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___Sc0000003:10129512-10129606 minus
PDF file name: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/F-Ptua/output/04-Ptua-sRNA-discovery-ShortStack/ShortStack_out/strucVis/Cluster_1338.ps.pdf
Locus Name: Cluster_1338
UUGCUGUUUCAGCUGUAUAUCGAUGUACUUCAGAGCAAUUUUUUUUACAAAAAUUGCUCCGAAAUACAUCUAUGUAACGUUGAAAAUUUAUUGUA
......(((((((..(((((.((((((.(((.(((((((((((.....))))))))))).))).)))))).)))))..))))))).......... (-31.20)
...................cCGAUGUACUUCAGAGCAAUU....................................................... len:21 al:1
...................cCGAUGUACUUCAGAGCAAUUUUU.................................................... len:24 al:1
...................cCGAUGUACUUCAGAGCAAUUUUUU................................................... len:25 al:2
....................CGAUGUACUUCgGAGCA.......................................................... len:17 al:1
....................CGAUGUACUUCAGgGCAAUUUUU.................................................... len:23 al:4
....................CGAUGUACUUCAGAGCAA......................................................... len:18 al:43
....................CGAUGUACUUCAGAGCAAUUUUc.................................................... len:23 al:33
....................CGAUGUACUUCAGAGCAAUUUgU.................................................... len:23 al:13
....................CGAUGUACUUCAGAGCAAUUUUgU................................................... len:24 al:1
....................CGAUGUACUcCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGuAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUcCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCAAcUUUUU................................................... len:24 al:2
....................CGAcGUACUUCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUgCUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUUUaU................................................... len:24 al:1
....................CGAUaUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAcGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACcUCAGAGCAAUUUUU.................................................... len:23 al:4
....................CGAUGUACcUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUUCAGAGC........................................................... len:16 al:15
....................CGAUGUACcUCAGAGCAAUU....................................................... len:20 al:2
....................CGAUGUACUUCAGAGCAAUUUU..................................................... len:22 al:56
....................CGAaGUACUUCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUU....................................................... len:20 al:646
....................CGAUGUACUUCAGAGCAAUUUc..................................................... len:22 al:2
....................CGAUGUcCUUCAGAGCAAUUUUU.................................................... len:23 al:2
....................uGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:5
....................CGAUGUACUUCAGAGCAgUUUUU.................................................... len:23 al:4
....................CGAUGUACUUaAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUUUUg.................................................... len:23 al:1
....................uGAUGUACUUCAGAGCAA......................................................... len:18 al:1
....................CGAUGUACUUCAGAGCAAc........................................................ len:19 al:2
....................CaAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:5
....................CGAUGUACUUCAGAGCAAUUUUUg................................................... len:24 al:1
....................CGAUGUACUUCAGAGCAAUUUUUUUUACAAA............................................ len:31 al:3
....................uGAUGUACUUCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGu........................................................... len:16 al:1
....................aGAUGUACUUCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCA.......................................................... len:17 al:7
....................CGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:1298
....................CGAUGUACUUCgGAGCAA......................................................... len:18 al:1
....................CGAUGUACUUCcGAGCAAUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAGCAAUcUUU.................................................... len:23 al:1
....................CGAUGUAuUUCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGgGCAAUUUUUUU.................................................. len:25 al:1
....................CGAUGUACUUCAGAGCAAUUUaU.................................................... len:23 al:2
....................CGgUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:3
....................CGAUGUACUUCAGAGCAAcUUUU.................................................... len:23 al:3
....................CGAUGUACUUCAGgGCAAUU....................................................... len:20 al:2
....................CGAUGUACcUCAGAGCAA......................................................... len:18 al:1
....................CGcUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCgAUU....................................................... len:20 al:4
....................CGAUGUgCUUCAGAGCAAU........................................................ len:19 al:1
....................CGAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:388
....................CGAUGUACUUCAGcGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCAAUc....................................................... len:20 al:20
....................CcAUGUACUUCAGAGCA.......................................................... len:17 al:1
....................CGAUGUACUUCAGAGCAAUUUUa.................................................... len:23 al:5
....................CGAUGUACUUCAaAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCgAUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAGCAAUUUUUgU.................................................. len:25 al:3
....................CGAUGUACUUCAGAGCgAUUUUU.................................................... len:23 al:2
....................CGAUGUACUUCcGAGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUUUUUaU.................................................. len:25 al:3
....................CGAUGUACUUCAGAGCAAUUUUUUa.................................................. len:25 al:4
....................CaAUGUACUUCAGAGCAAU........................................................ len:19 al:1
....................CGAUGUACUUCAGAGCAAUUc...................................................... len:21 al:3
....................CGAUGUACUUCAGuGCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAU........................................................ len:19 al:45
....................CGAUGUACUUCAGAGCAAUUUUUUUU................................................. len:26 al:8
....................CGAUGUACUUCAGAGCAAUUUUUa................................................... len:24 al:87
....................CGAUGUACUUCAGAGCAAUUUUaUU.................................................. len:25 al:2
....................gGAUGUACUUCAGAGCAAUUUU..................................................... len:22 al:1
....................CGAUGUACUUCAGAaCAAUU....................................................... len:20 al:1
....................CaAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:2
....................CGAUGUACUUCgGAGCAAUU....................................................... len:20 al:3
....................CGAUGUACUUCAGAGCAAUUU...................................................... len:21 al:31
....................CGAUGUACUUCAGAGCcAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAUUUUUc................................................... len:24 al:10
....................CGAUGUACUUCAGAGCAAgU....................................................... len:20 al:5
....................CGAUGUACUUCgGAGCAAUUUUU.................................................... len:23 al:8
....................uGAUGUACUUCAGAGCAAUUUUUU................................................... len:24 al:1
....................CGAUGUACUcCAGAGCAAUUUUU.................................................... len:23 al:2
....................CGAUGUACUUCAGAGCAu......................................................... len:18 al:3
....................CGAUGUACUUCAGAGCAAUUUUUUc.................................................. len:25 al:1
....................CGAUGUACUUCAGAGCAAUUUUUUU.................................................. len:25 al:17
....................CGAcGUACUUCAGAGCAAUU....................................................... len:20 al:2
....................CGAUGUgCUUCAGAGCAAUUUUU.................................................... len:23 al:2
....................CGAUGUACUUCAGgGCAAUUUUUU................................................... len:24 al:2
....................CGgUGUACUUCAGAGCAAUU....................................................... len:20 al:3
....................CGAUGUACUUCgGAGCAAUUU...................................................... len:21 al:1
....................CGAUGUACUUCAGAaCAAUUUUU.................................................... len:23 al:1
....................CGAUGUACUUCAGAGCAAaU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCAg......................................................... len:18 al:1
....................gGAUGUACUUCAGAGCAAUUUUU.................................................... len:23 al:1
....................gGAUGUACUUCAGAGCAAUU....................................................... len:20 al:1
....................CGAUGUACUUCAGAGCAAUUUa..................................................... len:22 al:2
.....................GAUGUACUUCAGAGCAAUUUUU.................................................... len:22 al:4
.....................GAUGUACUUCAGAGCAAUUUUUU................................................... len:23 al:5
.....................GAUGUACUUCcGAGCAAUUUUU.................................................... len:22 al:1
.....................GAUGUACUUCAGAGCAAUU....................................................... len:19 al:4
.....................GAUGUACUUCAGAGCAAU........................................................ len:18 al:1
.....................GAUGUACUUCAGAGCAAUc....................................................... len:19 al:1
.......................UGUACUUCAGAGCAAUUUUU.................................................... len:20 al:2
........................................UUUUUUACAAAAAUUGCUCCGAAA............................... len:24 al:2
........................................UUUUUUACAAAAAUUGCUCCGAAAUACAUCU........................ len:31 al:2
.........................................UUUUUACAAAAAUUGCUCCGAAAU.............................. len:24 al:1
.........................................UUUUUACAAAAAUUGCUCCGAAAUACAUCU........................ len:30 al:1
..........................................UUUUACAAAAAUUGCUCCGAAAUACAUCU........................ len:29 al:2
...........................................UUUACAAAAAUUGCUCCGAAAUACAUCUAU...................... len:30 al:3
.................................................AAAAUUGCUCCGAAAUACAUCUAU...................... len:24 al:2
..................................................cAAUUGCUCCGAAAUACAUCU........................ len:21 al:4
..................................................AAAUUGCUCCGgAAUACAUCUAU...................... len:23 al:6
..................................................AAAUUGCUCCGAAAUACAUCUAg...................... len:23 al:6
..................................................AAAUUGCUCCGAAAUAuAUCUAU...................... len:23 al:2
..................................................AAAUUGCUCCGAAcUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUCUAa...................... len:23 al:4
..................................................AAAUUGCUCCGAAAUACAUCUA....................... len:22 al:122
..................................................AcAUUGCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAcACAUC......................... len:20 al:1
..................................................AAAUUGCcCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUcGCUCCGAAAUACAUCU........................ len:21 al:4
..................................................cAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:6
..................................................AAAUUGCUCCGAAAUgCA........................... len:18 al:1
..................................................AAAUUGCUCCGAAAUACAUCUg....................... len:22 al:2
..................................................AAAUUGCUCCGAAAUACAUCUgU...................... len:23 al:18
..................................................AAcUUGCUCCGAAAUACAU.......................... len:19 al:1
..................................................AAAUUGCUCCGAAAUACAUCa........................ len:21 al:37
..................................................AAAUcGCUCCGAAAUACAUCUA....................... len:22 al:1
..................................................AAAUUGCUCCGAAAUgCAUCUAU...................... len:23 al:9
..................................................AAAUUGCUCCGAAAUACAcCUAU...................... len:23 al:10
..................................................AAAUUGCUCCGAAAUACAUCUAUu..................... len:24 al:140
..................................................AAAUUGCUCuGAAAUACAUCU........................ len:21 al:1
..................................................gAAUUGCUCCGAAAUACAUCU........................ len:21 al:8
..................................................AAAUUGCcCCGAAAUACAUCUAU...................... len:23 al:4
..................................................AAAUUGCUCCGAAAUACAUCUAUG..................... len:24 al:1
..................................................AAcUUGCUCCGAAAUACAUCUAU...................... len:23 al:22
..................................................AAAUUGCUCCGAAAUACAc.......................... len:19 al:2
..................................................AAAUUGCUCCGAAAUACAUCc........................ len:21 al:102
..................................................AAAUUGCUCCGAAAUcCAUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGAgAUACAUCUAU...................... len:23 al:1
..................................................AAgUUGCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAcUGCUCCGAAAUACAUCU........................ len:21 al:2
..................................................AAAUUGCUCCGAAAUACcUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGAAAUACgU.......................... len:19 al:1
..................................................AAgUUGCUCCGAAAUACAUCUA....................... len:22 al:1
..................................................AAgUUGCUCCGAAAUACAUCUAU...................... len:23 al:5
..................................................AAAUUGCUCCGAAAUAuAUCU........................ len:21 al:2
..................................................AAAUUGCUCCGAAAUACA........................... len:18 al:25
..................................................AAAUUGCUCCGAAAc.............................. len:15 al:1
..................................................AgAUUGCUCCGAAAUACAUCUAU...................... len:23 al:9
..................................................AAAUUGCUCCGAAAUACAUC......................... len:20 al:53
..................................................AAAUUGCUCCaAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUCU........................ len:21 al:1627
..................................................AAAUUGCUCCGAAAU.............................. len:15 al:3
..................................................AgAUUGCUCCGAAAUACAUCU........................ len:21 al:6
..................................................AAAUUGCUCCGuAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUaU........................ len:21 al:4
..................................................AAAUUGCUCCGAAAUACcUCU........................ len:21 al:1
..................................................AAAUUGCUCuGAAAUACAUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:1837
..................................................gAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:3
..................................................AAAUUGCUCCGAAAUACAUCUAUuU.................... len:25 al:1
..................................................AAAUUGCUCCGAcAUACAUCU........................ len:21 al:2
..................................................AAAcUGCUCCGAAAUACAUCUAU...................... len:23 al:2
..................................................uAAUUGCUCCGAAAUACAUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGAAAUACAUCg........................ len:21 al:9
..................................................uAAUUGCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUCUAUc..................... len:24 al:4
..................................................AAAUUGCUCCGAAAUACAUuU........................ len:21 al:4
..................................................AAAUUGCUCCGAAAUACAUCUAUGU.................... len:25 al:2
..................................................AAAUUaCUCCGAAAUACAUCUAU...................... len:23 al:1
..................................................AAcUUGCUCCGAAAUACAUCU........................ len:21 al:8
..................................................AAAUUGCUCCGAgAUACAUCU........................ len:21 al:2
..................................................AcAUUGCUCCGAAAUACAUCUAU...................... len:23 al:3
..................................................AAAUUGCUCCGAAAcACAUCU........................ len:21 al:3
..................................................AAAUUGCUCCGcAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACgUCUAU...................... len:23 al:31
..................................................AAAUUuCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAcACAUCUAU...................... len:23 al:7
..................................................AAAUUGCUCCGAAAUA............................. len:16 al:1
..................................................AAAUUGCUCCGAAAUgCAUCU........................ len:21 al:4
..................................................AAAUUGCUCCGAAAUACAU.......................... len:19 al:21
..................................................AAAUUGCgCCGAAAUACAUCUAU...................... len:23 al:1
..................................................AAAUUGCUCCGAAAUACgUCU........................ len:21 al:5
..................................................AAAUUGCUCCGAAAUACAUCcAU...................... len:23 al:4
..................................................AAAUUGCUaCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUCUAUa..................... len:24 al:14
..................................................AAAUUGCaCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUCCGAAAUACAUgU........................ len:21 al:1
..................................................AAAUUGCUCCGAAcUACAUCUAU...................... len:23 al:2
..................................................AAAUUGCUCCGAAAUACAcCU........................ len:21 al:2
..................................................AAAUUGCUCCGcAAUACAUCUAU...................... len:23 al:1
..................................................AAAUUaCUCCGAAAUACAUCU........................ len:21 al:1
..................................................AAAUUGCUuCGAAAUACAUCU........................ len:21 al:2
..................................................AAAUUGCUCCGAAAUACAUCUAUaU.................... len:25 al:3
..................................................AAAUUGCUuCGAAAUACAUCUAU...................... len:23 al:5
..................................................AAAUUGCUCCGAAAUACAUCUAc...................... len:23 al:115
..................................................AAAUUGCUCCGAAgUACAUCU........................ len:21 al:2
..................................................AAAUUGuUCCGAAAUACAUCUAU...................... len:23 al:3
..................................................gAAUUGCUCCGAAAUACAUCUA....................... len:22 al:2
...................................................AAcUGCUCCGAAAUACAUCUAU...................... len:22 al:1
...................................................AAUUGCUCCGAAAUACAUCUAU...................... len:22 al:1
...................................................AAUUGCUCCGAAAUACAUCUAc...................... len:22 al:1
...................................................AAUUGCUCCGAAAUACAUCU........................ len:20 al:2
....................................................AUUGCUCCGAAAUACAUCU........................ len:19 al:27
....................................................AUUGCUCCGAAAUACAUCUAUu..................... len:22 al:5
....................................................AUUGCUCCGAAAcACAUCU........................ len:19 al:1
....................................................cUUGCUCCGAAAUACAUCU........................ len:19 al:1
....................................................cUUGCUCCGAAAUACAUCUAU...................... len:21 al:1
....................................................AUUGCUCCGAAAUACAUCUAU...................... len:21 al:13
....................................................AUUGCUCCGAAAUACAUCc........................ len:19 al:3
....................................................AUUGCUCCGAAAUACAUCUAc...................... len:21 al:2
....................................................AUUGCUCCGAAAUACAUCUA....................... len:20 al:1
.....................................................UUGCUCCGAAAUACAUCUAc...................... len:20 al:12
.....................................................UUGCUCCGAAAUACAUCUAa...................... len:20 al:1
.....................................................UUGCUCCGAAAUACAUCa........................ len:18 al:2
.....................................................UUGCcCCGAAAUACAUCUAU...................... len:20 al:1
.....................................................UUGCUCCGAAAUACAUCUAUu..................... len:21 al:4
.....................................................UUGCUCCGAAAUACAUCUAU...................... len:20 al:113
.....................................................UUGuUCCGAAAUACAUCU........................ len:18 al:1
.....................................................UUGCUCCGAgAUACAUCUAU...................... len:20 al:1
.....................................................UUGCUCCGAAAcACAUCUAU...................... len:20 al:1
.....................................................UUGCcCCGAAAUACAUCU........................ len:18 al:1
.....................................................UUGCUCCGAAAUACAUCU........................ len:18 al:65
.....................................................UUGCUCCGAAAUACAUCc........................ len:18 al:7
.....................................................cUGCUCCGAAAUACAUCU........................ len:18 al:2
.....................................................UUGCUCCGAAAUACA........................... len:15 al:1
.....................................................UUGCUCCGAAAUACAUCcAU...................... len:20 al:1
.....................................................UUGCUCCGAAAUACAUCUAUc..................... len:21 al:1
.....................................................UUGCUCCGAAAUACAUCUu....................... len:19 al:1