAATAA
* *
14695448 AATATTAAAATATTTAAACTTAATTT
1 AATAATAAAATATTTAAACTCAATTT
* *
14695474 TATCAATAAATTATTTAAA-TCACATTT
1 AAT-AATAAAATATTTAAACTCA-ATTT
14695501 AATAATAA
1 AATAATAA
14695509 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAATAAAATATTTAAACTCAATTT
Found at i:14695513 original size:21 final size:21
Alignment explanation
Indices: 14695488--14695549 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
14695478 AATAAATTAT
*
14695488 TTAAATCACATTT-AATAATAA
1 TTAAAT-AAATTTAAATAATAA
**
14695509 TTAAATAAATTTAAATTTTAA
1 TTAAATAAATTTAAATAATAA
14695530 TTAAATTAAATTTAAATAAT
1 TTAAA-TAAATTTAAATAAT
14695550 TTATAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 5 0.15
21 17 0.50
22 12 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATAAATTTAAATAATAA
Found at i:14695540 original size:16 final size:17
Alignment explanation
Indices: 14695509--14695552 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
14695499 TTAATAATAA
14695509 TTAAATAAATTTAAATT
1 TTAAATAAATTTAAATT
*
14695526 TTAATTAAA-TTAAA-T
1 TTAAATAAATTTAAATT
14695541 TTAAAT-AATTTA
1 TTAAATAAATTTA
14695553 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 5 0.21
17 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATAAATTTAAATT
Found at i:14695557 original size:22 final size:22
Alignment explanation
Indices: 14695506--14695546 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14695496 CATTTAATAA
14695506 TAATTAAA-TAAATTTAAATTT
1 TAATTAAATTAAATTTAAATTT
14695527 TAATTAAATTAAATTTAAAT
1 TAATTAAATTAAATTTAAAT
14695547 AATTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTAAATTAAATTTAAATTT
Found at i:14702423 original size:12 final size:12
Alignment explanation
Indices: 14702392--14702425 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14702382 ATGAGTAAGT
*
14702392 AAATAAAAATTA
1 AAATAAATATTA
*
14702404 AATTAAATATTA
1 AAATAAATATTA
14702416 AAATAAATAT
1 AAATAAATAT
14702426 ATTAAAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATAAATATTA
Found at i:14704133 original size:23 final size:23
Alignment explanation
Indices: 14704090--14704164 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
14704080 TTAATTGATT
*
14704090 TTATTTTAAAT-TA-ATAAAATA
1 TTATTTTAAATAAATATAAAATA
14704111 TTATTTTAAATAAATATAAAATA
1 TTATTTTAAATAAATATAAAATA
*
14704134 -TATAATTAAATAAATAATAAAA-A
1 TTAT-TTTAAATAAAT-ATAAAATA
*
14704157 ATATTTTA
1 TTATTTTA
14704165 TATGCATATC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 11 0.24
22 4 0.09
23 22 0.48
24 9 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTATTTTAAATAAATATAAAATA
Found at i:14705789 original size:23 final size:22
Alignment explanation
Indices: 14705763--14705808 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14705753 ATTTGATATA
14705763 TATAAATTAATATAAAATAATTT
1 TATAAATTAAT-TAAAATAATTT
* * *
14705786 TATATATTGATTAAAATTATTT
1 TATAAATTAATTAAAATAATTT
14705808 T
1 T
14705809 TTATTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TATAAATTAATTAAAATAATTT
Found at i:14706704 original size:15 final size:15
Alignment explanation
Indices: 14706684--14706713 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14706674 ATTAATTAAT
14706684 AAATATTAGTATTTA
1 AAATATTAGTATTTA
*
14706699 AAATATTATTATTTA
1 AAATATTAGTATTTA
14706714 TATATATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
AAATATTAGTATTTA
Found at i:14708615 original size:104 final size:103
Alignment explanation
Indices: 14708431--14708631 Score: 294
Period size: 104 Copynumber: 1.9 Consensus size: 103
14708421 GGTTTGCAGT
* ** **
14708431 TCCAAAATAACACAAGAGTTTCTCCTCTTTCTTTTTTTCTCGAGAAAATTTCCCCTCGTTTTTTT
1 TCCAAAATAACACAAGAGTTTCTCCTCTTTCTTTTTCTCTCGAGAAAATTTCCCCTCAATTGATT
* *
14708496 TTTTTTGGCTGAGGTACGGGCGTGGAGTTTTTTGCCGA
66 CTTTTTGGCTGAGGTACGGGCGTGGAGGTTTTTGCCGA
* *
14708534 TCCAAAATAACACACGAGTTTCTCCTCTTTGTTTATTCTCTCGAGAAAATTTCCCCTCAATTGAT
1 TCCAAAATAACACAAGAGTTTCTCCTCTTTCTTT-TTCTCTCGAGAAAATTTCCCCTCAATTGAT
* *
14708599 TCTTTTTGGTTGAGGTACGGTCGTGGAGGTTTT
65 TCTTTTTGGCTGAGGTACGGGCGTGGAGGTTTT
14708632 AGGTGTTTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
103 32 0.37
104 54 0.63
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (103 bp):
TCCAAAATAACACAAGAGTTTCTCCTCTTTCTTTTTCTCTCGAGAAAATTTCCCCTCAATTGATT
CTTTTTGGCTGAGGTACGGGCGTGGAGGTTTTTGCCGA
Found at i:14711379 original size:10 final size:10
Alignment explanation
Indices: 14711364--14711389 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14711354 CCCCCCCCCA
14711364 AAAAAAAAAG
1 AAAAAAAAAG
14711374 AAAAAAAAAG
1 AAAAAAAAAG
14711384 AAAAAA
1 AAAAAA
14711390 GAGAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:14718254 original size:2 final size:2
Alignment explanation
Indices: 14718247--14718272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14718237 AGAATAGGAA
14718247 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14718273 GTAGCTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14723890 original size:43 final size:43
Alignment explanation
Indices: 14723829--14723915 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
14723819 GTCGTATAAA
14723829 CCAAGGAAGCAAACGTTTTTCAAAAAAAGGGTTCATCCAAATG
1 CCAAGGAAGCAAACGTTTTTCAAAAAAAGGGTTCATCCAAATG
* *
14723872 CCAAGGAAGCACACGTTTTTCAAAAAACGGGTTCATCCAAATG
1 CCAAGGAAGCAAACGTTTTTCAAAAAAAGGGTTCATCCAAATG
14723915 C
1 C
14723916 TGTTGGTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (43 bp):
CCAAGGAAGCAAACGTTTTTCAAAAAAAGGGTTCATCCAAATG
Found at i:14727784 original size:28 final size:28
Alignment explanation
Indices: 14727747--14727804 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
14727737 AAATAATAAT
*
14727747 AAAAATTATTATAATTATAATTGAAAAA
1 AAAAATTATTATAATTATAATCGAAAAA
* * *
14727775 AAAAATTATTGTAGTTATGATCGAAAAA
1 AAAAATTATTATAATTATAATCGAAAAA
14727803 AA
1 AA
14727805 TTTATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (28 bp):
AAAAATTATTATAATTATAATCGAAAAA
Found at i:14728860 original size:28 final size:29
Alignment explanation
Indices: 14728796--14728860 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 29
14728786 AAGTTTCTTG
*
14728796 AATTTTATTATTTTATTTAAATAAATTTTT
1 AATTTT-TTATTATATTTAAATAAATTTTT
14728826 -ATATTTTTATTATATTT-AATAAATTTTT
1 AAT-TTTTTATTATATTTAAATAAATTTTT
14728854 AATTTTT
1 AATTTTT
14728861 GATTTGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 15 0.47
29 14 0.44
30 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
AATTTTTTATTATATTTAAATAAATTTTT
Found at i:14728931 original size:16 final size:16
Alignment explanation
Indices: 14728881--14728932 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
14728871 CAAGTATGTT
14728881 TTTATTTTAATTAAAAA
1 TTTA-TTTAATTAAAAA
* *
14728898 TTAATTTATGTTAAAAA
1 TTTATTTA-ATTAAAAA
*
14728915 TTTATTTAATTACAAA
1 TTTATTTAATTAAAAA
14728931 TT
1 TT
14728933 AAAAGATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTATTTAATTAAAAA
Found at i:14728945 original size:30 final size:30
Alignment explanation
Indices: 14728909--14729033 Score: 107
Period size: 30 Copynumber: 4.2 Consensus size: 30
14728899 TAATTTATGT
14728909 TAAAAATTTATTT-AATTACAAATTAAAAGA
1 TAAAAATTTATTTGAA-TACAAATTAAAAGA
* *
14728939 TAAAAATTTATTTGAATATAAATT-AAAGTT
1 TAAAAATTTATTTGAATACAAATTAAAAG-A
* * *
14728969 TAAAACTTTATTTGAATGCAAAATAAAA-A
1 TAAAAATTTATTTGAATACAAATTAAAAGA
* * *
14728998 TTAAAAATTCATTT-AGATA-AAATAAAAATA
1 -TAAAAATTTATTTGA-ATACAAATTAAAAGA
14729028 TAAAAA
1 TAAAAA
14729034 ATTTGTCTAA
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
29 18 0.23
30 54 0.70
31 5 0.06
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (30 bp):
TAAAAATTTATTTGAATACAAATTAAAAGA
Found at i:14736527 original size:20 final size:21
Alignment explanation
Indices: 14736504--14736560 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
14736494 TAATTTGATT
**
14736504 TATAAATTTTAA-ATTTTTAA
1 TATAAATTTTAATATAGTTAA
*
14736524 TATATTATTTTAATATAGTTAA
1 TATA-AATTTTAATATAGTTAA
*
14736546 -ATAAATTTTGATATA
1 TATAAATTTTAATATA
14736561 AAATTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 14 0.47
21 10 0.33
22 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TATAAATTTTAATATAGTTAA
Found at i:14736613 original size:20 final size:19
Alignment explanation
Indices: 14736581--14736618 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14736571 TTTTGTTTTA
*
14736581 TAAAAGTTTAAAAAATATG
1 TAAAAATTTAAAAAATATG
14736600 TAAAAATTTCAAAAAATAT
1 TAAAAATTT-AAAAAATAT
14736619 AATTTGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAAATTTAAAAAATATG
Found at i:14736753 original size:10 final size:11
Alignment explanation
Indices: 14736732--14736757 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14736722 TTTAAATTGA
14736732 TTTTTAATTTT
1 TTTTTAATTTT
14736743 TTTTTAATTTT
1 TTTTTAATTTT
14736754 TTTT
1 TTTT
14736758 CTCACCCTTA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:14750009 original size:1 final size:1
Alignment explanation
Indices: 14750005--14750033 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
14749995 TTTAGTTGAG
14750005 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14750034 CACAGTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:14767442 original size:35 final size:35
Alignment explanation
Indices: 14767377--14767457 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
14767367 GAGCTCGTCT
*
14767377 TAAAATTTATTATTTGAAATTTAACTTAAATTATA
1 TAAAATTTATTATTTGAAATTGAACTTAAATTATA
* *
14767412 TAAAATTT-TTATTTTTAAACTTGAAC-TAAATTCGAAA
1 TAAAATTTATTA-TTTGAAA-TTGAACTTAAATT--ATA
14767449 TAAAATTTA
1 TAAAATTTA
14767458 AGTTATTCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 3 0.08
35 20 0.53
36 5 0.13
37 10 0.26
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (35 bp):
TAAAATTTATTATTTGAAATTGAACTTAAATTATA
Found at i:14770592 original size:31 final size:30
Alignment explanation
Indices: 14770552--14770619 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
14770542 ATTTATTATC
14770552 AATAAATCAAATAATGATAATTCATTAATG
1 AATAAATCAAATAATGATAATTCATTAATG
* * *
14770582 AAGTAAATCAAATTATTATAATTTATTAATG
1 AA-TAAATCAAATAATGATAATTCATTAATG
14770613 AATAAAT
1 AATAAAT
14770620 TTTTTGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (30 bp):
AATAAATCAAATAATGATAATTCATTAATG
Found at i:14774946 original size:18 final size:19
Alignment explanation
Indices: 14774918--14774953 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14774908 AAATAATATC
*
14774918 TTTTTATTTAATTTTTAAT
1 TTTTTATTTAAATTTTAAT
14774937 TTTTTA-TTAAATTTTAA
1 TTTTTATTTAAATTTTAA
14774954 GACGTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTATTTAAATTTTAAT
Found at i:14775914 original size:2 final size:2
Alignment explanation
Indices: 14775907--14775932 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14775897 GGGGAAAAAG
14775907 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
14775933 ACAGAGAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14787898 original size:2 final size:2
Alignment explanation
Indices: 14787891--14787915 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14787881 TACTAGGGTT
14787891 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14787916 TTGCAGCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14791059 original size:24 final size:23
Alignment explanation
Indices: 14791005--14791059 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
14790995 CCCTCTGTCT
*
14791005 TTTTTTTTTTAATCTTAAAATTA
1 TTTTTTTTTAAATCTTAAAATTA
*
14791028 TATCTTTTTTTAATATTTTAAAATTA
1 T-T-TTTTTTTAA-ATCTTAAAATTA
14791054 TTTTTT
1 TTTTTT
14791060 ATGAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 5 0.19
25 9 0.33
26 12 0.44
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTTTTAAATCTTAAAATTA
Found at i:14797351 original size:21 final size:21
Alignment explanation
Indices: 14797322--14797374 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
14797312 TAGTAACAAT
* *
14797322 AAAAGCAGAAATTCTGGCACA
1 AAAATCAGAAAATCTGGCACA
*
14797343 AAAATCAGACAAATCTGGCTCA
1 AAAATCAGA-AAATCTGGCACA
*
14797365 AAAGTCAGAA
1 AAAATCAGAA
14797375 CTTACTGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAATCAGAAAATCTGGCACA
Found at i:14804603 original size:16 final size:18
Alignment explanation
Indices: 14804582--14804615 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14804572 TATTATATGT
14804582 TGTTTT-ATT-AAAAAAA
1 TGTTTTAATTGAAAAAAA
14804598 TGTTTTAATTGAAAAAAA
1 TGTTTTAATTGAAAAAAA
14804616 ATATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TGTTTTAATTGAAAAAAA
Found at i:14807340 original size:18 final size:20
Alignment explanation
Indices: 14807319--14807368 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
14807309 ATATTATTTT
*
14807319 TTAAATATATCTATAA-A-A
1 TTAAATATATATATAATATA
*
14807337 TTAAATAAATATATAATATA
1 TTAAATATATATATAATATA
14807357 TTAAA-ATATATA
1 TTAAATATATATA
14807369 ATTAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 14 0.52
19 7 0.26
20 6 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAATATATATATAATATA
Found at i:14807378 original size:17 final size:17
Alignment explanation
Indices: 14807330--14807378 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
14807320 TAAATATATC
*
14807330 TATAAAATTAAAT-AAA
1 TATATAATTAAATAAAA
*
14807346 TATATAA-TATATTAAAA
1 TATATAATTA-AATAAAA
14807363 TATATAATTAAATAAA
1 TATATAATTAAATAAA
14807379 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.07
16 8 0.30
17 15 0.56
18 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATATAATTAAATAAAA
Found at i:14808268 original size:30 final size:31
Alignment explanation
Indices: 14808229--14808295 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
14808219 TCAATTATAT
* *
14808229 AAAAGTAAATTTTTAAAAATTTAATTGAATG
1 AAAAGTAAATATTTAAAAATTAAATTGAATG
*
14808260 AAAA-TAAATATTTAAAAATTAAATTGATTG
1 AAAAGTAAATATTTAAAAATTAAATTGAATG
14808290 TAAAAG
1 -AAAAG
14808296 AACAAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (31 bp):
AAAAGTAAATATTTAAAAATTAAATTGAATG
Found at i:14817394 original size:2 final size:2
Alignment explanation
Indices: 14817387--14817433 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
14817377 TTTACGTGAT
*
14817387 TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14817429 TA TA T
1 TA TA T
14817434 GAGCCTTGGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14825614 original size:13 final size:13
Alignment explanation
Indices: 14825596--14825622 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14825586 TCATTATAAG
14825596 ATTAACATCAGAA
1 ATTAACATCAGAA
14825609 ATTAACATCAGAA
1 ATTAACATCAGAA
14825622 A
1 A
14825623 AACAAAACCC
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:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ATTAACATCAGAA
Found at i:14828285 original size:14 final size:14
Alignment explanation
Indices: 14828266--14828295 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14828256 GAAGCAGTTT
14828266 AATAAAAACTTAAA
1 AATAAAAACTTAAA
*
14828280 AATAAAAATTTAAA
1 AATAAAAACTTAAA
14828294 AA
1 AA
14828296 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAAACTTAAA
Found at i:14828327 original size:160 final size:169
Alignment explanation
Indices: 14828045--14828360 Score: 445
Period size: 160 Copynumber: 1.9 Consensus size: 169
14828035 AACAATCATA
*
14828045 AATAAAAAAAAAACTCTCTTTCACGTAAAAGTTACATTATGTGAAACAGTTATGAAACAGTAATA
1 AATAAAAAAAAAACTCTCTTTCACATAAAAGTTACATTATGTGAAACAGTTAT--AACAGTAATA
* * *
14828110 AATATCTAAAAATAAAAACTTAAAAATTTAAGTTTAAACATATTTGTTGAAATTAAAACATAGTT
64 AATATCTAAAAATAAAAACTTAAAAAATTAAATTTAAACATATTTGTTGAAATTAAAACATAGCT
14828175 ATCAAAACAAAACAA-A-AAAAAAAAGGCCTATACACAAAT
129 ATCAAAACAAAACAACACAAAAAAAAGGCCTATACACAAAT
*
14828214 AATAAAAAAAAAACTCTCTTTCACATGAAAA-TTACATTATGTGAAGCAGTT-T-A-A-TAA-AA
1 AATAAAAAAAAAACTCTCTTTCACAT-AAAAGTTACATTATGTGAAACAGTTATAACAGTAATAA
* * * *
14828273 A-CT-TAAAAATAAAAATTTAAAAAATTAAATTTAAATATATTTTTTGAAATTAAAACATAGCTA
65 ATATCTAAAAATAAAAACTTAAAAAATTAAATTTAAACATATTTGTTGAAATTAAAACATAGCTA
*
14828336 TCAAAATAAAACAACACAAAAAAAA
130 TCAAAACAAAACAACACAAAAAAAA
14828361 CTATAAATAA
Statistics
Matches: 134, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
160 67 0.50
161 2 0.01
162 11 0.08
163 3 0.02
164 1 0.01
165 1 0.01
168 1 0.01
169 44 0.33
170 4 0.03
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (169 bp):
AATAAAAAAAAAACTCTCTTTCACATAAAAGTTACATTATGTGAAACAGTTATAACAGTAATAAA
TATCTAAAAATAAAAACTTAAAAAATTAAATTTAAACATATTTGTTGAAATTAAAACATAGCTAT
CAAAACAAAACAACACAAAAAAAAGGCCTATACACAAAT
Found at i:14835337 original size:17 final size:18
Alignment explanation
Indices: 14835306--14835339 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14835296 TTTTTTTAAA
*
14835306 AAAAAATTAAGATATATT
1 AAAAAATTAAAATATATT
14835324 AAAAAA-TAAAATATAT
1 AAAAAATTAAAATATAT
14835340 AATAATATTT
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATTAAAATATATT
Found at i:14835924 original size:3 final size:3
Alignment explanation
Indices: 14835916--14835940 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14835906 AAAAAACCAA
14835916 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14835941 CCAAAACGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14847126 original size:2 final size:2
Alignment explanation
Indices: 14847086--14847117 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14847076 ACATACATAC
14847086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14847118 GCATATATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14849416 original size:7 final size:7
Alignment explanation
Indices: 14849404--14849428 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14849394 TTATTATGTG
14849404 TTTTATA
1 TTTTATA
14849411 TTTTATA
1 TTTTATA
14849418 TTTTATA
1 TTTTATA
14849425 TTTT
1 TTTT
14849429 TGAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:14849638 original size:18 final size:18
Alignment explanation
Indices: 14849617--14849892 Score: 68
Period size: 18 Copynumber: 15.6 Consensus size: 18
14849607 AATTTATTAA
14849617 TATATTATTTATAAATAT
1 TATATTATTTATAAATAT
14849635 TATATTA---ATAAATA-
1 TATATTATTTATAAATAT
*
14849649 AATATTATATTAT--ATAT
1 TATATTAT-TTATAAATAT
*
14849666 TATATTATTAATAAAT-T
1 TATATTATTTATAAATAT
** *
14849683 TA-ATATATTATATTAACCAA
1 TATAT-TATT-TA-TAAATAT
* * *
14849703 CATATTA-TTA-ATATAA
1 TATATTATTTATAAATAT
* *
14849719 TATATTATTTGTTAATA-
1 TATATTATTTATAAATAT
* *
14849736 TA-ATGTA-TTATTAATAG
1 TATAT-TATTTATAAATAT
* *
14849753 AATA-TATTATATCAATA-
1 TATATTATT-TATAAATAT
* * *
14849770 -ATA-TATTAATAAACAA
1 TATATTATTTATAAATAT
*
14849786 TATATTATTAATAATATAT
1 TATATTATTTATAA-ATAT
*
14849805 AAATTATTATTTATTAATATAT
1 -TA-TATTATTTA-TAA-ATAT
*
14849827 TAT-TTATTAATATAATAT
1 TATATTATTTATA-AATAT
*
14849845 TAT-TTATATGATAAATAT
1 TATATTAT-TTATAAATAT
* *
14849863 AATAATATTTATATAATAT
1 TATATTATTTATA-AATAT
*
14849882 AAATATTATTT
1 -TATATTATTT
14849893 TATTAATATA
Statistics
Matches: 195, Mismatches: 32, Indels: 60
0.68 0.11 0.21
Matches are distributed among these distances:
14 6 0.03
15 12 0.06
16 36 0.18
17 25 0.13
18 58 0.30
19 25 0.13
20 14 0.07
21 11 0.06
22 8 0.04
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (18 bp):
TATATTATTTATAAATAT
Found at i:14849691 original size:37 final size:35
Alignment explanation
Indices: 14849612--14849697 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 35
14849602 AATAAAATTT
14849612 ATTAATATATTAT-TTATAAATATTATATTAATAA
1 ATTAATATATTATATTATAAATATTATATTAATAA
*
14849646 A-TAA-ATATTATATTATATAT-TATATTATTAATAA
1 ATTAATATATTATATTATAAATAT-TA-TATTAATAA
14849680 ATTTAATATATTATATTA
1 A-TTAATATATTATATTA
14849698 ACCAACATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
32 8 0.18
33 12 0.27
34 11 0.24
36 3 0.07
37 11 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
ATTAATATATTATATTATAAATATTATATTAATAA
Found at i:14849777 original size:29 final size:28
Alignment explanation
Indices: 14849744--14849804 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
14849734 TATAATGTAT
*
14849744 TATTAAT-AGAATATATTATATCAATAATA
1 TATTAATAACAATATATTAT-T-AATAATA
14849773 TATTAATAAACAATATATTATTAATAATA
1 TATTAAT-AACAATATATTATTAATAATA
14849802 TAT
1 TAT
14849805 AAATTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 17 0.59
30 1 0.03
31 11 0.38
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (28 bp):
TATTAATAACAATATATTATTAATAATA
Found at i:14849862 original size:23 final size:21
Alignment explanation
Indices: 14849823--14849905 Score: 79
Period size: 23 Copynumber: 4.1 Consensus size: 21
14849813 ATTTATTAAT
14849823 ATATTATTTAT-T--AATATA
1 ATATTATTTATATAAAATATA
14849841 ATATTATTTATATGATAAATATA
1 ATATTATTTATAT-A-AAATATA
* *
14849864 ATAATATTTATATAATATA-A
1 ATATTATTTATATAAAATATA
*
14849884 ATATTATTT-TAT-TAATATA
1 ATATTATTTATATAAAATATA
14849903 ATA
1 ATA
14849906 ATTGTAACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
18 14 0.26
19 8 0.15
20 9 0.17
21 4 0.07
22 1 0.02
23 18 0.33
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
ATATTATTTATATAAAATATA
Found at i:14849883 original size:25 final size:25
Alignment explanation
Indices: 14849835--14849905 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
14849825 ATTATTTATT
*
14849835 AATATAATATTATTTATAT--GATA
1 AATATAATATTATTTATATAATATA
*
14849858 AATATAATAATATTTATATAATATA
1 AATATAATATTATTTATATAATATA
* * *
14849883 AATATTATTTTATTAATATAATA
1 AATATAATATTATTTATATAATA
14849906 ATTGTAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
23 18 0.45
25 22 0.55
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (25 bp):
AATATAATATTATTTATATAATATA
Found at i:14850304 original size:99 final size:99
Alignment explanation
Indices: 14850121--14850305 Score: 246
Period size: 99 Copynumber: 1.9 Consensus size: 99
14850111 GACCCCTTAG
** * * *
14850121 TTAAATAATAATTTATTAATTAAATATTTAATGATATAATAATTAATTATATAAATATAGTATTT
1 TTAAATAATAATTTATTAATTAAATATAAAAAGATATAATAATTAATTATATAAATACAATATTT
**
14850186 GATTATGAATATATGTTTAAATTTGATTATTTAA
66 GATTATGAATATAACTTTAAATTTGATTATTTAA
* * * *
14850220 TTAAATTATAATTTATTAATTAATTATAAAAAGATGTAATATTTAATTATA-AGAATACAATATT
1 TTAAATAATAATTTATTAATTAAATATAAAAAGATATAATAATTAATTATATA-AATACAATATT
*
14850284 TGATTATGAATGTAACTTTAAA
65 TGATTATGAATATAACTTTAAA
14850306 ACAAATATAA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 1 0.01
99 72 0.99
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (99 bp):
TTAAATAATAATTTATTAATTAAATATAAAAAGATATAATAATTAATTATATAAATACAATATTT
GATTATGAATATAACTTTAAATTTGATTATTTAA
Found at i:14861777 original size:26 final size:26
Alignment explanation
Indices: 14861748--14861798 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
14861738 CTTGGCAGAT
14861748 ACCCGTTTCTTTTCAGCTACAGAGCG
1 ACCCGTTTCTTTTCAGCTACAGAGCG
14861774 ACCCGTTTCTTTTCAGCTACAGAGC
1 ACCCGTTTCTTTTCAGCTACAGAGC
14861799 AAAATGCACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (26 bp):
ACCCGTTTCTTTTCAGCTACAGAGCG
Found at i:14869477 original size:13 final size:14
Alignment explanation
Indices: 14869447--14869484 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14869437 AATTAATAAG
*
14869447 TTAACATATATCTT
1 TTAAAATATATCTT
14869461 TTAAAATATAT-TT
1 TTAAAATATATCTT
*
14869474 TTAAAAAATAT
1 TTAAAATATAT
14869485 GGATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAAATATATCTT
Found at i:14881928 original size:23 final size:22
Alignment explanation
Indices: 14881878--14881920 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14881868 TATATTTTTT
*
14881878 AATT-TTATTAAATTTATATCA
1 AATTATTATTAAATTTAAATCA
14881899 AATTATTATTAAAATTTAAATC
1 AATTATTATT-AAATTTAAATC
14881921 GTATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATTATTAAATTTAAATCA
Found at i:14885092 original size:13 final size:14
Alignment explanation
Indices: 14885062--14885099 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14885052 AATTAATAAG
*
14885062 TTAACATATATCTT
1 TTAAAATATATCTT
14885076 TTAAAATATAT-TT
1 TTAAAATATATCTT
*
14885089 TTAAAAAATAT
1 TTAAAATATAT
14885100 GGATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAAATATATCTT
Found at i:14896266 original size:63 final size:62
Alignment explanation
Indices: 14896199--14896321 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 62
14896189 AAATTTTAGT
14896199 AATAATAATATATAAATTTAACAAAATTAAAAAATATATATTTTATAATTTCATATCGATACG
1 AATAATAATATATAAATTTAACAAAATT-AAAAATATATATTTTATAATTTCATATCGATACG
* ** * * * * *
14896262 AATAATTATATATACGTTTAATAAAATTTAAAATATATATTTTATATTTTTATGTCGATA
1 AATAATAATATATAAATTTAACAAAATTAAAAATATATATTTTATAATTTCATATCGATA
14896322 TAAATTATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
62 28 0.54
63 24 0.46
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (62 bp):
AATAATAATATATAAATTTAACAAAATTAAAAATATATATTTTATAATTTCATATCGATACG
Found at i:14930087 original size:22 final size:21
Alignment explanation
Indices: 14930061--14930102 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14930051 TTTTTTTTGT
14930061 ATTTTTATCAAATTTATAAATA
1 ATTTTTATCAAATTT-TAAATA
*
14930083 ATTTTTATTAAATTTTAAAT
1 ATTTTTATCAAATTTTAAAT
14930103 CATATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTATCAAATTTTAAATA
Found at i:14930124 original size:11 final size:11
Alignment explanation
Indices: 14930104--14930142 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
14930094 ATTTTAAATC
14930104 ATATTATTTTT
1 ATATTATTTTT
14930115 ATATT-TTTTT
1 ATATTATTTTT
*
14930125 ATATTATTTTC
1 ATATTATTTTT
14930136 ATATTAT
1 ATATTAT
14930143 GTTACTGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:14940981 original size:22 final size:21
Alignment explanation
Indices: 14940955--14940996 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14940945 TTTTTTTTGT
14940955 ATTTTTATCAAATTTATAAATA
1 ATTTTTATCAAATTT-TAAATA
*
14940977 ATTTTTATTAAATTTTAAAT
1 ATTTTTATCAAATTTTAAAT
14940997 CATATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTATCAAATTTTAAATA
Found at i:14941018 original size:11 final size:11
Alignment explanation
Indices: 14940998--14941036 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
14940988 ATTTTAAATC
14940998 ATATTATTTTT
1 ATATTATTTTT
14941009 ATATT-TTTTT
1 ATATTATTTTT
*
14941019 ATATTATTTTC
1 ATATTATTTTT
14941030 ATATTAT
1 ATATTAT
14941037 GTTACTGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:14949383 original size:2 final size:2
Alignment explanation
Indices: 14949366--14949400 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
14949356 TTGTCTACGA
* *
14949366 GT GT TT GT GT GA GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
14949401 AGAGAGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:14949405 original size:2 final size:2
Alignment explanation
Indices: 14949400--14949441 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14949390 GTGTGTGTGT
14949400 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14949442 TGCATGTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14952082 original size:3 final size:3
Alignment explanation
Indices: 14952074--14952098 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14952064 CAACGGTTGA
14952074 GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT G
14952099 CTTTGTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:14952789 original size:16 final size:17
Alignment explanation
Indices: 14952765--14952802 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14952755 TAAATATTTA
* *
14952765 AAAAGTTTA-AAATAAT
1 AAAATTTTATAAATAAG
14952781 AAAATTTTATAAATAAG
1 AAAATTTTATAAATAAG
14952798 AAAAT
1 AAAAT
14952803 AATAAAGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAATTTTATAAATAAG
Found at i:14954514 original size:20 final size:19
Alignment explanation
Indices: 14954479--14954522 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
14954469 TGGATATGAT
14954479 TAAAT-TTATAAAAATATA
1 TAAATATTATAAAAATATA
*
14954497 TAAATATTACTAATAATATA
1 TAAATATTA-TAAAAATATA
*
14954517 GAAATA
1 TAAATA
14954523 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 3 0.14
20 14 0.64
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAATATTATAAAAATATA
Found at i:14963964 original size:11 final size:11
Alignment explanation
Indices: 14963948--14963989 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
14963938 AAATTTTAAA
*
14963948 TTATATTATTT
1 TTATATTATAT
14963959 TTATATTTTATAT
1 TTATA--TTATAT
14963972 TTATATTATAT
1 TTATATTATAT
14963983 TTATATT
1 TTATATT
14963990 TTATCATCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 18 0.64
13 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTATAT
Found at i:14963969 original size:13 final size:13
Alignment explanation
Indices: 14963953--14963993 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
14963943 TTAAATTATA
*
14963953 TTATTTTTATATT
1 TTATATTTATATT
14963966 TTATATTTATA--
1 TTATATTTATATT
14963977 TTATATTTATATT
1 TTATATTTATATT
14963990 TTAT
1 TTAT
14963994 CATCGTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATATTTATATT
Found at i:14963974 original size:6 final size:6
Alignment explanation
Indices: 14963948--14963990 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
14963938 AAATTTTAAA
*
14963948 TTATA- TTATTT TTATATT TTATAT TTATA- TTATAT TTATAT TT
1 TTATAT TTATAT TTATA-T TTATAT TTATAT TTATAT TTATAT TT
14963991 TATCATCGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 9 0.27
6 18 0.55
7 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTATAT
Found at i:14963975 original size:24 final size:24
Alignment explanation
Indices: 14963940--14963993 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
14963930 TATTATTAAA
*
14963940 ATTTTA-AATTATATTATTTTTAT
1 ATTTTATAATTATATTATATTTAT
*
14963963 ATTTTATATTTATATTATATTTAT
1 ATTTTATAATTATATTATATTTAT
14963987 ATTTTAT
1 ATTTTAT
14963994 CATCGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTATAATTATATTATATTTAT
Done.