Genome: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/F-Ptua/data/Pocillopora_meandrina_HIv1.assembly.fa
Alignments: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/F-Ptua/output/04-Ptua-sRNA-discovery-ShortStack/ShortStack_out/merged_alignments.bam
Location: Pocillopora_meandrina_HIv1___Sc0000008:5387739-5387831 minus
PDF file name: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/F-Ptua/output/04-Ptua-sRNA-discovery-ShortStack/ShortStack_out/strucVis/Cluster_2897.ps.pdf
Locus Name: Cluster_2897
UUAUUGCUCAUUCAAAUGCUCGCUGGAAUUGUACAGAAGAUGAUUUAAUCAACUUUUCUACAAUUCCAGUGGAUAUUUGUUUCAGAAACAUUU
......((.(..((((((.((((((((((((((.(((((.((((...)))).))))).)))))))))))))).))))))..).))........ (-30.90)
..........UUCAAAUGCUCaCUGGAAUU............................................................... len:20 al:1
.............AAAUGCUCaCUGGAAUUGUACAGA........................................................ len:24 al:1
..............AAUGCUCGCUGGAAUUGUACAGAAGAU.................................................... len:27 al:1
..............AAUGCUCGCUGGAAUUGUA............................................................ len:19 al:1
..............AAUGCUCGCUGGAAUUGUACAG......................................................... len:22 al:1
..............AAUGCUCGCUGGAAUUGUACAGAA....................................................... len:24 al:2
..................CUCGCUGGAAUUGUACAGAAGAUGAUU................................................ len:27 al:1
..................CUCGCUaGAAUUGUACAGAAGAUGAUU................................................ len:27 al:1
..................CUCGCUGGAAUUGUACAGAAGAUGu.................................................. len:25 al:1
..................CUCGCUGGAAUUGUACAGAAG...................................................... len:21 al:2
..................CUCGCUGGAAUUGUACAGAAGAUGAUUUA.............................................. len:29 al:2
..................CUCGCUGGAAUUGUACAGAAGAUGA.................................................. len:25 al:8
...................UCGCUGGAAUUGUACAGAAGAU.................................................... len:22 al:4
...................UCGCUGGAAUUGUACAGAAGAUu................................................... len:23 al:2
...................aCGCUGGAAUUGUACAGAAGAUGA.................................................. len:24 al:1
...................UCGCUGGAAUUGUACAGAAGAcG................................................... len:23 al:1
...................UCGCUGGAAUUGUACAGAA....................................................... len:19 al:1
...................UCaCUGGAAUUGUACAGAAGAUGAUU................................................ len:26 al:5
...................UCGCUGGAAUUGUACAGAAGAUGg.................................................. len:24 al:1
...................UCGCcGGAAUUGUACAGAAGAUGA.................................................. len:24 al:2
...................UCGCUGGAAUUGUACAGA........................................................ len:18 al:10
...................UCGCUGGAAUUGUACAGAAGAUGAUa................................................ len:26 al:3
...................UCaCUGGAAUUGUACAGA........................................................ len:18 al:4
...................UCGCUGGAAUUGUACAGAAGAUGc.................................................. len:24 al:1
...................UCGCUGGAAUUGUACAGAAGAUGA.................................................. len:24 al:67
...................UCGCUGGAAUUGUACAGAAGAUGu.................................................. len:24 al:7
...................UCGCUGGAAUUGUACAGAAGgUGA.................................................. len:24 al:4
...................UCGCUGGAAUUGUACAGAAGAUGAUaU............................................... len:27 al:1
...................UCGCUGGAAUUGUACAGAAGAUaA.................................................. len:24 al:1
...................UCaCUGGAAUUGUACAGAAGAU.................................................... len:22 al:3
...................UCaCUGGAAUUGUACAGAAGAUG................................................... len:23 al:14
...................UCaCUGGAAUUGUACAGAAGAUGAU................................................. len:25 al:6
...................UCGCUGGAAUUGUACAGAAGAUGAUU................................................ len:26 al:4
...................UCaCUGGAAUUGUACAGAAGAUGA.................................................. len:24 al:36
...................UCGCUGGAAUUGUAC........................................................... len:15 al:1
...................UCGCUGGAAUUGUACAGAAGAUG................................................... len:23 al:27
...................UCGCUGGAAUUGUACAGAAGA..................................................... len:21 al:1
...................UCGCUGGAAUUGUACAGAAGAUGAU................................................. len:25 al:1
....................CGCUGGAAUUGUACAGAAGAUGu.................................................. len:23 al:22
....................CGCUGGAAUgGUACAGAAGAUGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACgGAAGAUG................................................... len:22 al:1
....................CGCUGGAAUUGUACAuAAGAUG................................................... len:22 al:1
....................CGCUGGAAUUGUACAGAAGAUGAUUa............................................... len:26 al:1
....................CGCcGGAAUUGUACAGAAGAUGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACgGAAGAUGA.................................................. len:23 al:1
....................uGCUGGAAUUGUACAGAAGAUGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAAGAUGAUUUAAU............................................ len:29 al:2
....................CGCUGGAAUUGUACAGAAGAUuA.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAgGAUGAUU................................................ len:25 al:1
....................CGCUGGAAUUGUACAGAAGAUGg.................................................. len:23 al:7
....................CaCUGGAAUUGUACAGAAGAUGAUUUAAU............................................ len:29 al:1
....................CGCUGGAAUUGcACAGAAGAUGA.................................................. len:23 al:5
....................CGCUGGAAUUGUgCAGAAGAUGA.................................................. len:23 al:2
....................CaCUGGAAUUGUACAGAAGAUGAUU................................................ len:25 al:2
....................CGCUGGAAUUGUACAGAAGgUGAU................................................. len:24 al:1
....................CGCUGGAAcUGUACAGAAGAUGA.................................................. len:23 al:4
....................CGCUGGAAUUGUACAGAAGAUGAU................................................. len:24 al:67
....................CGCUGGAAUUGUACAGAAGAUGgU................................................. len:24 al:2
....................CGCUGGAAUUGUACAGAAGAUGAUUU............................................... len:26 al:3
....................CGCUGGAgUUGUACAGAAGAUG................................................... len:22 al:1
....................CGCUGGAAUUGUACAGAAGAUa................................................... len:22 al:8
....................CGCUGGAAUUGUACAGAuGAUGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAAGAUGAUU................................................ len:25 al:37
....................CGCUGGAAUUGUACAGAAGAUGA.................................................. len:23 al:959
....................CGCUGGAAUUGUACAGAAGAUG................................................... len:22 al:310
....................CaCUGGAAUUGUACAGAAGAUGAU................................................. len:24 al:3
....................CGCUGGAAUUGUACAGAAGAUGAUa................................................ len:25 al:83
....................CGCUGGAAUUGUACAGAgGAUGA.................................................. len:23 al:4
....................CGCUGGcAUUGUACAGAAGAUGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAgGAUG................................................... len:22 al:1
....................CGCUGGAAUUGUACAGAAGAUGAUUUA.............................................. len:27 al:3
....................CaCUGGAAUUGUACAGAAG...................................................... len:19 al:1
....................CGCUGGAAUcGUACAGAAGAUGA.................................................. len:23 al:3
....................CGCUGGAAUUGUACAGAAGAUGAc................................................. len:24 al:6
....................CGCUGGAAUUGUACuGAAGAUGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAAGA..................................................... len:20 al:5
....................CaCUGGAAUUGUACAGAAGAUGA.................................................. len:23 al:128
....................CGuUGGAAUUGUACAGAAGAUGA.................................................. len:23 al:2
....................CGCUGGAAUUGUACAGgAGAUGA.................................................. len:23 al:1
....................CaCUGGAAUUGUACAGAAGAUG................................................... len:22 al:45
....................CaCUGGAAUUGUACAGAAGAU.................................................... len:21 al:2
....................CGCUGGAAcUGUACAGAAGAUGAUU................................................ len:25 al:1
....................CGCUGGAAUUGUACAGAAGAUGAa................................................. len:24 al:10
....................CGCUGGgAUUGUACAGAAGAUG................................................... len:22 al:2
....................CGCUGGAAUUGUACAGAAGAUu................................................... len:22 al:13
....................CGCUGGAgUUGUACAGAAGAUGA.................................................. len:23 al:1
....................CGCUGGcAUUGUACAGAAGAUG................................................... len:22 al:1
....................CGCUGGAAUUGUACAGAAGAcGA.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAAGgUGA.................................................. len:23 al:5
....................CGCUGGAAUUGUACAGA........................................................ len:17 al:4
....................CGCUGGAAUUGUACgGAAGAUGAU................................................. len:24 al:2
....................CGCUGGAAUUGUACAGAAGgUGAUU................................................ len:25 al:1
....................CGCUGGAAUUGUACAGAAGAUGAUc................................................ len:25 al:2
....................CGCUGGAAUUGUACAGAAGAUGc.................................................. len:23 al:1
....................CGCUGGAAUUGUACAGAAGAU.................................................... len:21 al:10
....................CGCUGGAAUUGUACAGAAGAUGAUaU............................................... len:26 al:1
....................aGCUGGAAUUGUACAGAAGAUGA.................................................. len:23 al:1
.....................GCUGGAAcUGUACAGAAGAUGA.................................................. len:22 al:2
.....................GCUGGAAUUGUACAGAAGAUGAUa................................................ len:24 al:2
.....................aCUGGAAUUGUACAGAAGAUG................................................... len:21 al:12
.....................aCUGGAAUUGUACAGAAGAUGAUUUAAU............................................ len:28 al:1
.....................GCUGGAAUUGUACgGAAGAUGA.................................................. len:22 al:1
.....................GCUGGAAUUGUACAGAAGAUGAUaU............................................... len:25 al:2
.....................GCUGGAAUUGUACAGAAGAUGAU................................................. len:23 al:10
.....................GCUGGAAUUGUACAGAAGAUGAUUUAAU............................................ len:28 al:1
.....................aCUGGAAUUGUACAGAAGAUGAU................................................. len:23 al:3
.....................GCUGGAAUUGUACAGAAGAU.................................................... len:20 al:1
.....................GCUGGAAUUGUACAGAAGAUG................................................... len:21 al:34
.....................GCUGGAAUUGUACAGAAGAUGAUU................................................ len:24 al:6
.....................aCUGGAAUUGUACAGAAGAUGA.................................................. len:22 al:87
.....................GCUGGAAcUGUACAGAAGAUG................................................... len:21 al:1
.....................GCUGGAAUUGUACAGAAGAUGA.................................................. len:22 al:125
.....................GCUGGAAcUGUACAGAAGAUGAUU................................................ len:24 al:1
.....................GCUGGAAUUGUACAGAAGAUGu.................................................. len:22 al:7
.....................GCUGGAAUUGUACgGAAGAUGAU................................................. len:23 al:1
.....................GCUGGAAUUGUACAGAAGAcGA.................................................. len:22 al:1
.....................GCUGGAAUUGUACAGAAGAUGAUc................................................ len:24 al:2
.....................GCUGGAAUUGUACAGAAGAUu................................................... len:21 al:3
.....................GCUGGAAUUGcACAGAAGAUG................................................... len:21 al:1
.....................GCUGGAAUUGUACAGAAGAUa................................................... len:21 al:1
.....................GCUGGcAUUGUACAGAAGAUGA.................................................. len:22 al:1
......................CUGGAAUUGUACAGAAGAUGA.................................................. len:21 al:1
.......................UGGAAUUGUACAGAAGAUGAUU................................................ len:22 al:1
.......................UGGAAUUGUACAGAAGAUGc.................................................. len:20 al:1
.......................UGGAAUUGUACuGAAGAUG................................................... len:19 al:1
.......................UGGAAUUGUACAGAgGAUGA.................................................. len:20 al:1
.......................UGGAAUUGUACAGAAGAUGAU................................................. len:21 al:2
.......................UGGAAUUGUACAGAAGAcGA.................................................. len:20 al:1
.......................UGGAAUUGUACAGAAGAUG................................................... len:19 al:17
.......................UGGAAcUGUACAGAAGAUG................................................... len:19 al:1
.......................UGGAAUUGUACAGAAGAUGA.................................................. len:20 al:27
.........................GAAUUGUACAGAAGAUGA.................................................. len:18 al:1
...........................................UUUAAUCAACUUUUCUACAAUUCCAGUGGA.................... len:30 al:1
.................................................CAACUUUUCUACAAUUCCAGU....................... len:21 al:3
.................................................CAACUUUUCUACAAUUCCAGc....................... len:21 al:1
.................................................CAACUUUUCUACAAUUCCAGUGGA.................... len:24 al:2
..................................................AACUUUUCUcCAAUUCCAGU....................... len:20 al:3
..................................................AACUUUUCUACAAUUCCAGUGGu.................... len:23 al:232
..................................................AACcUUUCUACAAUUCC.......................... len:17 al:1
..................................................AACUUUUCUgCAAUUCCAGU....................... len:20 al:3
..................................................AACUUUUCUACAAUUCCAGUGGAU................... len:24 al:3
..................................................AACUUUUCUACAAcUCCAGU....................... len:20 al:2
..................................................AACUUUUCUACAAUUCCAGUG...................... len:21 al:55
..................................................AgCUUUUCUACAAUUCCAGUGG..................... len:22 al:1
..................................................AACUUUUCUACAAUcCCAGU....................... len:20 al:3
..................................................AACUUUUCUACAAUUCCAGa....................... len:20 al:3
..................................................AACUUUUCUACAAUUCCAGc....................... len:20 al:22
..................................................AACUUUUCUACAAUUCCAGUGGAUu.................. len:25 al:82
..................................................AACUUUUCUACAAUUCCAGg....................... len:20 al:2
..................................................AACUUUUCcACAAUUCCAGUGGA.................... len:23 al:1
..................................................AACUUUUCUACAAUUCCAaU....................... len:20 al:5
..................................................AACUUUUCUACAAUUCCAGU....................... len:20 al:476
..................................................AACUUUUCcACAAUUCCAGU....................... len:20 al:1
..................................................AACUUUUCUACAAUUCCAGUaGA.................... len:23 al:1
..................................................AACUUUUCUACAAUUCCAGUa...................... len:21 al:3
..................................................AACUcUUCUACAAUUCCAGU....................... len:20 al:2
..................................................AACUUUUCUACAAcUCCAGUGGA.................... len:23 al:2
..................................................gACUUUUCUACAAUUCCAGUGG..................... len:22 al:1
..................................................AACUUUUCUACAAUUCCAGUGGuU................... len:24 al:5
..................................................AACUUUUCUACAAUUCCAa........................ len:19 al:2
..................................................AACUUUUCUACAAUUCCAGUGGc.................... len:23 al:22
..................................................AACUUUUCUACAAUUCC.......................... len:17 al:16
..................................................AcCUUUUCUACAAUUCCAGUGG..................... len:22 al:1
..................................................AACUUUUCUACAAUUCCA......................... len:18 al:6
..................................................AACcUUUCUACAAUUCCAGUGGA.................... len:23 al:2
..................................................AACUUUUCUACAAUUCCAGUGGAUc.................. len:25 al:1
..................................................AACUUUUCUACAAUUCCAGUGGAa................... len:24 al:2
..................................................AACUUUUCUACAAUUCCAGUGGA.................... len:23 al:132
..................................................AACUUUUCUACAAUUCCAGUGG..................... len:22 al:190
..................................................AACUUUUCUACAAUcCCAGUG...................... len:21 al:2
..................................................AACUUUUCUACAAUUCCAGUGa..................... len:22 al:22
..................................................AACUUUUCUACAAUUCCAGUGGAUA.................. len:25 al:1
..................................................AACUUUUCUACAAUUCCAGUGc..................... len:22 al:3
..................................................AACUUUUCUACAAUUCCgGU....................... len:20 al:1
..................................................cACUUUUCUACAAUUCCAGUGG..................... len:22 al:2
..................................................AACUUUUCUACAAUUCCAGUGu..................... len:22 al:18
..................................................AACUcUUCUACAAUUCCAGUGGA.................... len:23 al:1
..................................................AACUUUUCUACAcUUCCAGU....................... len:20 al:1
..................................................AgCUUUUCUACAAUUCCAGU....................... len:20 al:6
..................................................cACUUUUCUACAAUUCCAGUGGA.................... len:23 al:1
..................................................AACUUUUCUACAAUUCCAGUGGg.................... len:23 al:3
...................................................ACUUUUCUACAAUUCCAGUGa..................... len:21 al:1
...................................................ACUUUUCUACAAUUCCAGUGGu.................... len:22 al:2
...................................................ACUUUUCUACAAUUCCAGUGG..................... len:21 al:1
...................................................ACUUUUCUACAAUUCCAGU....................... len:19 al:2
...................................................ACUUUUCUACAAUUCCAGUGGAUu.................. len:24 al:2
...................................................ACUUUUCUACAAUUCCAGUGu..................... len:21 al:1
....................................................CUUUUCUACAAUUCCAGUGu..................... len:20 al:1
....................................................CUUUUCUACAAUUCCAGUGGuU................... len:22 al:1
....................................................CUUUUCUACAAUUCCAGU....................... len:18 al:3
.....................................................cUUUCUACAAUUCCAGUGG..................... len:19 al:1
.....................................................UUUUCUACAAUUCCAGUGG..................... len:19 al:1