Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, 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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 85 of 89
Found at i:20470823 original size:80 final size:80
Alignment explanation
Indices: 20470739--20471022 Score: 417
Period size: 80 Copynumber: 3.5 Consensus size: 80
20470729 AATTGTTTAA
* *
20470739 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAATCAAT
*
20470804 ACATACAACTACAAT
66 TCATACAACTACAAT
*
20470819 AATAAATCAATCTATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAATCAAT
20470884 TCATACAACTACAAT
66 TCATACAACTACAAT
*
20470899 AACAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAATCAAT
*
20470964 TCATACTAA-TAAATTATTT
66 TCATAC-AACTACA--A--T
* * *
20470983 AAAATAAATCAATACATATTTTAAAATAAATTAATTCATA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
20471023 TGATTTAAAA
Statistics
Matches: 186, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
80 148 0.80
81 2 0.01
82 1 0.01
84 1 0.01
86 34 0.18
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAATCAAT
TCATACAACTACAAT
Found at i:20470875 original size:32 final size:32
Alignment explanation
Indices: 20470836--20471523 Score: 161
Period size: 32 Copynumber: 23.4 Consensus size: 32
20470826 CAATCTATAT
20470836 TTTAAAATAAATCAATCCATAATAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* * *
20470868 TTTAAAATAAATCAATTCATACA-ACTACA--A
1 TTTAAAATAAATCAATCCATA-ATAATAAATTA
*
20470898 --T--AACAAATCAATCC---AT-AT----T-
1 TTTAAAATAAATCAATCCATAATAATAAATTA
20470917 TT-AAAATAAATCAATCCATAATAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
20470948 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
20470980 TTTAAAATAAATCAATACATATTTTAAAATAAATTA
1 TTTAAAATAAATCAATCCATA----ATAATAAATTA
* * * * * * * **
20471016 ATTCATATGATTTAA--AATAAATCAATCTA-TA
1 TTTAAAATAAATCAATCCAT-AAT-AATAAATTA
*
20471047 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATAATAATAAATTA
20471080 TTTAAAATAAATCAATCC------AT--A-T-
1 TTTAAAATAAATCAATCCATAATAATAAATTA
20471102 TTTAAAATAAATCAATCCAT-AT---------
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
20471124 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
20471156 TTTAAAATAAATCAAT-C-T-AT-A-CAACTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* ** *
20471183 --CAATAATAAATCAATCCAT-ATTTTAAAATA
1 TTTAA-AATAAATCAATCCATAATAATAAATTA
** * ** * *
20471213 AAT-CAATCTATACAACTACAATAATAAATCAATTCATA
1 TTTAAAATAAAT-CAA-T-CCATAAT-AAT-AAAT--TA
*
20471251 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATAATAATAAATTA
*
20471284 TTTAAAATAATTCAATCC------AT--A-T-
1 TTTAAAATAAATCAATCCATAATAATAAATTA
*
20471306 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
20471338 TTTAAAATAAATCAATCC------AT--A-T-
1 TTTAAAATAAATCAATCCATAATAATAAATTA
*
20471360 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* * **
20471392 ATTAAAATAAAT-TAT-TTTAA-AATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* * * *
20471421 TTTTATAATAAAT-TAT--TTTATAATAAATTA
1 -TTTAAAATAAATCAATCCATAATAATAAATTA
* * *
20471451 TTTTAAAATAAAT-TAT--TTTATAATAAATTA
1 -TTTAAAATAAATCAATCCATAATAATAAATTA
* * *
20471481 TTTTAAAATAAAT-TAT--TTTATAATAAATTA
1 -TTTAAAATAAATCAATCCATAATAATAAATTA
20471511 TTTTAAAATAAAT
1 -TTTAAAATAAAT
20471524 TATTTTAAAA
Statistics
Matches: 507, Mismatches: 69, Indels: 162
0.69 0.09 0.22
Matches are distributed among these distances:
22 86 0.17
23 4 0.01
24 3 0.01
25 4 0.01
26 30 0.06
27 5 0.01
28 9 0.02
29 13 0.03
30 110 0.22
31 13 0.03
32 169 0.33
33 10 0.02
34 6 0.01
35 5 0.01
36 23 0.05
37 5 0.01
38 3 0.01
39 4 0.01
40 5 0.01
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATAATAATAAATTA
Found at i:20470945 original size:22 final size:22
Alignment explanation
Indices: 20470870--20470944 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
20470860 ATAAATTATT
* *
20470870 TAAAATAAATCAATTCATACAA
1 TAAAATAAATCAATCCATATAA
* **
20470892 CTACAATAACAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
20470918 TAAAATAAATCAATCCATAATAA
1 TAAAATAAATCAATCCAT-ATAA
20470941 TAAA
1 TAAA
20470945 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
25 3 0.08
26 14 0.35
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:20470958 original size:14 final size:14
Alignment explanation
Indices: 20470939--20470991 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
20470929 AATCCATAAT
20470939 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
20470953 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
20470971 AATAAATTATTTAA
1 AATAAATTATTTAA
20470985 AATAAAT
1 AATAAAT
20470992 CAATACATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:20471106 original size:22 final size:22
Alignment explanation
Indices: 20471080--20471144 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
20471070 TAATAAATTA
20471080 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
20471102 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
20471124 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATCCATA
20471145 CTAATAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:20471124 original size:76 final size:76
Alignment explanation
Indices: 20471002--20471403 Score: 356
Period size: 76 Copynumber: 5.2 Consensus size: 76
20470992 CAATACATAT
* * *
20471002 TTTAAAATAAATTAATTCATATGATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCA
1 TTTAAAATAAATCAATCCATAT--TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
20471067 TACTAATAAATTA
64 TACTAATAAATTA
*
20471080 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
20471145 CTAATAAATTA
66 CTAATAAATTA
* * **
20471156 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATC
* *
20471221 TATAC-AACTACA--A
62 CATACTAA-TAAATTA
* ** * ** * *
20471234 --T--AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCA
* **
20471294 TTC-AATCCA-TA
64 TACTAATAAATTA
20471305 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 -TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATATTTTAAAATAA
20471370 ATCAATCCATACTAATAAATTA
55 ATCAATCCATACTAATAAATTA
*
20471392 ATTAAAATAAAT
1 TTTAAAATAAAT
20471404 TATTTTAAAA
Statistics
Matches: 261, Mismatches: 37, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
70 19 0.07
71 18 0.07
72 3 0.01
74 14 0.05
76 83 0.32
78 21 0.08
79 6 0.02
80 41 0.16
82 2 0.01
84 4 0.02
85 12 0.05
86 36 0.14
87 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
CTAATAAATTA
Found at i:20471153 original size:22 final size:22
Alignment explanation
Indices: 20470980--20471068 Score: 124
Period size: 22 Copynumber: 4.0 Consensus size: 22
20470970 TAATAAATTA
*
20470980 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATCCATAT
* *
20471002 TTTAAAATAAATTAATTCATAT
1 TTTAAAATAAATCAATCCATAT
*
20471024 GATTTAAAATAAATCAATCTATAT
1 --TTTAAAATAAATCAATCCATAT
20471048 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
20471069 CTAATAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
22 40 0.68
24 19 0.32
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:20471212 original size:22 final size:22
Alignment explanation
Indices: 20471187--20471272 Score: 91
Period size: 22 Copynumber: 3.7 Consensus size: 22
20471177 CAACTACAAT
20471187 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
* * **
20471209 AATAAATCAATCTATACAACTACAA
1 AATAAATCAATCCAT---ATTTTAA
*
20471234 TAATAAATCAATTCATATTTTAA
1 -AATAAATCAATCCATATTTTAA
20471257 AATAAATCAATCCATA
1 AATAAATCAATCCATA
20471273 CTAATAAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
22 29 0.58
23 4 0.08
25 4 0.08
26 13 0.26
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:20471281 original size:22 final size:22
Alignment explanation
Indices: 20471158--20471280 Score: 84
Period size: 22 Copynumber: 5.2 Consensus size: 22
20471148 ATAAATTATT
* *
20471158 TAAAATAAATCAATCTATACAA
1 TAAAATAAATCAATCCATATAA
**
20471180 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
* *
20471206 TAAAATAAATCAATCTATACAA
1 TAAAATAAATCAATCCATATAA
* **
20471228 CTACAATAATAAATCAATTCATATTT
1 -T--AA-AATAAATCAATCCATATAA
20471254 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
20471277 TAAA
1 TAAA
20471281 TTATTTAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
22 30 0.39
23 11 0.14
25 6 0.08
26 29 0.38
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:20471310 original size:22 final size:22
Alignment explanation
Indices: 20471284--20471326 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
20471274 TAATAAATTA
*
20471284 TTTAAAATAATTCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
20471306 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
20471327 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:20471317 original size:54 final size:54
Alignment explanation
Indices: 20471025--20471403 Score: 441
Period size: 54 Copynumber: 7.2 Consensus size: 54
20471015 AATTCATATG
*
20471025 ATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATT
1 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
** *
20471079 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA-TTTTAAAAT
1 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
** * * ** * *
20471132 AAAT-CAATACATACTAATAAAT-TATTTAAAATAAATCAATCTATAC-AACTACA--
1 ATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATT
* *
20471185 A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCTATAC-AACTACA--
1 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATT
*
20471233 A--T--AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
*
20471283 ATTTAAAATAATTCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
20471337 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
*
20471391 AATTAAAATAAAT
1 ATTTAAAATAAAT
20471404 TATTTTAAAA
Statistics
Matches: 288, Mismatches: 24, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
48 76 0.26
49 4 0.01
50 7 0.02
51 1 0.00
52 7 0.02
53 11 0.04
54 179 0.62
55 3 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
Found at i:20471335 original size:22 final size:22
Alignment explanation
Indices: 20471286--20471334 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
20471276 ATAAATTATT
* **
20471286 TAAAATAATTCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
20471308 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
20471331 TAAA
1 TAAA
20471335 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:20471364 original size:22 final size:22
Alignment explanation
Indices: 20471338--20471380 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20471328 TAATAAATTA
20471338 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
20471360 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
20471381 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:20471389 original size:22 final size:22
Alignment explanation
Indices: 20471340--20471388 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
20471330 ATAAATTATT
**
20471340 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
20471362 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
20471385 TAAA
1 TAAA
20471389 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:20471413 original size:15 final size:15
Alignment explanation
Indices: 20471383--20471534 Score: 252
Period size: 15 Copynumber: 10.2 Consensus size: 15
20471373 AATCCATACT
*
20471383 AATAAATTA-ATTAA
1 AATAAATTATTTTAA
20471397 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
20471412 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
20471427 AATAAATTATTTTAT
1 AATAAATTATTTTAA
20471442 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
20471457 AATAAATTATTTTAT
1 AATAAATTATTTTAA
20471472 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
20471487 AATAAATTATTTTAT
1 AATAAATTATTTTAA
20471502 AATAAATTATTTTAA
1 AATAAATTATTTTAA
20471517 AATAAATTATTTTAA
1 AATAAATTATTTTAA
20471532 AAT
1 AAT
20471535 TAATAACATT
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
14 9 0.07
15 121 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:20476312 original size:20 final size:20
Alignment explanation
Indices: 20476287--20476324 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20476277 ATAAAAGGTT
20476287 GTTA-GGAATGTTAGAAATCA
1 GTTAGGGAA-GTTAGAAATCA
20476307 GTTAGGGAAGTTAGAAAT
1 GTTAGGGAAGTTAGAAAT
20476325 TGTTTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAGAAATCA
Found at i:20480747 original size:20 final size:20
Alignment explanation
Indices: 20480722--20480759 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20480712 ATAAAAGATT
20480722 GTTA-GGAATGTTAGAAATCA
1 GTTAGGGAA-GTTAGAAATCA
20480742 GTTAGGGAAGTTAGAAAT
1 GTTAGGGAAGTTAGAAAT
20480760 TGTTAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAGAAATCA
Found at i:20481370 original size:2 final size:2
Alignment explanation
Indices: 20481363--20481408 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
20481353 TCAATAGCAG
* *
20481363 GA GA GA GA GA GA GG GA GA GA GA GA GA GG 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
20481405 GA GA
1 GA GA
20481409 TTATTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20481381 original size:14 final size:14
Alignment explanation
Indices: 20481362--20481408 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
20481352 CTCAATAGCA
20481362 GGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
20481376 GGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
20481390 GGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
*
20481404 AGAGA
1 GGAGA
20481409 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (14 bp):
GGAGAGAGAGAGAG
Found at i:20484249 original size:15 final size:15
Alignment explanation
Indices: 20484226--20484259 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
20484216 AATAATTTTT
*
20484226 ATTTTTTTATTTTGA
1 ATTTGTTTATTTTGA
20484241 ATTTGTTTATTTTGA
1 ATTTGTTTATTTTGA
20484256 ATTT
1 ATTT
20484260 ATGTATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (15 bp):
ATTTGTTTATTTTGA
Found at i:20484252 original size:8 final size:7
Alignment explanation
Indices: 20484221--20484337 Score: 54
Period size: 8 Copynumber: 15.4 Consensus size: 7
20484211 TCGGCAATAA
20484221 TTTTTATT
1 TTTTTA-T
20484229 TTTTTAT
1 TTTTTAT
**
20484236 TTTGAAT
1 TTTTTAT
20484243 TTGTTTAT
1 TT-TTTAT
**
20484251 TTTGAAT
1 TTTTTAT
*
20484258 TTATGTAT
1 TT-TTTAT
*
20484266 TCATTTAT
1 T-TTTTAT
* *
20484274 TTCTAAT
1 TTTTTAT
20484281 TTATTTAT
1 TT-TTTAT
20484289 TTGTTTAT
1 TT-TTTAT
20484297 TTATTTAT
1 TT-TTTAT
**
20484305 TTTGGAT
1 TTTTTAT
20484312 TTATTTAT
1 TT-TTTAT
*
20484320 TATTTAT
1 TTTTTAT
20484327 TTATTTAT
1 TT-TTTAT
20484335 TTT
1 TTT
20484338 GAATTTATTT
Statistics
Matches: 81, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
7 30 0.37
8 51 0.63
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (7 bp):
TTTTTAT
Found at i:20484266 original size:15 final size:15
Alignment explanation
Indices: 20484233--20484266 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20484223 TTTATTTTTT
* *
20484233 TATTTTGAATTTGTT
1 TATTTTGAATTTATG
20484248 TATTTTGAATTTATG
1 TATTTTGAATTTATG
20484263 TATT
1 TATT
20484267 CATTTATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TATTTTGAATTTATG
Found at i:20484288 original size:15 final size:14
Alignment explanation
Indices: 20484268--20484348 Score: 81
Period size: 15 Copynumber: 5.4 Consensus size: 14
20484258 TTATGTATTC
20484268 ATTTATTTCTAATTT
1 ATTTATTT-TAATTT
*
20484283 ATTTATTTGTTTATTT
1 ATTTA-TT-TTAATTT
*
20484299 ATTTATTTTGGATTT
1 ATTTATTTT-AATTT
*
20484314 ATTTATTATTTATTT
1 ATTTATT-TTAATTT
20484329 ATTTATTTTGAATTT
1 ATTTATTTT-AATTT
20484344 ATTTA
1 ATTTA
20484349 GGTATTTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.07
15 38 0.67
16 14 0.25
17 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.05, T:0.69
Consensus pattern (14 bp):
ATTTATTTTAATTT
Found at i:20484313 original size:23 final size:22
Alignment explanation
Indices: 20484223--20484336 Score: 69
Period size: 23 Copynumber: 5.1 Consensus size: 22
20484213 GGCAATAATT
* *
20484223 TTTATTTTTTTATTTTGAATTTG
1 TTTATTTATTTATTTTG-ATTTA
*
20484246 TTTATTTTGAATTTATGTATTCATTTA
1 TTTA-TTT--ATTTAT-T-TTGATTTA
* * *
20484273 TTT-CTAATTTA-TTT-ATTTG
1 TTTATTTATTTATTTTGATTTA
20484292 TTTATTTATTTATTTTGGATTTA
1 TTTATTTATTTATTTT-GATTTA
20484315 TTTA-TTATTTA-TTT-ATTTA
1 TTTATTTATTTATTTTGATTTA
20484334 TTT
1 TTT
20484337 TGAATTTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
19 15 0.21
20 8 0.11
21 7 0.10
22 7 0.10
23 17 0.23
24 3 0.04
25 1 0.01
26 5 0.07
27 8 0.11
28 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTATTTATTTATTTTGATTTA
Found at i:20484315 original size:11 final size:9
Alignment explanation
Indices: 20484280--20484347 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 9
20484270 TTATTTCTAA
20484280 TTTATTTA-
1 TTTATTTAT
*
20484288 TTTGTTTA-
1 TTTATTTAT
20484296 TTTATTTAT
1 TTTATTTAT
20484305 TTTGGATTTATT
1 TTT--ATTTA-T
20484317 TATTATTTA-
1 T-TTATTTAT
20484326 TTTATTTAT
1 TTTATTTAT
20484335 TTTGAATTTAT
1 TTT--ATTTAT
20484346 TT
1 TT
20484348 AGGTATTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
8 21 0.42
9 7 0.14
11 18 0.36
12 2 0.04
13 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (9 bp):
TTTATTTAT
Found at i:20484328 original size:30 final size:31
Alignment explanation
Indices: 20484256--20484348 Score: 127
Period size: 30 Copynumber: 3.0 Consensus size: 31
20484246 TTTATTTTGA
* *
20484256 ATTTATGTATTCATTTATTTCT-AATTTATTT
1 ATTTATTTATTTATTTATTT-TGAATTTATTT
* *
20484287 ATTTGTTTATTTATTTATTTTGGATTTATTT
1 ATTTATTTATTTATTTATTTTGAATTTATTT
20484318 A-TTATTTATTTATTTATTTTGAATTTATTT
1 ATTTATTTATTTATTTATTTTGAATTTATTT
20484348 A
1 A
20484349 GGTATTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 29 0.53
31 26 0.47
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (31 bp):
ATTTATTTATTTATTTATTTTGAATTTATTT
Found at i:20484343 original size:19 final size:18
Alignment explanation
Indices: 20484223--20484389 Score: 84
Period size: 19 Copynumber: 8.6 Consensus size: 18
20484213 GGCAATAATT
*
20484223 TTTATTTTTTTATTTTGAA
1 TTTATTTATTTATTTT-AA
* *
20484242 TTTGTTTATTTTGAATTT-A
1 TTTATTTA-TTT-ATTTTAA
* *
20484261 TGTATTCATTTATTTCTAA
1 TTTATTTATTTATTT-TAA
* *
20484280 TTTATTTATTTGTTTATTTA
1 TTTATTTATTT-ATT-TTAA
*
20484300 TTTATTTTGGATTTATTTATTA
1 TTTA-TTT--ATTTATTT-TAA
20484322 TTTATTTATTTATTTTGAA
1 TTTATTTATTTATTTT-AA
**
20484341 TTTATTTAGGTATTTTCAA
1 TTTATTTATTTATTTT-AA
* * *
20484360 TTTATTTGTTTGTTTCGAA
1 TTTATTTATTTATTT-TAA
*
20484379 ATTATTTATTT
1 TTTATTTATTT
20484390 GAAGGGATAT
Statistics
Matches: 113, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
17 3 0.03
18 5 0.04
19 69 0.61
20 11 0.10
21 12 0.11
22 9 0.08
23 4 0.04
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTATTTATTTATTTTAA
Found at i:20484345 original size:23 final size:22
Alignment explanation
Indices: 20484241--20484348 Score: 84
Period size: 23 Copynumber: 5.0 Consensus size: 22
20484231 TTTATTTTGA
* *
20484241 ATTTGTTTATTTTGAATTTATGT
1 ATTTATTTATTTTG-ATTTATTT
* *
20484264 ATTCATTTATTTCTAATTTATTT
1 ATTTATTTATTT-TGATTTATTT
*
20484287 ATTTGTTTA-TTT-ATTTATTT
1 ATTTATTTATTTTGATTTATTT
**
20484307 -TGGATTTA-TTT-A-TTATTT
1 ATTTATTTATTTTGATTTATTT
20484325 ATTTATTTATTTTGAATTTATTT
1 ATTTATTTATTTTG-ATTTATTT
20484348 A
1 A
20484349 GGTATTTTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
18 6 0.09
19 15 0.22
20 11 0.16
21 1 0.01
22 3 0.04
23 31 0.46
24 1 0.01
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (22 bp):
ATTTATTTATTTTGATTTATTT
Found at i:20484363 original size:30 final size:30
Alignment explanation
Indices: 20484268--20484366 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
20484258 TTATGTATTC
* * **
20484268 ATTTATTTCT-AATTTATTTATTTGTTTATTT
1 ATTTATTT-TGAATTTATTTA-GTATTTATCA
* * **
20484299 ATTTATTTTGGATTTATTTATTATTTATTT
1 ATTTATTTTGAATTTATTTAGTATTTATCA
20484329 ATTTATTTTGAATTTATTTAGGTATTT-TCA
1 ATTTATTTTGAATTTATTTA-GTATTTATCA
20484359 ATTTATTT
1 ATTTATTT
20484367 GTTTGTTTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
30 38 0.63
31 22 0.37
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (30 bp):
ATTTATTTTGAATTTATTTAGTATTTATCA
Found at i:20484366 original size:4 final size:4
Alignment explanation
Indices: 20484256--20484336 Score: 78
Period size: 4 Copynumber: 21.0 Consensus size: 4
20484246 TTTATTTTGA
* * * * *
20484256 ATTT ATGT ATTC ATTT ATTT -CTA ATTT ATTT ATTT GTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
**
20484303 ATTT -TGG ATTT ATTT A-TT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
20484337 TGAATTTATT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
3 5 0.08
4 55 0.92
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:20486149 original size:16 final size:16
Alignment explanation
Indices: 20486112--20486152 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
20486102 AAAAATGAAG
*
20486112 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
20486128 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
20486143 AATAAATAAA
1 AATAAATAAA
20486153 TAAATAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:20486157 original size:12 final size:13
Alignment explanation
Indices: 20486093--20486167 Score: 50
Period size: 12 Copynumber: 6.0 Consensus size: 13
20486083 GGAAAAAAAG
20486093 AATAAATGAAA-A
1 AATAAATGAAATA
* *
20486105 AATGAA-GAATAAA
1 AATAAATGAA-ATA
* * *
20486118 AATAAGTAAAAAA
1 AATAAATGAAATA
* *
20486131 AATAAAAGGAA-A
1 AATAAATGAAATA
20486143 AATAAAT-AAATA
1 AATAAATGAAATA
20486155 AATAAATGAAATA
1 AATAAATGAAATA
20486168 TTAATATAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
11 5 0.10
12 21 0.44
13 20 0.42
14 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.17
Consensus pattern (13 bp):
AATAAATGAAATA
Found at i:20486531 original size:23 final size:24
Alignment explanation
Indices: 20486500--20486548 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
20486490 ACCAAATGAA
20486500 TATAAATAAATAA-AAAATATA-TG
1 TATAAAT-AATAATAAAATATAGTG
* *
20486523 TATAGATAATAATAATATATAGTG
1 TATAAATAATAATAAAATATAGTG
20486547 TA
1 TA
20486549 AAACAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TATAAATAATAATAAAATATAGTG
Found at i:20487053 original size:37 final size:36
Alignment explanation
Indices: 20487012--20487116 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 36
20487002 GTGCTTGTGG
*
20487012 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
20487049 ATCCTATTTTAAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTT-AGGAGTTTAAATCCTAGTAGAACTCT
*
20487086 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTAAATCCTAGTAG
20487117 GACGAAAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 3 0.05
37 52 0.88
38 4 0.07
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:20488159 original size:106 final size:107
Alignment explanation
Indices: 20487848--20489537 Score: 2425
Period size: 106 Copynumber: 16.0 Consensus size: 107
20487838 CATTGTTCTA
* * * ** * * *
20487848 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* * * * *
20487913 CAGCCGTCCCTTCGTTGTGAAGTTTAACTTGTGTTGTC-TCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * * * * *
20487954 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAAT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* * * * *
20488013 CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * * *
20488055 -GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGTGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
** *
20488119 CAGCAATCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT-G
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * *
20488160 AGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
20488225 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * * *
20488266 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
20488331 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* *
20488372 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
20488437 GAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT-G
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * * *
20488478 AGTCCATTATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
20488543 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * *
20488584 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
20488649 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* *
20488690 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
20488755 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTT-G
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * * *
20488796 AGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTCAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* *
20488861 CAGCGGTCCCTTCGTCGTTAAGTTGAACTTGCGTTGT-ATGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * *
20488902 AGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
20488967 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
20489008 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* *
20489073 CAGCGGTACCTTCTTCGTGAAGTTGAACTTGCGTTGTCTT-G
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
** * *
20489114 AGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
20489179 CAGCGGTCCCTTCGGCGTGAAGTTGAACTTGCGTTGTC-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * *
20489220 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-ATAATTGAGAAGTCGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTATTGACAA
* * * *
20489284 CCAGTGGTCCCTTCGTTGTGAAGTTGAACTTGCATTTTC-TGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* * * *
20489326 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTTTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
20489391 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
* *
20489432 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* ** * *
20489497 CAGTGGTCCCTTTATTGTGAAGTTGAACTTGTGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
20489538 AGTGGCACGA
Statistics
Matches: 1436, Mismatches: 129, Indels: 37
0.90 0.08 0.02
Matches are distributed among these distances:
100 80 0.06
101 5 0.00
102 4 0.00
104 3 0.00
105 9 0.01
106 1329 0.93
107 6 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (107 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGG
Found at i:20490371 original size:22 final size:22
Alignment explanation
Indices: 20490345--20490421 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
20490335 TTATGTTTGG
20490345 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
20490367 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* * *
20490389 TCATACGTTTGGCAGTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
20490411 TCGACGGTTTG
1 TCAAAGGTTTG
20490422 ATGGGGTAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:20490617 original size:19 final size:19
Alignment explanation
Indices: 20490585--20490649 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
20490575 TCAATTTACT
* * *
20490585 TTTATTATTGTTATTGTTA
1 TTTATTAATATTATTATTA
20490604 TTTATTAATATTATTATTA
1 TTTATTAATATTATTATTA
**
20490623 TACATT-ATCATTATTTATTA
1 TTTATTAAT-ATTA-TTATTA
20490643 -TTATTAA
1 TTTATTAA
20490650 ATAAATATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 2 0.06
19 27 0.75
20 7 0.19
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATTAATATTATTATTA
Found at i:20490620 original size:3 final size:3
Alignment explanation
Indices: 20490586--20490648 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
20490576 CAATTTACTT
* * * * *
20490586 TTA TTA TTG TTA TTG TTA TTTA TTA ATA TTA TTA TTA TACA TTA TCA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
20490633 TTA TTTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA
20490649 AATAAATATT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
3 39 0.83
4 8 0.17
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:20491873 original size:18 final size:18
Alignment explanation
Indices: 20491846--20491881 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20491836 TATAATTTTA
*
20491846 CATTTTAATCATTAATTT
1 CATTTCAATCATTAATTT
20491864 CATTTCAATCATTAATTT
1 CATTTCAATCATTAATTT
20491882 TTATTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (18 bp):
CATTTCAATCATTAATTT
Found at i:20491957 original size:12 final size:11
Alignment explanation
Indices: 20491940--20492024 Score: 57
Period size: 12 Copynumber: 7.5 Consensus size: 11
20491930 TTATTTCCTT
20491940 TTATTTTAATCA
1 TTATTTTAAT-A
20491952 TTATTTGTAATA
1 TTATTT-TAATA
* *
20491964 TTAATTTATTA
1 TTATTTTAATA
*
20491975 TTA--TTATTA
1 TTATTTTAATA
*
20491984 TTATTTTATTTA
1 TTATTTTA-ATA
*
20491996 TTTGTTTTAATTA
1 -TTATTTTAA-TA
*
20492009 TTATTTTATTA
1 TTATTTTAATA
20492020 TTATT
1 TTATT
20492025 ATTATTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
9 9 0.15
11 17 0.28
12 22 0.36
13 13 0.21
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:20491977 original size:3 final size:3
Alignment explanation
Indices: 20491969--20492030 Score: 67
Period size: 3 Copynumber: 20.7 Consensus size: 3
20491959 TAATATTAAT
*
20491969 TTA TTA TTA TTA TTA TTA TT- TTA TTTA TT- TGTT TTAA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TT-A TTA TTA TTA
20492014 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
20492031 TATATAAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
2 5 0.10
3 41 0.79
4 6 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:20492243 original size:20 final size:19
Alignment explanation
Indices: 20492218--20492259 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
20492208 CTATTTTATA
20492218 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
20492238 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
20492257 AAT
1 AAT
20492260 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:20493803 original size:217 final size:217
Alignment explanation
Indices: 20493428--20493863 Score: 872
Period size: 217 Copynumber: 2.0 Consensus size: 217
20493418 ATGAGGTTAA
20493428 GATTTATACCTTGATAGATAGATTTTTTTCATTAGTTGGTACTAACTATTTTATTTTTTTCTCAT
1 GATTTATACCTTGATAGATAGATTTTTTTCATTAGTTGGTACTAACTATTTTATTTTTTTCTCAT
20493493 TTCTTTGTTTGCATTGCTGATCATAGCATAACCAAAAAGGTGTTTACTGGAAAGACTGTTCATCA
66 TTCTTTGTTTGCATTGCTGATCATAGCATAACCAAAAAGGTGTTTACTGGAAAGACTGTTCATCA
20493558 TATTGGAAAGAAATCGTAAATGGACAAAAAGTTCTATGATCAAACAAAATATGATGCGGCCAAGA
131 TATTGGAAAGAAATCGTAAATGGACAAAAAGTTCTATGATCAAACAAAATATGATGCGGCCAAGA
20493623 AAAGACATCCTGAAGAAACTCC
196 AAAGACATCCTGAAGAAACTCC
20493645 GATTTATACCTTGATAGATAGATTTTTTTCATTAGTTGGTACTAACTATTTTATTTTTTTCTCAT
1 GATTTATACCTTGATAGATAGATTTTTTTCATTAGTTGGTACTAACTATTTTATTTTTTTCTCAT
20493710 TTCTTTGTTTGCATTGCTGATCATAGCATAACCAAAAAGGTGTTTACTGGAAAGACTGTTCATCA
66 TTCTTTGTTTGCATTGCTGATCATAGCATAACCAAAAAGGTGTTTACTGGAAAGACTGTTCATCA
20493775 TATTGGAAAGAAATCGTAAATGGACAAAAAGTTCTATGATCAAACAAAATATGATGCGGCCAAGA
131 TATTGGAAAGAAATCGTAAATGGACAAAAAGTTCTATGATCAAACAAAATATGATGCGGCCAAGA
20493840 AAAGACATCCTGAAGAAACTCC
196 AAAGACATCCTGAAGAAACTCC
20493862 GA
1 GA
20493864 AGTTCTATGA
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 219 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (217 bp):
GATTTATACCTTGATAGATAGATTTTTTTCATTAGTTGGTACTAACTATTTTATTTTTTTCTCAT
TTCTTTGTTTGCATTGCTGATCATAGCATAACCAAAAAGGTGTTTACTGGAAAGACTGTTCATCA
TATTGGAAAGAAATCGTAAATGGACAAAAAGTTCTATGATCAAACAAAATATGATGCGGCCAAGA
AAAGACATCCTGAAGAAACTCC
Found at i:20493876 original size:60 final size:60
Alignment explanation
Indices: 20493803--20493923 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
20493793 AATGGACAAA
20493803 AAGTTCTATGATCAAACAAAATATGATGCGGCCAAGAAAAGACATCCTGAAGAAACTCCG
1 AAGTTCTATGATCAAACAAAATATGATGCGGCCAAGAAAAGACATCCTGAAGAAACTCCG
20493863 AAGTTCTATGATCAAACAAAATATGATGCGGCCAAGAAAAGACATCCTGAAGAAACTCCG
1 AAGTTCTATGATCAAACAAAATATGATGCGGCCAAGAAAAGACATCCTGAAGAAACTCCG
20493923 A
1 A
20493924 GGATAGAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (60 bp):
AAGTTCTATGATCAAACAAAATATGATGCGGCCAAGAAAAGACATCCTGAAGAAACTCCG
Found at i:20495352 original size:43 final size:44
Alignment explanation
Indices: 20495305--20495387 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
20495295 AATAGAGAAA
* * * *
20495305 TTAGGAGTGAAAGTTATTCCCTATATGTAA-AGTTTTGTTGAAG
1 TTAGGACTGAAAGTTATCCCCTACATATAAGAGTTTTGTTGAAG
*
20495348 TTAGGACTGAAAGTTGTCCCCTACATATAAGAGTTTTGTT
1 TTAGGACTGAAAGTTATCCCCTACATATAAGAGTTTTGTT
20495388 TGATGTACCG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 25 0.74
44 9 0.26
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (44 bp):
TTAGGACTGAAAGTTATCCCCTACATATAAGAGTTTTGTTGAAG
Found at i:20495486 original size:8 final size:7
Alignment explanation
Indices: 20495462--20495502 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
20495452 TTTTCATATA
20495462 TGCATTT
1 TGCATTT
20495469 T-CATTT
1 TGCATTT
20495475 TGCATCTT
1 TGCAT-TT
20495483 TGCATTT
1 TGCATTT
20495490 T-CATTT
1 TGCATTT
*
20495496 TGTATTT
1 TGCATTT
20495503 AATACTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 12 0.40
7 11 0.37
8 7 0.23
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (7 bp):
TGCATTT
Found at i:20502744 original size:54 final size:54
Alignment explanation
Indices: 20502662--20502816 Score: 238
Period size: 54 Copynumber: 2.9 Consensus size: 54
20502652 GAAATCTTGG
*
20502662 CAGAAGCCATAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* *
20502716 CAGAAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAG
1 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* * ***
20502770 CAGAAGCCACAGGAAAGGTTGAATGCACTGTCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
20502817 CTGCTATTCT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (54 bp):
CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
Found at i:20503244 original size:22 final size:22
Alignment explanation
Indices: 20503176--20503255 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
20503166 TACATCTGCA
*
20503176 CTTTTTAAAGATGATAGATTCT
1 CTTTTCAAAGATGATAGATTCT
* * * * * *
20503198 -TACTTCAGATATGACAAATTTT
1 CT-TTTCAAAGATGATAGATTCT
*
20503220 CTTTTTAAAGATGATAGATTCT
1 CTTTTCAAAGATGATAGATTCT
20503242 CTTTTCAAAGATGA
1 CTTTTCAAAGATGA
20503256 AAGCTTTATG
Statistics
Matches: 41, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (22 bp):
CTTTTCAAAGATGATAGATTCT
Found at i:20504014 original size:76 final size:76
Alignment explanation
Indices: 20503915--20504373 Score: 810
Period size: 76 Copynumber: 6.0 Consensus size: 76
20503905 CTATTTCCCA
* *
20503915 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTTGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
20503980 ACCCTCAGGGT
66 ACCCTCAGGGT
20503991 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
20504056 ACCCTCAGGGT
66 ACCCTCAGGGT
* *
20504067 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAATCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
20504132 ACCCTCAAGGT
66 ACCCTCAGGGT
*
20504143 CATCTGTAAGTCCTGCAGTACATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
20504208 ACCCTCAGGTT
66 ACCCTCAGGGT
20504219 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
20504284 ACCCTCATGGT
66 ACCCTCAGGGT
* * *
20504295 CATCTGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
20504360 ACCCTCGGGGT
66 ACCCTCAGGGT
20504371 CAT
1 CAT
20504374 TCATAAGACC
Statistics
Matches: 365, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 365 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCCTCAGGGT
Found at i:20504564 original size:16 final size:16
Alignment explanation
Indices: 20504545--20504595 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
20504535 TTGTTATTTT
*
20504545 TATTTATTAATATTAA
1 TATTTATTATTATTAA
*
20504561 TATTATACATTATTATTAT
1 TATT-T--ATTATTATTAA
20504580 TATTTATTATTATTAA
1 TATTTATTATTATTAA
20504596 ATAAATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 14 0.48
17 1 0.03
18 1 0.03
19 13 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTATTATTATTAA
Found at i:20504577 original size:3 final size:3
Alignment explanation
Indices: 20504529--20504594 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
20504519 CAATTTACTT
* * * * *
20504529 TTA TTA TTG TTA TTT TTA TTTA TTA ATA TTA ATA TTA TACA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
20504576 TTA TTA TTTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA
20504595 AATAAATATT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 42 0.84
4 8 0.16
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:20505808 original size:18 final size:18
Alignment explanation
Indices: 20505785--20505820 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20505775 TATAATTTTA
20505785 CATTTTAATCATTAATTT
1 CATTTTAATCATTAATTT
20505803 CATTTTAATCATTAATTT
1 CATTTTAATCATTAATTT
20505821 TTATTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
CATTTTAATCATTAATTT
Found at i:20505940 original size:3 final size:3
Alignment explanation
Indices: 20505898--20505962 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
20505888 TTATTTGTAA
* *
20505898 TAT TTT TAT TA- TAT TAT ATAT T-T TAT T-T GTTT TAAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT T-AT TAT TAT TAT
20505943 TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
20505963 ATAAATAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
2 7 0.13
3 39 0.75
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20506167 original size:20 final size:19
Alignment explanation
Indices: 20506142--20506183 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
20506132 CTATTTTATA
20506142 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
20506162 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
20506181 AAT
1 AAT
20506184 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:20507217 original size:172 final size:173
Alignment explanation
Indices: 20506915--20507261 Score: 565
Period size: 172 Copynumber: 2.0 Consensus size: 173
20506905 TAAATAGGCC
* *
20506915 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATACCTTCAA-CA-GTCCTG
20506980 CTCAAAATGTCTCTCTCTTGATACTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
64 CTCAAAATGTCTCTCTCTTGATACTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
*
20507045 ATTGTGCTTGATCATTCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
* *
20507090 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATATCTTC-A-A-TCCTGCT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATACCTTCAACAGTCCTGCT
* * *
20507152 CAAAATGTTTCTCTCTTTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTTGGGAATG
66 CAAAATG--TCTCTCTCTTGATACTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
20507217 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
20507262 TTTAGGGAAT
Statistics
Matches: 162, Mismatches: 8, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
170 14 0.09
172 98 0.60
174 1 0.01
175 49 0.30
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATACCTTCAACAGTCCTGCT
CAAAATGTCTCTCTCTTGATACTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGAT
TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:20511938 original size:10 final size:10
Alignment explanation
Indices: 20511921--20511963 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
20511911 AAAAATGAAG
20511921 AATAAAAATA
1 AATAAAAATA
*
20511931 AGTAAAAA-A
1 AATAAAAATA
20511940 AATAAAAATA
1 AATAAAAATA
20511950 AAT--AAATA
1 AATAAAAATA
20511958 AATAAA
1 AATAAA
20511964 TGAAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 8 0.29
9 8 0.29
10 12 0.43
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (10 bp):
AATAAAAATA
Found at i:20511981 original size:2 final size:2
Alignment explanation
Indices: 20511974--20512010 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
20511964 TGAAATATTA
20511974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20512011 AATGAGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20512077 original size:18 final size:18
Alignment explanation
Indices: 20512028--20512081 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
20512018 AAAATAGAAA
*
20512028 AATAATAATCATAATAATAAT
1 AATAGTAAT-ATAA-AAT-AT
20512049 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
20512068 AATA-TAATATAAAA
1 AATAGTAATATAAAA
20512082 AAAACCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:20512083 original size:19 final size:19
Alignment explanation
Indices: 20512028--20512082 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
20512018 AAAATAGAAA
* *
20512028 AATAATAATCATAATAATAAT
1 AATAGTAAT-ATAAAAAT-AT
*
20512049 AATAGTAATATGAAAATAT
1 AATAGTAATATAAAAATAT
20512068 AATA-TAATATAAAAA
1 AATAGTAATATAAAAA
20512083 AAACCAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.33
19 6 0.20
20 6 0.20
21 8 0.27
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AATAGTAATATAAAAATAT
Found at i:20512327 original size:19 final size:19
Alignment explanation
Indices: 20512291--20512328 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20512281 GTATATATAT
20512291 ATATATATAAAAATAATAA
1 ATATATATAAAAATAATAA
*
20512310 ATATAGTATTAAAA-AATAA
1 ATATA-TATAAAAATAATAA
20512329 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATATATATAAAAATAATAA
Found at i:20512885 original size:37 final size:36
Alignment explanation
Indices: 20512844--20512948 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 36
20512834 GTGCTTGTGG
* *
20512844 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
20512881 ATCCTATTTTAAGGAATTTGAATCCTAGCAAAATTCT
1 ATCCTATTTT-AGGAGTTTGAATCCTAGTAGAACTCT
20512918 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGTAG
20512949 GACGAAAAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 3 0.05
37 50 0.88
38 4 0.07
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:20513747 original size:28 final size:28
Alignment explanation
Indices: 20513711--20513771 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
20513701 AAATTTGTAA
* * *
20513711 TTTTTTAGTTATTCGAACTGCATTTTCT
1 TTTTTTAGTTAATCAAACTCCATTTTCT
20513739 TTTTTTAGTTAATCAAACTCCATTTTCT
1 TTTTTTAGTTAATCAAACTCCATTTTCT
20513767 TTTTT
1 TTTTT
20513772 GTTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTTAGTTAATCAAACTCCATTTTCT
Found at i:20513859 original size:17 final size:17
Alignment explanation
Indices: 20513814--20513864 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
20513804 CATTTTTTAA
*
20513814 AATTTGTTTAAATTATT
1 AATTTCTTTAAATTATT
**
20513831 AATCAACTTTAAATTATT
1 AAT-TTCTTTAAATTATT
*
20513849 AATTTCTTTAAGTTAT
1 AATTTCTTTAAATTAT
20513865 CCTTAAATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTCTTTAAATTATT
Found at i:20516916 original size:2 final size:2
Alignment explanation
Indices: 20516911--20516952 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
20516901 TTATATAACA
20516911 AT AT AT AT AT 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 AT AT AT AT AT
20516953 TATTCTTTCA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20517150 original size:23 final size:23
Alignment explanation
Indices: 20517123--20517172 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
20517113 GTTGTAATCA
20517123 AAAGACCAAATTGAGTAAAATGC
1 AAAGACCAAATTGAGTAAAATGC
20517146 AAAGACCAAATTGAGTAAAATGC
1 AAAGACCAAATTGAGTAAAATGC
20517169 AAAG
1 AAAG
20517173 TTTATGGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.16
Consensus pattern (23 bp):
AAAGACCAAATTGAGTAAAATGC
Found at i:20537267 original size:13 final size:13
Alignment explanation
Indices: 20537249--20537274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20537239 CAAAAGGTTT
20537249 ATACCTCACTACC
1 ATACCTCACTACC
20537262 ATACCTCACTACC
1 ATACCTCACTACC
20537275 TTTAATGCAT
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:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (13 bp):
ATACCTCACTACC
Found at i:20544280 original size:127 final size:127
Alignment explanation
Indices: 20544054--20544562 Score: 937
Period size: 127 Copynumber: 4.0 Consensus size: 127
20544044 TGTATATCAA
*
20544054 CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAAATTAGCATACCAAC
1 CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
*
20544119 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGATGGGAAATGTGCCCCCAAACAT
66 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATGTGCCCCCAAACAT
* * *
20544181 CACAAAGTAAGCCAATATCAGGTTAACCACTACTTTCCAAAGCAACAAAAACTTAGGATACCAAC
1 CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
*
20544246 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATATGCCCCCAAACAT
66 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATGTGCCCCCAAACAT
20544308 CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
1 CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
* *
20544373 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTTCTGGGAAATGTGTCCCCAAACAT
66 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATGTGCCCCCAAACAT
*
20544435 CACAAAGCAATCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
1 CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
20544500 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATGTGCCCCCAAACAT
66 ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATGTGCCCCCAAACAT
20544562 C
1 C
20544563 GAATATTTTA
Statistics
Matches: 367, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 367 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.24
Consensus pattern (127 bp):
CACAAAGCAAGCCAATATCAGGTTAACCATTACTTTCCAAAGCAACAAAAACTTAGCATACCAAC
ATCCATATCTCAATTGTTCCACCTAGAAATAATGTGTTGCTGGGAAATGTGCCCCCAAACAT
Found at i:20547438 original size:19 final size:19
Alignment explanation
Indices: 20547414--20547459 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
20547404 CACAAATTTG
*
20547414 TGCAAGTATACACAATGAA
1 TGCAAGTATACAAAATGAA
20547433 TGCAAGTATACAAAATGAA
1 TGCAAGTATACAAAATGAA
*
20547452 TGTAAGTA
1 TGCAAGTA
20547460 ATATAGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (19 bp):
TGCAAGTATACAAAATGAA
Found at i:20548145 original size:12 final size:12
Alignment explanation
Indices: 20548128--20548153 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20548118 CTCTCGAAGG
20548128 CTCTTACAAAGA
1 CTCTTACAAAGA
20548140 CTCTTACAAAGA
1 CTCTTACAAAGA
20548152 CT
1 CT
20548154 AGGATTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (12 bp):
CTCTTACAAAGA
Found at i:20555663 original size:11 final size:12
Alignment explanation
Indices: 20555647--20555688 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
20555637 GTCATAAATC
20555647 TATG-ACGCATT
1 TATGAACGCATT
*
20555658 TATGACACACATT
1 TATGA-ACGCATT
20555671 TATGACACGCATT
1 TATGA-ACGCATT
20555684 TATGA
1 TATGA
20555689 TGATCATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 4 0.15
13 23 0.85
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (12 bp):
TATGAACGCATT
Found at i:20555672 original size:13 final size:13
Alignment explanation
Indices: 20555654--20555688 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
20555644 ATCTATGACG
20555654 CATTTATGACACA
1 CATTTATGACACA
*
20555667 CATTTATGACACG
1 CATTTATGACACA
20555680 CATTTATGA
1 CATTTATGA
20555689 TGATCATTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:20555858 original size:2 final size:2
Alignment explanation
Indices: 20555851--20555893 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
20555841 TTTCGTAAAT
20555851 TA TA TA TA TA 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
20555893 T
1 T
20555894 TGTAGATTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20563739 original size:32 final size:31
Alignment explanation
Indices: 20563650--20563752 Score: 107
Period size: 32 Copynumber: 3.3 Consensus size: 31
20563640 TTATATTCAA
** *
20563650 ATAATGCATAGTAGAGTAGTATTGCACTCAA
1 ATAATGCATAACAGAGTAGTATTGCACTCAG
* * * *
20563681 ATAATGCACAACAAAGACAATATTGCACTCAG
1 ATAATGCATAACAGAG-TAGTATTGCACTCAG
* *
20563713 ATAATGCATAACAGAGTTAGTGTTGCATTCAG
1 ATAATGCATAACAGAG-TAGTATTGCACTCAG
20563745 ATAATGCA
1 ATAATGCA
20563753 CAGGAGCATC
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
31 12 0.21
32 45 0.79
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (31 bp):
ATAATGCATAACAGAGTAGTATTGCACTCAG
Found at i:20567226 original size:38 final size:36
Alignment explanation
Indices: 20567022--20567219 Score: 319
Period size: 36 Copynumber: 5.4 Consensus size: 36
20567012 CTCAAGTCAA
* *
20567022 TCAAGCCTTCATAAAAGAGTAGTGAAGCAATACAAAT
1 TCAA-CCTTCACAAAAGAGTAGTGAAGCAATGCAAAT
20567059 TCAACCTTCACAAAAGAGTAGTGAAGCAATGCAAA-
1 TCAACCTTCACAAAAGAGTAGTGAAGCAATGCAAAT
20567094 TCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAA-
1 TCAA-CCTTCACAAAAGAGTAGTGAAGCAATGCAAAT
20567130 TCAACCCTTCACAAAAGAGTAGTGAAGCAATGCAAAT
1 TCAA-CCTTCACAAAAGAGTAGTGAAGCAATGCAAAT
20567167 TCAACCTTCACAAAAAAGAGTAGTGAAGCAATGCAAAT
1 TCAACCTTCAC--AAAAGAGTAGTGAAGCAATGCAAAT
20567205 TCAACCTTCACAAAA
1 TCAACCTTCACAAAA
20567220 AAGAGTAATG
Statistics
Matches: 154, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
35 4 0.03
36 106 0.69
37 8 0.05
38 36 0.23
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (36 bp):
TCAACCTTCACAAAAGAGTAGTGAAGCAATGCAAAT
Found at i:20567430 original size:3 final size:3
Alignment explanation
Indices: 20567424--20567467 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
20567414 ATATAATAAA
20567424 TAT TAT TA- TAT TA- TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
20567467 T
1 T
20567468 CTTAATAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 5 0.14
3 31 0.84
4 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20577472 original size:64 final size:64
Alignment explanation
Indices: 20577357--20577518 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
20577347 CGGTTCTCCA
* * * ** * *
20577357 AGTGTGCATCAATGCATAAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGGTGCATTG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATAG
** *
20577421 CTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGCATCGATGCATAG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATGCATAG
* *
20577485 AGAGTGCATCGATGCATGAAATGCATTCAATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
20577519 CAATTTATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 81 0.98
65 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATAG
Found at i:20578599 original size:21 final size:21
Alignment explanation
Indices: 20578573--20578624 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
20578563 CAGGATCATC
*
20578573 GAAGAGCTAGGAGCAGCTTGT
1 GAAGAGCTAGGAGCAGCTCGT
20578594 GAAGAGCTAGGAGCAGCTCGT
1 GAAGAGCTAGGAGCAGCTCGT
20578615 GAAGAGCTAG
1 GAAGAGCTAG
20578625 CTCCCGGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (21 bp):
GAAGAGCTAGGAGCAGCTCGT
Found at i:20586102 original size:64 final size:64
Alignment explanation
Indices: 20586015--20586193 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 64
20586005 TGGAACACTT
* * * * *
20586015 AGTGCATCGATGCACCA-AGTGTGCATCGATGCATAAAATGCATTTGATGTTTGAA-AATAGCCT
1 AGTGCATCGATGCA-TAGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCC
*
20586078 G
64 A
* * ** *
20586079 AGTGCATCGGTGCATTGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGATGCATAGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
*
20586143 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
20586194 CAATTTATTC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
64 95 0.98
65 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATAGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:20592626 original size:15 final size:15
Alignment explanation
Indices: 20592606--20592643 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
20592596 ATCATCCTTG
*
20592606 TGCTCATCT-CAGTTA
1 TGCTCATCTCCA-TCA
20592621 TGCTCATCTCCATCA
1 TGCTCATCTCCATCA
20592636 TGCTCATC
1 TGCTCATC
20592644 CTCTATGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (15 bp):
TGCTCATCTCCATCA
Found at i:20593193 original size:45 final size:45
Alignment explanation
Indices: 20593129--20593228 Score: 182
Period size: 45 Copynumber: 2.2 Consensus size: 45
20593119 AATCAACAGT
* *
20593129 GATGGTGACAGACTAACCCATATTATATAAAACTATGGTCTGATA
1 GATGGTGCCAGACTAACCCATAATATATAAAACTATGGTCTGATA
20593174 GATGGTGCCAGACTAACCCATAATATATAAAACTATGGTCTGATA
1 GATGGTGCCAGACTAACCCATAATATATAAAACTATGGTCTGATA
20593219 GATGGTGCCA
1 GATGGTGCCA
20593229 TCAAGTGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGGTGCCAGACTAACCCATAATATATAAAACTATGGTCTGATA
Found at i:20594137 original size:21 final size:21
Alignment explanation
Indices: 20594113--20594152 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20594103 TCCTTCGCAA
*
20594113 AAAGGGATTAATCATTTTTGT
1 AAAGGGATCAATCATTTTTGT
*
20594134 AAAGGGATCGATCATTTTT
1 AAAGGGATCAATCATTTTT
20594153 CAAGAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (21 bp):
AAAGGGATCAATCATTTTTGT
Found at i:20597089 original size:21 final size:20
Alignment explanation
Indices: 20597065--20597134 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
20597055 TAAGGGAAGA
20597065 GATCGATCATTTTCATTGAGG
1 GATCGATCATTTTCATT-AGG
**
20597086 GATCGATCATTTTGGTTAAGG
1 GATCGATCATTTTCATT-AGG
* *
20597107 GATCGATCCTTTTCCTATAGG
1 GATCGATCATTTTCAT-TAGG
20597128 GATCGAT
1 GATCGAT
20597135 TCCAAACTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
GATCGATCATTTTCATTAGG
Found at i:20601285 original size:22 final size:24
Alignment explanation
Indices: 20601260--20601310 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
20601250 GTCTACCATG
20601260 TTAAGCAT-ATCTTAT-AT-TTTGC
1 TTAAG-ATGATCTTATCATATTTGC
20601282 TTAAGATGATCTTATCATACTTTGC
1 TTAAGATGATCTTATCATA-TTTGC
20601307 TTAA
1 TTAA
20601311 CATTATGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 2 0.08
25 9 0.36
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (24 bp):
TTAAGATGATCTTATCATATTTGC
Found at i:20603466 original size:26 final size:27
Alignment explanation
Indices: 20603428--20603499 Score: 96
Period size: 26 Copynumber: 2.7 Consensus size: 27
20603418 ATTTTGATTA
20603428 TTTATTTATTTATAATT-TTATTTTAT
1 TTTATTTATTTATAATTATTATTTTAT
*
20603454 TTTATGTTA-TTATAATTATTTTTTTAT
1 TTTAT-TTATTTATAATTATTATTTTAT
*
20603481 TTT-TTTATTTATGATTATT
1 TTTATTTATTTATAATTATT
20603500 TAGTTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 3 0.07
26 24 0.59
27 14 0.34
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (27 bp):
TTTATTTATTTATAATTATTATTTTAT
Found at i:20603500 original size:26 final size:26
Alignment explanation
Indices: 20603416--20603500 Score: 93
Period size: 26 Copynumber: 3.2 Consensus size: 26
20603406 TTACGATTAT
* *
20603416 TTATTTTGATTATTTATTTATTTATAA
1 TTATTTT-TTTATTTTTTTATTTATAA
*
20603443 TT-TTATTTTATTTTATGTTA-TTATAA
1 TTATTTTTTTATTTT-T-TTATTTATAA
*
20603469 TTATTTTTTTATTTTTTTATTTATGA
1 TTATTTTTTTATTTTTTTATTTATAA
20603495 TTATTT
1 TTATTT
20603501 AGTTTTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.18
26 24 0.49
27 16 0.33
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (26 bp):
TTATTTTTTTATTTTTTTATTTATAA
Found at i:20603506 original size:29 final size:28
Alignment explanation
Indices: 20603404--20603515 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 28
20603394 AATTTTTGAA
* *
20603404 ATTTACGATTATTTATTTTGATTATTTATTT
1 ATTTATGATTATTTA-TTT--TTATTTTTTT
*
20603435 ATTTAT-AAT-TTTA-TTTTATTTTATGTT
1 ATTTATGATTATTTATTTTTATTTT-T-TT
*
20603462 A-TTATAATTA-TT-TTTTTATTTTTTT
1 ATTTATGATTATTTATTTTTATTTTTTT
*
20603487 ATTTATGATTATTTAGTTTTTATTATTTT
1 ATTTATGATTATTTA-TTTTTATTTTTTT
20603516 GTAGCGATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
25 9 0.14
26 14 0.21
27 20 0.30
29 16 0.24
30 2 0.03
31 5 0.08
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.70
Consensus pattern (28 bp):
ATTTATGATTATTTATTTTTATTTTTTT
Found at i:20608708 original size:20 final size:20
Alignment explanation
Indices: 20608683--20608720 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20608673 ACCAGCTGAT
20608683 GAGTATCGATACCCTAGGTG
1 GAGTATCGATACCCTAGGTG
*
20608703 GAGTATCGATACTCTAGG
1 GAGTATCGATACCCTAGG
20608721 GTCAGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (20 bp):
GAGTATCGATACCCTAGGTG
Found at i:20613395 original size:17 final size:17
Alignment explanation
Indices: 20613373--20613409 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20613363 GACGATAGTG
*
20613373 TATGCTTGCACTTTTGC
1 TATGCTTGAACTTTTGC
20613390 TATGCTTGAACTTTTGC
1 TATGCTTGAACTTTTGC
20613407 TAT
1 TAT
20613410 AACATTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (17 bp):
TATGCTTGAACTTTTGC
Found at i:20615318 original size:3 final size:3
Alignment explanation
Indices: 20615310--20615338 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20615300 GGTGTGTACT
20615310 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
20615339 GAGATAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:20619582 original size:20 final size:21
Alignment explanation
Indices: 20619541--20619584 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
20619531 TGTCCATCAG
*
20619541 AGGATCGATCCCTTTTGAAAA
1 AGGATCGATCCCTTTGGAAAA
20619562 AGGATCGATCCC-TTGGAAAA
1 AGGATCGATCCCTTTGGAAAA
20619582 AGG
1 AGG
20619585 TAGAATTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (21 bp):
AGGATCGATCCCTTTGGAAAA
Found at i:20620432 original size:21 final size:21
Alignment explanation
Indices: 20620408--20620449 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20620398 CCTGGGTCTT
20620408 GTTGTCTTGCTACTGGTACTA
1 GTTGTCTTGCTACTGGTACTA
*
20620429 GTTGTCTTGCTACTTGTACTA
1 GTTGTCTTGCTACTGGTACTA
20620450 ATACGATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (21 bp):
GTTGTCTTGCTACTGGTACTA
Found at i:20627609 original size:21 final size:21
Alignment explanation
Indices: 20627583--20627632 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
20627573 TAGGGGAAGG
20627583 ATCGATCCCTTTTAAAAAACA
1 ATCGATCCCTTTTAAAAAACA
*
20627604 ATCGATCCCTTTTAAAAAAGA
1 ATCGATCCCTTTTAAAAAACA
20627625 ATCGATCC
1 ATCGATCC
20627633 AAAACTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (21 bp):
ATCGATCCCTTTTAAAAAACA
Found at i:20627692 original size:20 final size:20
Alignment explanation
Indices: 20627669--20627726 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
20627659 ATCCATGCCG
*
20627669 AAAAATGATCGATCCCTTTC
1 AAAAAGGATCGATCCCTTTC
20627689 AAAAAGGATCGATCCCTTTC
1 AAAAAGGATCGATCCCTTTC
20627709 AAAAAGGATCGATCCCTT
1 AAAAAGGATCGATCCCTT
20627727 CACTGTTGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (20 bp):
AAAAAGGATCGATCCCTTTC
Found at i:20632012 original size:21 final size:21
Alignment explanation
Indices: 20631968--20632013 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
20631958 GATGAAGTGG
* *
20631968 AAGTAGATGAGGTACCTTGGT
1 AAGTAGATGAAGTACCTTGAT
*
20631989 AAGTAGATGAAGTACCTTTAT
1 AAGTAGATGAAGTACCTTGAT
20632010 AAGT
1 AAGT
20632014 GTCTTGGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGAT
Found at i:20636104 original size:21 final size:23
Alignment explanation
Indices: 20636047--20636099 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
20636037 TCGATTCCCT
*
20636047 AAAGGAGGGAATCAGTTCCCATTC
1 AAAGG-GGGAATCGGTTCCCATTC
*
20636071 AAAGGGGGAATCGGTTCCCCTTC
1 AAAGGGGGAATCGGTTCCCATTC
20636094 -AAGGGG
1 AAAGGGG
20636100 TATCGATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 6 0.22
23 16 0.59
24 5 0.19
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (23 bp):
AAAGGGGGAATCGGTTCCCATTC
Found at i:20642267 original size:60 final size:59
Alignment explanation
Indices: 20642169--20642349 Score: 254
Period size: 60 Copynumber: 3.0 Consensus size: 59
20642159 ATACATGAAT
* *
20642169 GAAATCTATGTGAATGATAAGGAACTAAGGCTCAACTATGTTACTTGGTATGCCAAGATAA
1 GAAA-CTATGTGAATGATGAGG-ATTAAGGCTCAACTATGTTACTTGGTATGCCAAGATAA
*
20642230 GAAACTATGTGAATGATGAGGAGTTAAGGCTCAACTATGTTACTTGGTACGCCAAGATAA
1 GAAACTATGTGAATGATGAGGA-TTAAGGCTCAACTATGTTACTTGGTATGCCAAGATAA
* * * * *
20642290 GAAATTATGTGAACGATGAGTATCTAAGGCTCAACTATGTTACTTGTTATGCGAAGATAA
1 GAAACTATGTGAATGATGAGGAT-TAAGGCTCAACTATGTTACTTGGTATGCCAAGATAA
20642350 ATTTCATATG
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
59 2 0.02
60 103 0.94
61 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (59 bp):
GAAACTATGTGAATGATGAGGATTAAGGCTCAACTATGTTACTTGGTATGCCAAGATAA
Found at i:20643714 original size:39 final size:38
Alignment explanation
Indices: 20643622--20643849 Score: 167
Period size: 38 Copynumber: 5.9 Consensus size: 38
20643612 TCAGTTTGGG
* * *
20643622 AACCAG-TTTTAGGTTACAACCT-ATTTTTTATTATAAA
1 AACCAGATTTTAGGTTGCAACCTGATTTTTCA-TATAGA
* * * *
20643659 AACTAGACTTTAGGTTGCAACCTGATTTTTCATTTCGA
1 AACCAGATTTTAGGTTGCAACCTGATTTTTCATATAGA
* * * *
20643697 AACCAGATTTTTTGGTTGTAACCTAATTTCTCATATAGA
1 AACCAGA-TTTTAGGTTGCAACCTGATTTTTCATATAGA
* ** *
20643736 AACCATATTTTAGGTTGTTACCT-ATTTTTTTATTATTTAGA
1 AACCAGATTTTAGGTTGCAACCTGA-TTTTTCA-TA--TAGA
* * * *
20643777 AACCATATTTTTAGGTTGCAACTTGGTTTTTCATATGGA
1 AACCAGA-TTTTAGGTTGCAACCTGATTTTTCATATAGA
* **
20643816 AACTAGATTTTAGGTTGCAATATGA-TTTTCATAT
1 AACCAGATTTTAGGTTGCAACCTGATTTTTCATAT
20643850 CAAAATCTGA
Statistics
Matches: 151, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
37 15 0.10
38 57 0.38
39 47 0.31
41 13 0.09
42 19 0.13
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (38 bp):
AACCAGATTTTAGGTTGCAACCTGATTTTTCATATAGA
Found at i:20643862 original size:37 final size:38
Alignment explanation
Indices: 20643785--20643863 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
20643775 GAAACCATAT
* **
20643785 TTTTAGGTTGCAACTTGGTTTTTCATATGGAAACTAGA
1 TTTTAGGTTGCAACTTGGATTTTCATATCAAAACTAGA
20643823 TTTTAGGTTGCAA-TAT-GATTTTCATATCAAAATCT-GA
1 TTTTAGGTTGCAACT-TGGATTTTCATATCAAAA-CTAGA
20643860 TTTT
1 TTTT
20643864 TCACTTAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 20 0.56
38 16 0.44
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (38 bp):
TTTTAGGTTGCAACTTGGATTTTCATATCAAAACTAGA
Found at i:20645481 original size:5 final size:5
Alignment explanation
Indices: 20645473--20645549 Score: 65
Period size: 5 Copynumber: 16.0 Consensus size: 5
20645463 AATTTTAATG
* * *
20645473 ATATT ATATT -T-TT AATATT ATATT A-ATAT ATACT AAAAT ATATT ATA--
1 ATATT ATATT ATATT -ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT
*
20645520 ATAAT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
20645550 TGTAATTTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
3 5 0.08
4 3 0.05
5 48 0.81
6 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:20645515 original size:25 final size:23
Alignment explanation
Indices: 20645487--20645545 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
20645477 TATATTTTTA
20645487 ATATTATATTAATATATACTAAAAT
1 ATATTATATTAATATAT--TAAAAT
* * *
20645512 ATATTATAATAATATATTATATT
1 ATATTATATTAATATATTAAAAT
20645535 ATATTATATTA
1 ATATTATATTA
20645546 TATTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 14 0.47
25 16 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATTATATTAATATATTAAAAT
Found at i:20645574 original size:64 final size:70
Alignment explanation
Indices: 20645434--20645585 Score: 169
Period size: 64 Copynumber: 2.3 Consensus size: 70
20645424 AAATATTAAT
* * *
20645434 TATTAAAATAT-TTA-ATATACATATAATATAATTTTAATGATATTATATTTTTAATATTATATT
1 TATTAAAATATATTATA-ATACATATAATATAATTATAATGATATTATATTTGTAATATTATACT
20645497 AATATA
65 AATATA
* * *
20645503 TACTAAAATATATTATAATA-ATATATTAT-ATTAT-ATTATATTATATTTGT-A-ATT-TACTA
1 TATTAAAATATATTATAATACATATAATATAATTATAATGATATTATATTTGTAATATTATACTA
20645562 ATATA
66 ATATA
20645567 TATTAAAAT-TATTAATAAT
1 TATTAAAATATATT-ATAAT
20645586 GAGTAATATT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
63 4 0.05
64 22 0.30
65 3 0.04
66 1 0.01
67 14 0.19
68 4 0.05
69 18 0.25
70 6 0.08
71 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (70 bp):
TATTAAAATATATTATAATACATATAATATAATTATAATGATATTATATTTGTAATATTATACTA
ATATA
Found at i:20645964 original size:29 final size:31
Alignment explanation
Indices: 20645907--20645982 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 31
20645897 TTCCCAAAAA
20645907 ATGTAATTCATTTTAC-CTAAAACAATTTT-
1 ATGTAATTCATTTTACGCTAAAACAATTTTC
***
20645936 A-GATAATTCATTTTACGC-AAAATTGTTTTC
1 ATG-TAATTCATTTTACGCTAAAACAATTTTC
20645966 ATGTAATTCATTTTACG
1 ATGTAATTCATTTTACG
20645983 TATATTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.03
29 22 0.55
30 16 0.40
31 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (31 bp):
ATGTAATTCATTTTACGCTAAAACAATTTTC
Found at i:20647585 original size:28 final size:29
Alignment explanation
Indices: 20647533--20647632 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 29
20647523 CTTTATTTTG
*
20647533 TTCGGGTCGGTTGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGG--GTGTTTTTTAAGTGTGATA
20647564 TTCGGGTCGGGT-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTGTTTTTTAAGTGTGATA
20647592 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGT---GTTTTTTAAGTGTGATA
*
20647624 TTAGGGTCG
1 TTCGGGTCG
20647633 CGTCGGGTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
28 28 0.44
29 1 0.02
31 10 0.16
32 24 0.38
ACGTcount: A:0.13, C:0.08, G:0.36, T:0.43
Consensus pattern (29 bp):
TTCGGGTCGGGTGTTTTTTAAGTGTGATA
Found at i:20647617 original size:32 final size:32
Alignment explanation
Indices: 20647533--20647642 Score: 158
Period size: 32 Copynumber: 3.6 Consensus size: 32
20647523 CTTTATTTTG
*
20647533 TTCGGGTC-GGTTGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
20647564 TTCGGGTCGGGT----TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
20647592 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
* *
20647624 TTAGGGTCGCGTCGGGTTT
1 TTCGGGTCGGGTCGGGTTT
20647643 AGGGTGAAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
28 28 0.39
31 8 0.11
32 36 0.50
ACGTcount: A:0.12, C:0.09, G:0.36, T:0.43
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:20648298 original size:38 final size:39
Alignment explanation
Indices: 20648256--20648342 Score: 95
Period size: 44 Copynumber: 2.1 Consensus size: 39
20648246 CCTCAGAAAC
*
20648256 ATTCCA-GCGAACCAAACAGAATATGAAATTGGATTCCA
1 ATTCCATGCCAACCAAACAGAATATGAAATTGGATTCCA
* *
20648294 ATTCCATTTCCTGCCAACCAAACAGGATATGGAATTGGATTCCA
1 ATTCCA-----TGCCAACCAAACAGAATATGAAATTGGATTCCA
20648338 ATTCC
1 ATTCC
20648343 TTCACATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 6 0.15
44 34 0.85
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (39 bp):
ATTCCATGCCAACCAAACAGAATATGAAATTGGATTCCA
Found at i:20648348 original size:114 final size:114
Alignment explanation
Indices: 20648148--20648386 Score: 451
Period size: 114 Copynumber: 2.1 Consensus size: 114
20648138 TGACATGTCT
*
20648148 GCGAACCAAACATAATATGAAATTGGATTCCAATTCCATTTCCTGCCAACCAAACAGAATATGGA
1 GCGAACCAAACAGAATATGAAATTGGATTCCAATTCCATTTCCTGCCAACCAAACAGAATATGGA
20648213 ATTGGATTCCAATTCCTTCACATATTTCAATTCCCTCAGAAACATTCCA
66 ATTGGATTCCAATTCCTTCACATATTTCAATTCCCTCAGAAACATTCCA
*
20648262 GCGAACCAAACAGAATATGAAATTGGATTCCAATTCCATTTCCTGCCAACCAAACAGGATATGGA
1 GCGAACCAAACAGAATATGAAATTGGATTCCAATTCCATTTCCTGCCAACCAAACAGAATATGGA
*
20648327 ATTGGATTCCAATTCCTTCACATATTTCAATTCCCTCAGGAACATTCCA
66 ATTGGATTCCAATTCCTTCACATATTTCAATTCCCTCAGAAACATTCCA
20648376 GCGAACCAAAC
1 GCGAACCAAAC
20648387 GCCACCTTAG
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 122 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (114 bp):
GCGAACCAAACAGAATATGAAATTGGATTCCAATTCCATTTCCTGCCAACCAAACAGAATATGGA
ATTGGATTCCAATTCCTTCACATATTTCAATTCCCTCAGAAACATTCCA
Found at i:20651389 original size:24 final size:24
Alignment explanation
Indices: 20651362--20651408 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
20651352 GCTCAGCGAA
20651362 CAGTCCACCAAT-ATGTCCACTAAC
1 CAGTCCACCAATCA-GTCCACTAAC
20651386 CAGTCCACCAATCAGTCCACTAA
1 CAGTCCACCAATCAGTCCACTAA
20651409 ACACACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.34, C:0.38, G:0.09, T:0.19
Consensus pattern (24 bp):
CAGTCCACCAATCAGTCCACTAAC
Found at i:20663603 original size:5 final size:5
Alignment explanation
Indices: 20663595--20663620 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20663585 TTGTCCATAA
20663595 TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG T
20663621 AAGGGACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:20667401 original size:38 final size:38
Alignment explanation
Indices: 20667290--20667477 Score: 200
Period size: 39 Copynumber: 4.9 Consensus size: 38
20667280 TGGGAACCAG
* * *
20667290 TTTTAGGTTGCAACCTGATTTTTCATTTAGAAACTAGATTT
1 TTTTAGGTTGCAACCTGATTTTTCATATAGAAAC--CA-TA
** *
20667331 TTTTTTGTTGCAACCTGATTTTTTCATATAGAAACTATA
1 TTTTAGGTTGCAACCTGA-TTTTTCATATAGAAACCATA
* * * *
20667370 TTTTAGGTTGCAATCTAATTTTTCATTTAGAAACCAAA
1 TTTTAGGTTGCAACCTGATTTTTCATATAGAAACCATA
* * *
20667408 TTTTTAGGTTGTAACCTGATTTTTCATATGGAAACCAGA
1 -TTTTAGGTTGCAACCTGATTTTTCATATAGAAACCATA
20667447 TTTTAGGTTGCAACCTGA-TTTTCATAT-GAAA
1 TTTTAGGTTGCAACCTGATTTTTCATATAGAAA
20667478 ATATGATTTT
Statistics
Matches: 126, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
36 4 0.03
37 9 0.07
38 34 0.27
39 47 0.37
40 1 0.01
41 16 0.13
42 15 0.12
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (38 bp):
TTTTAGGTTGCAACCTGATTTTTCATATAGAAACCATA
Found at i:20667429 original size:19 final size:19
Alignment explanation
Indices: 20667407--20667468 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
20667397 TAGAAACCAA
*
20667407 ATTTTTAGGTTGTAACCTG
1 ATTTTTAGGTTGAAACCTG
** * *
20667426 ATTTTTCATATGGAAACCAG
1 ATTTTT-AGGTTGAAACCTG
*
20667446 A-TTTTAGGTTGCAACCTG
1 ATTTTTAGGTTGAAACCTG
20667464 ATTTT
1 ATTTT
20667469 CATATGAAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
20 9 0.29
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (19 bp):
ATTTTTAGGTTGAAACCTG
Found at i:20671824 original size:95 final size:96
Alignment explanation
Indices: 20671608--20671831 Score: 272
Period size: 96 Copynumber: 2.3 Consensus size: 96
20671598 TACTGACGAG
* ** * * * * **
20671608 GTAGTATCGATACCATAGTAAGACTATTGATACCAGTCTATATCGAATTTAAAATGGGTATCGAT
1 GTAGTATCGATACCATTGTAAGGGTATCGATACCAATCAACATCGAATCAAAAATGGGTATCGAT
* *
20671673 ACCGGAAGTGGTATCGGTACCATAATATATA
66 ACCAGAAGGGGTATCGGTACCATAATATATA
* * * *
20671704 GTAGTATCGATACCATTATAAGGGTATCGATAGCAATCAACATCGAATCAAAAATTGGTATCTAT
1 GTAGTATCGATACCATTGTAAGGGTATCGATACCAATCAACATCGAATCAAAAATGGGTATCGAT
*
20671769 ACCAGAAGGGGGTATCGGTACCAT-A-GTATA
66 ACCAGAA-GGGGTATCGGTACCATAATATATA
*
20671799 GTAGTATCGATACCATTGTAGGGGTATCGATAC
1 GTAGTATCGATACCATTGTAAGGGTATCGATAC
20671832 TATAGAGCCA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
95 34 0.31
96 59 0.55
97 15 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (96 bp):
GTAGTATCGATACCATTGTAAGGGTATCGATACCAATCAACATCGAATCAAAAATGGGTATCGAT
ACCAGAAGGGGTATCGGTACCATAATATATA
Found at i:20672240 original size:55 final size:56
Alignment explanation
Indices: 20672163--20672267 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 56
20672153 ATGGCACTAA
20672163 GTGTGCAAAATATAAGAAATTCATACTAAACGTATGAATTT-CTGTATGGGCACTTT
1 GTGTGCAAAATATAAGAAATTCATACTAAACGTATGAATTTCCT-TATGGGCACTTT
* **
20672219 GTGTGCAAAA-CTAAGAAATTCATACTAAGTGTATGAATTTCCTTATGGG
1 GTGTGCAAAATATAAGAAATTCATACTAAACGTATGAATTTCCTTATGGG
20672268 AAATATATGT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
55 33 0.73
56 12 0.27
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (56 bp):
GTGTGCAAAATATAAGAAATTCATACTAAACGTATGAATTTCCTTATGGGCACTTT
Found at i:20672674 original size:68 final size:68
Alignment explanation
Indices: 20672491--20672665 Score: 217
Period size: 68 Copynumber: 2.6 Consensus size: 68
20672481 CCTAACTGTA
* * * *
20672491 CATATGAAAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCTTTGAGATATAACT
1 CATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGACATAACT
20672556 ATG
66 ATG
* * * * *
20672559 CATATGACAGAAAGGTTTCATTTATACCAGTTAGATGAAAAACTAAGTGTCTTTGAGGCCTAACT
1 CATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGACATAACT
*
20672624 GTG
66 ATG
* * *
20672627 CA-ATTGGCAGAAAGGTGTCAATTATGCCATTTAGATGAA
1 CATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
20672666 TGGTTAAGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 1 0.01
68 90 0.99
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (68 bp):
CATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGACATAACT
ATG
Found at i:20672822 original size:150 final size:150
Alignment explanation
Indices: 20672551--20673182 Score: 721
Period size: 150 Copynumber: 4.3 Consensus size: 150
20672541 CTTTGAGATA
* * * *
20672551 TAACTATGCATATGACAGAAAGGTTTCATTTATACCAGTTAGATGAAAAACTAAGTGTCTTTGAG
1 TAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAG
** * * *
20672616 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCATTTAGATGAATGGTTAAGTACCATT
66 GCCTAACTGTGCAATTATCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
20672681 GAGTAAAAGATTAATAGGCC
131 GAGTAAAAGATTAATAGGCC
* * ***
20672701 TAACTGTGCATATGATAGAATGGTGTCATTTATGCCAGTTAGATGAAATTTTAAGTGTCTTTGAG
1 TAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAG
* * *
20672766 GCCTAACTGTGCAATTATCATAAAAGAGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
66 GCCTAACTGTGCAATTATCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
20672831 GAGTAAAAGATTAATAGGCC
131 GAGTAAAAGATTAATAGGCC
** * *
20672851 TAACTGTGCATATGACAGAAACATGTCATTTATGCTAGTTAGATGAAAGACTGAGTGTCTTTGAG
1 TAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAG
* * * * * *
20672916 GACTAACTGTACATATGA-CATAAAGGTGTCATTTATGCCACTTAGATG-A-----AAG-A-C--
66 GCCTAACTGTGCA-ATTATCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
*
20672970 TGAGT----G-TCT-TTGAGGCC
130 TGAGTAAAAGAT-TAAT-AGGCC
* * * *
20672987 TAACTGTGCATATGATAGAAAGATGTCATTTATGCCAGATAGATGAAAGACTAAGTGTCTTTGTG
1 TAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAG
* *
20673052 GCCAAACTGTGCAATTGGT-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
66 GCCTAACTGTGCAATT-ATCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
* *
20673116 TGAGTAAAAGAATAAT-GGAC
130 TGAGTAAAAGATTAATAGGCC
* *
20673136 TAACTGTGCA-ATTGGA-AAAAAGGTGTCAATTATGCCAGTTAGATGAA
1 TAACTGTGCATA-T-GACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
20673183 CGGTTAAACA
Statistics
Matches: 405, Mismatches: 54, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
135 4 0.01
136 102 0.25
137 1 0.00
140 5 0.01
142 4 0.01
143 2 0.00
144 4 0.01
146 5 0.01
148 1 0.00
149 42 0.10
150 231 0.57
151 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (150 bp):
TAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAG
GCCTAACTGTGCAATTATCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
GAGTAAAAGATTAATAGGCC
Found at i:20672823 original size:68 final size:67
Alignment explanation
Indices: 20672696--20673101 Score: 244
Period size: 68 Copynumber: 5.8 Consensus size: 67
20672686 AAAGATTAAT
* * ** * ***
20672696 AGGCCTAACTGTGCATATGATAGAATGGTGTCATTTATGCCAGTTAGATGAAATTTTAAGTGTCT
1 AGGCCTAACTGTGCA-ATTATATAAAAGAGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20672761 TTG
65 TTG
* * ** ** *
20672764 AGGCCTAACTGTGCAATTATCATAAAAGAGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCG
1 AGGCCTAACTGTGCAATTAT-ATAAAAGAGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20672829 TTG
65 TTG
** * *
20672832 AGTAAAAGATTAA-TAG-GCCTAACTGTGCATATGACAGAAACATGTCATTTATGCTAGTTAGAT
1 AG-----GCCTAACT-GTG-C-AA-T-T--ATAT---A-AAAGA-GTCATTTATGCCAGTTAGAT
*
20672895 GAAAGACTGAGTGTCTTTG
49 GAAAGACTAAGTGTCTTTG
* * * * * * * *
20672914 AGGACTAACTGTACATATGACATAAAGGTGTCATTTATGCCACTTAGATGAAAGACTGAGTGTCT
1 AGGCCTAACTGTGCA-ATTATATAAAAGAGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20672979 TTG
65 TTG
*
20672982 AGGCCTAACTGTGC-A-TATGATAGAAAGATGTCATTTATGCCAGATAGATGAAAGACTAAGTGT
1 AGGCCTAACTGTGCAATTAT-ATA-AAAGA-GTCATTTATGCCAGTTAGATGAAAGACTAAGTGT
20673045 CTTTG
63 CTTTG
* * * * * * *
20673050 TGGCCAAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCAATT-ATATAAAAGAGTCATTTATGCCAGTTAGATGAA
20673102 CGGTTAAGTA
Statistics
Matches: 261, Mismatches: 50, Indels: 54
0.72 0.14 0.15
Matches are distributed among these distances:
65 1 0.00
66 4 0.02
67 7 0.03
68 171 0.66
69 6 0.02
70 4 0.02
71 1 0.00
72 2 0.01
73 9 0.03
74 2 0.01
75 1 0.00
76 3 0.01
77 10 0.04
78 3 0.01
80 1 0.00
81 4 0.02
82 32 0.12
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (67 bp):
AGGCCTAACTGTGCAATTATATAAAAGAGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTT
TG
Found at i:20673090 original size:136 final size:136
Alignment explanation
Indices: 20672846--20673101 Score: 370
Period size: 136 Copynumber: 1.9 Consensus size: 136
20672836 AAAGATTAAT
* * *
20672846 AGGCCTAACTGTGCATATGACAGAAACATGTCATTTATGCTAGTTAGATGAAAGACTGAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAACATGTCATTTATGCCAGATAGATGAAAGACTAAGTGTCT
* * *
20672911 TTGAGGACTAACTGTACATATGACATAAAGGTGTCATTTATGCCACTTAGATGAAAGACTGAGTG
66 TTGAGGACAAACTGTACATATGACAGAAAGGTGTCAATTATGCCACTTAGATGAAAGACTGAGTG
20672976 TCTTTG
131 TCTTTG
* *
20672982 AGGCCTAACTGTGCATATGATAGAAAGATGTCATTTATGCCAGATAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAACATGTCATTTATGCCAGATAGATGAAAGACTAAGTGTCT
* * * ** *
20673047 TTGTGGCCAAACTGTGCA-ATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
66 TTGAGGACAAACTGTACATA-TGACAGAAAGGTGTCAATTATGCCACTTAGATGAA
20673102 CGGTTAAGTA
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
135 1 0.01
136 104 0.99
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (136 bp):
AGGCCTAACTGTGCATATGACAGAAACATGTCATTTATGCCAGATAGATGAAAGACTAAGTGTCT
TTGAGGACAAACTGTACATATGACAGAAAGGTGTCAATTATGCCACTTAGATGAAAGACTGAGTG
TCTTTG
Found at i:20673110 original size:68 final size:68
Alignment explanation
Indices: 20672846--20673101 Score: 325
Period size: 68 Copynumber: 3.8 Consensus size: 68
20672836 AAAGATTAAT
* * ** * *
20672846 AGGCCTAACTGTGCATATGACAGAAACATGTCATTTATGCTAGTTAGATGAAAGACTGAGTGTCT
1 AGGCCAAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20672911 TTG
66 TTG
* * * * * * *
20672914 AGGACTAACTGTACATATGACATAAAGGTGTCATTTATGCCACTTAGATGAAAGACTGAGTGTCT
1 AGGCCAAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20672979 TTG
66 TTG
* * *
20672982 AGGCCTAACTGTGCATATGATAGAAAGATGTCATTTATGCCAGATAGATGAAAGACTAAGTGTCT
1 AGGCCAAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20673047 TTG
66 TTG
* * *
20673050 TGGCCAAACTGTGCA-ATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCAAACTGTGCATA-TGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
20673102 CGGTTAAGTA
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 1 0.01
68 165 0.99
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
AGGCCAAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
TTG
Found at i:20673200 original size:81 final size:81
Alignment explanation
Indices: 20673056--20673292 Score: 357
Period size: 81 Copynumber: 2.9 Consensus size: 81
20673046 TTTGTGGCCA
* * **
20673056 AACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGT
1 AACTGTGCAATTGGAAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGT
20673121 AAAAGAATAATGGACT
66 AAAAGAATAATGGACT
*
20673137 AACTGTGCAATTGGAAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCATTGAGT
1 AACTGTGCAATTGGAAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGT
20673202 AAAAGAATAATGGACT
66 AAAAGAATAATGGACT
* * * * * * *
20673218 AACTGTGCAATTGGCATAAAGGTGTAAATTATACCAATTAGATGAACGGTTAAACACTGTTGAAT
1 AACTGTGCAATTGGAAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGT
*
20673283 AAGAGAATAA
66 AAAAGAATAA
20673293 AGTAATTTTA
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (81 bp):
AACTGTGCAATTGGAAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGT
AAAAGAATAATGGACT
Found at i:20673353 original size:2 final size:2
Alignment explanation
Indices: 20673346--20673372 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20673336 TGAAGGGATG
20673346 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20673373 ATGTACAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20673484 original size:45 final size:45
Alignment explanation
Indices: 20673435--20673552 Score: 200
Period size: 45 Copynumber: 2.6 Consensus size: 45
20673425 ACATGCCATA
*
20673435 AAAGGCATGAAAGGATGTCATAAATGAAATGTATAATCGTGTATC
1 AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATCGTGTATC
*
20673480 AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATTGTGTATC
1 AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATCGTGTATC
* *
20673525 AAAGACATGAAAGGACGCCATAAATGAA
1 AAAGGCATGAAAGGATGCCATAAATGAA
20673553 TGGATGGCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (45 bp):
AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATCGTGTATC
Done.