Genome: /home/shared/8TB_HDD_02/shedurkin/deep-dive-expression/F-Ptuh/data/Pocillopora_meandrina_HIv1.assembly.fa
Alignments: /home/shared/8TB_HDD_02/shedurkin/deep-dive-expression/F-Ptuh/output/05-Ptuh-sRNA-ShortStack_4.1.0/ShortStack_out/merged_alignments.bam
Location: Pocillopora_meandrina_HIv1___Sc0000003:10129512-10129606 minus
PDF file name: /home/shared/8TB_HDD_02/shedurkin/deep-dive-expression/F-Ptuh/output/05-Ptuh-sRNA-ShortStack_4.1.0/ShortStack_out/strucVis/Cluster_1289.ps.pdf
Locus Name: Cluster_1289
UUGCUGUUUCAGCUGUAUAUCGAUGUACUUCAGAGCAAUUUUUUUUACAAAAAUUGCUCCGAAAUACAUCUAUGUAACGUUGAAAAUUUAUUGUA
......(((((((..(((((.((((((.(((.(((((((((((.....))))))))))).))).)))))).)))))..))))))).......... (-31.20)
........UCAGCUGUAUAUCGAcGUAC................................................................... len:20 al:1
...................cCGAUGUACUUCAGAGCAAUUUUU.................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUg...................................................... len:21 al:2
....................CGAUGUACUUCAGAGCAAUc....................................................... len:20 al:11
....................CGAUGUACUUCAGAGCuAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUUUUc................................................... len:24 al:128
....................CGAUGUgCUUCAGAGCAAUUUUU.................................................... len:23 al:10
....................CGAUGUACUcCAGAGCAAUUUUU.................................................... len:23 al:5
....................CGAUGUACUUCAGAGaAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCgAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGuAAUUUUUU................................................... len:24 al:2
....................CGgUGUACUUCAGAGCAAUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGuGCAAUUUUU.................................................... len:23 al:2
....................CGAUGUACUUCAGAGCgAU........................................................ len:19 al:1
....................CGAUGUACUUCAGAGCA.......................................................... len:17 al:1
....................CGAUGUACUUCAGAGCAAUa....................................................... len:20 al:2
....................CGAUGUACUUCAGAGCAAUUUUUUU.................................................. len:25 al:47
....................CGAUGUAaUUCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCgGAGCAAUUUUU.................................................... len:23 al:7
....................CGAUGUACUUCAGAGCAgUUUUUU................................................... len:24 al:2
....................CGAUGUACUUCgGAGCAAUUUUUU................................................... len:24 al:6
....................CGAUGUACUUCAGAGCAAUUUUcU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUUUUUUa................................................. len:26 al:1
....................CGAUGUACUUCAGAGCAAUUUUgU................................................... len:24 al:13
....................CGAUGUACUUCAGgGCAAUUUUU.................................................... len:23 al:14
....................CaAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:14
....................CGAUGUACUUCAGAGCAAUcUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAGCAAUUUcU.................................................... len:23 al:3
....................CGAUGUACUUCAGAGCAAUU....................................................... len:20 al:94
....................CGAUGUACUUCAGAGCAAUUUUUUc.................................................. len:25 al:2
....................CGAUGUACUUCAGAGCAuUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCgAUUUUUU................................................... len:24 al:2
....................CGAUGUACUUCAGAGCAAUUUUUgU.................................................. len:25 al:2
....................CGAUGUgCUUCAGAGCAAUUUUUU................................................... len:24 al:6
....................CGAUGUACUUCAGAGCAAUUUUUa................................................... len:24 al:356
....................CGgUGUACUUCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCAAUUgUU.................................................... len:23 al:2
....................CGAUGUACUUCAGAGCAAUUUUUaU.................................................. len:25 al:44
....................CGAUGUACUUCAGAGCAAUUUUa.................................................... len:23 al:39
....................CGAUGUACUUCAGAaCAAUUUUU.................................................... len:23 al:3
....................CGAUGUACUUCAGAGCAAUUUU..................................................... len:22 al:123
....................uGAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:3
....................CuAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CaAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:19
....................CGAUGUACUUCAGAGCAAUUUUUUUU................................................. len:26 al:1
....................CGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:2869
....................CGAUGUACUUCAGAGCAAUcUUU.................................................... len:23 al:2
....................aGAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAgU....................................................... len:20 al:1
....................CuAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:2
....................CGAUGcACUUCAGAGCAAUUUU..................................................... len:22 al:1
....................aGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:7
....................CaAUGUACUUCAGAGCAAUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAGCAAUUgU..................................................... len:22 al:1
....................CGAUGUACcUCAGAGCAAUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAGCAA......................................................... len:18 al:5
....................CGAUGUACUUCAGAGCAAUUUUg.................................................... len:23 al:6
....................CGuUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUUUUUUa.................................................. len:25 al:13
....................gGAUGUACUUCAGAGCAAU........................................................ len:19 al:1
....................CGAUGUACUUCAGAGCAuUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAGCAAUUcUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUUc..................................................... len:22 al:11
....................CGAUGUACUUCAGAGCAAc........................................................ len:19 al:1
....................CGAUGUACUUCAGAGCAAUUUa..................................................... len:22 al:3
....................CGAUGUACUaCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUUUUc.................................................... len:23 al:308
....................gGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:10
....................CGAUGUACUUCAGAGCAAUUUUUUUUACAAA............................................ len:31 al:2
....................CGAUGUACUUCAGAGCAAU........................................................ len:19 al:24
....................CGgUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:6
....................CGAUGUACUUCAGgGCAAUUUUUU................................................... len:24 al:11
....................gGAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUU...................................................... len:21 al:44
....................CGAUGUACUUCAGAGCAAUUUUaU................................................... len:24 al:5
....................CGAUGUACUUCAGAGCAAUUgUUU................................................... len:24 al:1
....................CGAUGUACcUCAGAGCAAUUUUU.................................................... len:23 al:6
....................CGAcGUACUUCAGAGCAAUUUUUU................................................... len:24 al:6
....................CGAUGUACUUCAGAGCAAUUUUUg................................................... len:24 al:2
....................CGAUGUACUUaAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCgAUUU...................................................... len:21 al:1
....................CGAcGUACUUCAGAGCAAUUUUU.................................................... len:23 al:12
....................CGAgGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAaGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCgGAGCAAUUUUUUU.................................................. len:25 al:1
....................CGAUGUACUUCAGAGCAAUUUUUUUUACA.............................................. len:29 al:1
....................uGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:22
....................CGAUGUACUUCAGAGCAAUUUUgUU.................................................. len:25 al:1
....................CGgUGUACUUCAGAGCAAUUU...................................................... len:21 al:2
....................CGAUGUACcUCAGAGCAAUUUUUU................................................... len:24 al:5
....................CGAUGUACUUCAGAGCAAUUUgU.................................................... len:23 al:62
....................CGAUGUACUUCAGAGCAgUUUUU.................................................... len:23 al:5
....................CGAUGUACUUCAGAGCAAcUUUU.................................................... len:23 al:3
....................CGgUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:15
....................CGAUGUACUUCAGAGCAAUg....................................................... len:20 al:1
....................gGAUGUACUUCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCAAUgUUU.................................................... len:23 al:2
....................CGAUGUACUUCAGAGCAAcUUUUU................................................... len:24 al:4
....................CGAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1118
....................CGAUaUACUUCAGAGCAAUUUUU.................................................... len:23 al:3
....................CGAUGcACUUCAGAGCAAUUUUU.................................................... len:23 al:6
....................CGAUGUACUUCAGAGCAAUUUaU.................................................... len:23 al:3
....................CGAUGUACUUCcGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUUUUUaU................................................. len:26 al:4
....................CGAUGUACUUuAGAGCAAUUUUU.................................................... len:23 al:10
....................CGAUGUACUUCAGAGCgAUUUUU.................................................... len:23 al:5
....................CGAUGUACUUCAGAGCAAUUc...................................................... len:21 al:7
....................CGAUGUACgUCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUUcUU.................................................... len:23 al:4
....................CGAUGUACUcCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGuGCAAUUUUUU................................................... len:24 al:1
.....................GAUGUACUUCAGAGCAAUUUUU.................................................... len:22 al:8
.....................GAUGUACUUCAGAGCAAUUU...................................................... len:20 al:1
.....................GAcGUACUUCAGAGCAAUUUUUU................................................... len:23 al:2
.....................GAUGUACUUCAGAGCAAUUUUUUa.................................................. len:24 al:1
.....................GAUGUACUUCAGAGCAAUUUUUc................................................... len:23 al:2
.....................GAUGUACUUCAGAGCAAUc....................................................... len:19 al:1
..................................................AAAUUGCUCCGAAAUACAUCg........................ len:21 al:195
..................................................AgAUUGCUCCGAAAUACAUCUAU...................... len:23 al:1
..................................................AAAUUGaUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGgUCCGAAAUACAUCUAU...................... len:23 al:1
..................................................AAgUUGCUCCGAAAUACAUCU........................ len:21 al:9
..................................................AAuUUGCUCCGAAAUACAUCU........................ len:21 al:2
..................................................AAAUcGCUCCGAAAUACAUCU........................ len:21 al:5
..................................................AAAUUGCUCCGAAAUACAUCcAU...................... len:23 al:1
..................................................AAAUUGuUCCGAAAUACAUCU........................ len:21 al:3
..................................................AAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:1134
..................................................AAAUUGCUCCGAAAUuCAUCUAU...................... len:23 al:1
..................................................AAAUUGCUuCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUCa........................ len:21 al:742
..................................................AuAUUGCUCCGAAAUACAUCU........................ len:21 al:2
..................................................AAAUUGCUCCGAAAUACAcCUAU...................... len:23 al:4
..................................................AAAUUGCUCCGAAAUgCAUCU........................ len:21 al:3
..................................................AcAUUGCUCCGAAAUACAUCU........................ len:21 al:4
..................................................AAAUUGCUCCGAAAUACAUCUA....................... len:22 al:75
..................................................AAAUUGCUCCGgAAUACAUCU........................ len:21 al:8
..................................................uAAUUGCUCCGAAAUACAUCU........................ len:21 al:4
..................................................AAAUUGCUCCGAAgUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACgUCU........................ len:21 al:14
..................................................AAAUUGCUCCGAAAUACAa.......................... len:19 al:1
..................................................AAcUUGCUCCGAAAUACAUCUAU...................... len:23 al:29
..................................................AAAUUGCUCCGAAAUAuAUCU........................ len:21 al:2
..................................................AAAUUGCUCCGAAAUACgUC......................... len:20 al:2
..................................................AAAUUGCUCCGAAAUACAgCU........................ len:21 al:3
..................................................AAAUUGCcCCGAAAUACAUCUAU...................... len:23 al:3
..................................................AAAUUGCUCCGAAAUACAUCUgU...................... len:23 al:21
..................................................AAAUUGCUCCGAAAUACAUCUAa...................... len:23 al:46
..................................................AAAUaGCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAgUGCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUCUcU...................... len:23 al:2
..................................................AAAUUGCUCCGAAAUACg........................... len:18 al:1
..................................................AAcUUGCUCCGAAAUACAUCU........................ len:21 al:40
..................................................AAAUUGCUCCGAAAUACAUCUAcG..................... len:24 al:2
..................................................AAAUUGCUCCGAAAUACAUCUAc...................... len:23 al:198
..................................................AcAUUGCUCCGAAAUACAUCUA....................... len:22 al:1
..................................................AAAUUGCUCCGAAAUACAUuU........................ len:21 al:3
..................................................AAAUUGCUCCGgAAUACAUCUAU...................... len:23 al:4
..................................................AAAUUGCUCCGAAAUACAcCU........................ len:21 al:5
..................................................AAAUUGCUCCGAAAUACAUCUAUu..................... len:24 al:40
..................................................AAAUUGCUaCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACgUCUAU...................... len:23 al:10
..................................................uAAUUGCUCCGAAAUACAUCUA....................... len:22 al:1
..................................................AAAcUGCUCCGAAAUACAUCU........................ len:21 al:5
..................................................AcAUUGCUCCGAAAUACAUCUAU...................... len:23 al:2
..................................................AAAcUGCUCCGAAAUACAUCUAU...................... len:23 al:6
..................................................AAAUUGCUCCGAAAUAuAUCUAU...................... len:23 al:2
..................................................AAAUUGCUCCGAAAUAaAUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGAAAUACAUCUAUc..................... len:24 al:8
..................................................cAAUUGCUCCGAAAUACAUCU........................ len:21 al:19
..................................................AAAUUGCUCCGAAAUACAUCc........................ len:21 al:537
..................................................AAAUUGCUCCGAAAUACAU.......................... len:19 al:5
..................................................AAAUUGCUCCGAAAUgCAUCUAU...................... len:23 al:2
..................................................AAcUUGCUCCGAAAUACAUCUA....................... len:22 al:4
..................................................AAAUcGCUCCGAAAUACAUCUAU...................... len:23 al:3
..................................................AAgUUGCUCCGAAAUACAUCUAU...................... len:23 al:3
..................................................AAAUUGCUCCGAAAcACAUCU........................ len:21 al:4
..................................................AAAUUGCUCCGAAAUACcUCU........................ len:21 al:2
..................................................uAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:2
..................................................AAAUUGCUCCGAAgUACAUCUAU...................... len:23 al:6
..................................................AAAaUGCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUaCUCCGAAAUACAUCUAU...................... len:23 al:2
..................................................AAAUUGCUCCGAAAcACAUCUAU...................... len:23 al:8
..................................................AAAUUGCUCCGAAAUACAUaU........................ len:21 al:8
..................................................AAAUUGCUCCGAAgUACAUCUA....................... len:22 al:1
..................................................AAAUUGCUCCGAAAUACAUCUAUa..................... len:24 al:11
..................................................gAAUUGCUCCGAAAUACAUCU........................ len:21 al:12
..................................................AAAUUGCUCCGAAAUACAUCU........................ len:21 al:2021
..................................................AAAUUGCUCCGAAAUACAUCUAg...................... len:23 al:27
..................................................AAAUUuCUCCGAAAUACAUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGuAAUACAUCUAU...................... len:23 al:3
..................................................cAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:6
..................................................AAAUUGCUCCGAAAUACAUC......................... len:20 al:6
..................................................AAAUUGCUCCGAgAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUa......................... len:20 al:1
..................................................AAAUUGCUCuGAAAUACAUCUAU...................... len:23 al:3
..................................................AgAUUGCUCCGAAAUACAUCU........................ len:21 al:11
..................................................AAAUUGCUCCGAAAUACAc.......................... len:19 al:1
..................................................AAAUUGuUCCGAAAUACAUCUAU...................... len:23 al:2
..................................................AAAUUGCUCCGAAAUACAaCU........................ len:21 al:1
..................................................AAAUUGCaCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACA........................... len:18 al:5
..................................................gAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:5
..................................................AAAUUGCcCCGAAAUACAUCU........................ len:21 al:9
..................................................AAAUUGCUCuGAAAUACAUCU........................ len:21 al:3
...................................................AAaUGCUCCGAAAUACAUCU........................ len:20 al:1
...................................................AAUUGCUCCGAAAUACAUCc........................ len:20 al:3
...................................................AAUUGCUCCGAAAUACAUCU........................ len:20 al:1
...................................................AAUUGCUCCGAAAUACgUCU........................ len:20 al:1
...................................................AAUUGCUCCGAAAUACAUCUAc...................... len:22 al:3
...................................................AAUUGCUCCGAAAUACAUCUAU...................... len:22 al:2
....................................................AUUGCUCCGAAAUACAUCUAc...................... len:21 al:2
....................................................AUUGCUCCGAAAUACAUCU........................ len:19 al:16
....................................................AUUGCUCCGAAAUACAUCa........................ len:19 al:9
....................................................AUUGCUCCGAAAUACAUCUAU...................... len:21 al:9
....................................................AUUGCUCCGAAAUACAUCc........................ len:19 al:5
.....................................................UUGCUCCGAAAUACAUuU........................ len:18 al:1
.....................................................UcGCUCCGAAAUACAUCUAU...................... len:20 al:1
.....................................................UUGCUCCGAAAUACAUCUAU...................... len:20 al:29
.....................................................UUGCUCCGAAAUACAUCUA....................... len:19 al:1
.....................................................UcGCUCCGAAAUACAUCU........................ len:18 al:1
.....................................................UUGCUCCGAAAUACAUCUAa...................... len:20 al:3
.....................................................aUGCUCCGAAAUACAUCUAU...................... len:20 al:1
.....................................................UUGCUCCGAAAUACAUCUAc...................... len:20 al:2
.....................................................UUGCUCCGAAAUACAUCUAUu..................... len:21 al:2
.....................................................UUGCUCCGAAAUACAUCc........................ len:18 al:21
.....................................................UUGCUCCGAAAUACAUCg........................ len:18 al:12
.....................................................UUGCUCCGAAAUACAUCUAUc..................... len:21 al:1
.....................................................UUGCUCCGAAAUACAUgU........................ len:18 al:1
.....................................................UUGCUCCGAAAUACAUCa........................ len:18 al:34
.....................................................UUGCUCCGAAAUACAUCU........................ len:18 al:83
......................................................UGCUCCGAAAUACAUCUAU...................... len:19 al:1