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___Sc0000016:7553282-7553379 plus
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_4438.ps.pdf
Locus Name: Cluster_4438
AGGGAGAAUAUUGUCUGGCAUAAGGUGAGCUGUGGGAACUCUUAUUAUUUAUGAUAUCAGUUCCACCAGCUCACCAAUAUGCCAGAUGAUAAUAUGCA
..(.(...((((((((((((((.(((((((((..((((((..(((((....)))))..))))))..)))))))))..))))))))))))))...).). (-47.40)
AGGGAGAAUAUUGUCUGGCgUA............................................................................ len:22 al:3
AGGGAGAAUAUUGUCUGGCAaA............................................................................ len:22 al:2
AGGGAGAAUAUUGUCUGGCAa............................................................................. len:21 al:2
.GGGAGAAUAUUGUCUGGCgUA............................................................................ len:21 al:6
.GGGAGAAUAUUGUCUGGCAaA............................................................................ len:21 al:1
.GGGAGAAUAUUGUCUGGC............................................................................... len:18 al:1
.GGGAGAAUAUUGUCUGGCAUA............................................................................ len:21 al:8
..GGAGAAUAUUGUCUGGCgU............................................................................. len:19 al:3
..GGAGAAUAUUGUCUGGCgUA............................................................................ len:20 al:6
...GAGAAUAUUGUCUGGCAaA............................................................................ len:19 al:1
...GAGAAUAUUGUCUGGCgUA............................................................................ len:19 al:6
...GAGAAUAUUGUCUGGCgU............................................................................. len:18 al:2
...GAGAAUAUUGUCUGGCAUA............................................................................ len:19 al:1
....AGAAUAUUGUCUGGCAUA............................................................................ len:18 al:1
....AGAAUAUUGUCUGGCgUA............................................................................ len:18 al:3
........UAUUGUCUGGCAUAAGGUGAGCa................................................................... len:23 al:1
..............CUGGCAUAAGGUGAGCUGUGuGA............................................................. len:23 al:1
....................cAAGGUGAGCUGUGGGAACUCUUA...................................................... len:24 al:1
......................AGGUGAGCUGUGGGAACUCUU....................................................... len:21 al:495
......................AaGUGAGCUGUGGGAACUC......................................................... len:19 al:1
......................AGGUGAGCUGUGGGAACUuU........................................................ len:20 al:2
......................AGGcGAGCUGUGGGAACUCUU....................................................... len:21 al:1
......................AGGUGAGCUGUGGGAACUCgU....................................................... len:21 al:18
......................AGGUGAGCUGUGGGAACUCUUAU..................................................... len:23 al:59
......................AGGUGAGCUGgGGGAACUCUUA...................................................... len:22 al:1
......................AGGUGAGCUGUGGGAACUCUUAUa.................................................... len:24 al:48
......................AGGUGAGCUGUGGGAACUCUaA...................................................... len:22 al:10
......................AGGUGAGCUGUGGGAACUCUgA...................................................... len:22 al:4
......................AGGUGgGCUGUGGGAACUCUU....................................................... len:21 al:2
......................AaGUGAGCUGUGGGAACUCUU....................................................... len:21 al:9
......................AGGUGAGCUGUGGGAA............................................................ len:16 al:1
......................AGGUGAGCUGUGGGAACUCUUc...................................................... len:22 al:4
......................AGGUGAGCUGUGGGAACUCg........................................................ len:20 al:10
......................AGGUGAGCUGUGGGAACUCUUAgU.................................................... len:24 al:1
......................AGGUGAGCUGUGGGAACUCUUAUU.................................................... len:24 al:16
......................AGGUGAGCUGUGGGAACUCUUAg..................................................... len:23 al:3
......................AGGUGAGCUGUGGGAACUCUUu...................................................... len:22 al:16
......................AGGUGAGCUGUGGGgACUCUUA...................................................... len:22 al:8
......................AGGUGAGCUGUGGGAACUCUUAUUA................................................... len:25 al:1
......................AGGUGAGCUGcGGGAACUCUU....................................................... len:21 al:1
......................AGGUGAGCUGUGGGgACUCUU....................................................... len:21 al:7
......................AGGUGAGCUGUGGGAACUCcUAUU.................................................... len:24 al:1
......................AGGUGAGCUGUGGGAACUCU........................................................ len:20 al:68
......................AGGUGAGCUGUGGGAACUu......................................................... len:19 al:5
......................AGGUGAGCUGUGGGAACUaU........................................................ len:20 al:2
......................AGuUGAGCUGUGGGAACUCUUA...................................................... len:22 al:1
......................AGGUGAGCUGUGGGAACUaUUA...................................................... len:22 al:1
......................cGGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:35
......................AGGUGAGCUGUGGGAACUCUUAaUA................................................... len:25 al:7
......................AGGUGAGCUGUGGGAACUCUUAUUAU.................................................. len:26 al:1
......................cGGUGAGCUGUGGGAACUCUU....................................................... len:21 al:5
......................AGGUGgGCUGUGGGAACUCUUA...................................................... len:22 al:7
......................AGGUGAGCUGUGGGAACUCcUA...................................................... len:22 al:2
......................AGGUGAGCUGUGGGAACcCUUA...................................................... len:22 al:8
......................cGGUGAGCUGUGGGAACUCU........................................................ len:20 al:3
......................AGGcGAGCUGUGGGAACUCU........................................................ len:20 al:1
......................AGGUGAGCUGUGGGAACUCcU....................................................... len:21 al:8
......................uGGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:5
......................AGGUaAGCUGUGGGAACU.......................................................... len:18 al:1
......................AGGUGAGCUGUGGGAACUCUUAaUAU.................................................. len:26 al:2
......................gGGUGAGCUGUGGGAACUCUU....................................................... len:21 al:2
......................AGGUGAGCcGUGGGAACU.......................................................... len:18 al:1
......................AGGUGAGCUGUGGGAACUC......................................................... len:19 al:19
......................AGGUGAGCUGUGGGAACg.......................................................... len:18 al:7
......................AGGUGAGCUGUGGGAACUCUUAaU.................................................... len:24 al:4
......................AGGUGAGCUGUGGGAACUCUUAUUu................................................... len:25 al:1
......................AGGUGAGCUGUGGGAACUCUc....................................................... len:21 al:72
......................AcGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:1
......................AGGUGAGCUGUGGGAACU.......................................................... len:18 al:34
......................AGGUGAGCUaUGGGAACUCUUA...................................................... len:22 al:2
......................AGGUGAGCUGUGGGgACUCU........................................................ len:20 al:1
......................AGGUGAGCUGUaGGAACUCUUA...................................................... len:22 al:1
......................AGGUGAGCUGcGGGAACUCUUA...................................................... len:22 al:4
......................AGGUGAGCUGUGGGAgCU.......................................................... len:18 al:1
......................gGGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:14
......................AGGUGAGCUGUGGGAACUCUUAa..................................................... len:23 al:18
......................AGGcGAGCUGUGGGAACUCUUA...................................................... len:22 al:2
......................AGGUGAGCUGUGGGAACUCUUAc..................................................... len:23 al:9
......................AGGUGAGCaGUGGGAACUC......................................................... len:19 al:1
......................AGGUGAGCUGgGGGAACUCUUAUU.................................................... len:24 al:1
......................AGGUGAGCUGUGGGAACUCa........................................................ len:20 al:28
......................AGGUGAGCUGUGGGgACUCUUAU..................................................... len:23 al:1
......................AGGUGAGCUGUGaGAACUCUUA...................................................... len:22 al:4
......................AGGUGAGCUGUGGaAACUCUUA...................................................... len:22 al:2
......................AGGUGAGCcGUGGGAACUCUU....................................................... len:21 al:1
......................AGGUGAGCUGUGGGAACc.......................................................... len:18 al:10
......................AuGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:1
......................AGGUGAGCUuUGGGAACUCUU....................................................... len:21 al:1
......................AGGUGAGCUGUGGGAgCUCUUA...................................................... len:22 al:10
......................AGGUGAGCUGUGGGAACa.......................................................... len:18 al:6
......................AGGUGAGCUGUGGGAACUCUUAaUAUUU................................................ len:28 al:1
......................AGGgGAGCUGUGGGAACUCUU....................................................... len:21 al:2
......................AGGUGAGCUGUGGGAACgCUUA...................................................... len:22 al:1
......................AGGUaAGCUGUGGGAACUCUUA...................................................... len:22 al:1
......................AGGUGAGCaGUGGGAACUCUUA...................................................... len:22 al:2
......................AGGUGAGCUGUGGGAACUCc........................................................ len:20 al:16
......................AGGUGAGCUGUGGGAACUCUUg...................................................... len:22 al:9
......................AaGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:29
......................AGGUGAGuUGUGGGAACUCUUA...................................................... len:22 al:2
......................AGGUGAGCUGUGGGAACaCUUA...................................................... len:22 al:1
......................AGGUGAGCUGUGGGAACUCUa....................................................... len:21 al:46
......................AGGUGAGCUGUGGGAACUCaUA...................................................... len:22 al:4
......................AGGUGAGCUGUGGGAACUa......................................................... len:19 al:2
......................AGGUGAGCUGUGGGAACUCaU....................................................... len:21 al:14
......................AGGUGAGCUGUGGGAAuUCUUA...................................................... len:22 al:2
......................AGGUGAGCUGUGGGAACUCUcA...................................................... len:22 al:4
......................AGGUGAGCUGUGGGAACgCUU....................................................... len:21 al:7
......................AGGUGAGCUGUGGGAACcCUU....................................................... len:21 al:3
......................AGGUGAGCUGUGGGAACUCUUuU..................................................... len:23 al:1
......................uGGUGAGCUGUGGGAACUCUU....................................................... len:21 al:3
......................AGGUGAGCUGUGGGAACUCUUAUaA................................................... len:25 al:5
......................AGGUGAGCUGUGGGAACUCUUAUUc................................................... len:25 al:1
......................AGGUGAGCUGUGGGAACUCUUA...................................................... len:22 al:2482
......................AGGUGAGCUGUGGGAACUCUUAUc.................................................... len:24 al:3
......................AGGUGAGCUGUGGaAACUCUU....................................................... len:21 al:1
......................AGGUGAGCUGUGGGAACUuUUA...................................................... len:22 al:1
......................AGGUGAGCUGUuGGAACUCU........................................................ len:20 al:1
......................AGGUGAGCcGUGGGAACUCUUA...................................................... len:22 al:6
......................AGGUGAGCUGUGGGAgCUCUU....................................................... len:21 al:3
......................AGGUGAGCUGUGGGAACUCgUAU..................................................... len:23 al:1
......................AGGUGAGCUGUGGGAACUCUg....................................................... len:21 al:16
.......................GGUGAGCUGUGGGAACUCa........................................................ len:19 al:1
.......................GGUGAGCUGUGGGAACUCUUA...................................................... len:21 al:21
.......................GGUGAGCUGUGGGAACUCUUAUa.................................................... len:23 al:1
.......................GGUGAGCUGUGGGAACUa......................................................... len:18 al:1
.......................GGUGAGCUGUGGGAACUCUc....................................................... len:20 al:2
.......................GGUGAGCUGUGGGAACUCUUAUU.................................................... len:23 al:1
.......................GGUGAGCUGUGGGAACUCUU....................................................... len:20 al:1
.......................uGUGAGCUGUGGGAACUCUU....................................................... len:20 al:1
.......................GGUGAGCUGUGGGAACUCUa....................................................... len:20 al:3
.......................aGUGAGCUGUGGGAACUCUUA...................................................... len:21 al:1
.......................GGUGAGCUGUGGGAACUC......................................................... len:18 al:1
.......................GGUGAGCcGUGGGAACUCUUA...................................................... len:21 al:1
.......................GGUGAGCUGUGGGAACUCU........................................................ len:19 al:3
........................GUGAGCUGUGGGAACUCUUA...................................................... len:20 al:7
........................uUGAGCUGUGGGAACUCUU....................................................... len:19 al:1
........................GUGAGCUGUGGGAACUCUa....................................................... len:19 al:1
.........................UGAGCUGUGGGAACUCcUAUUA................................................... len:22 al:1
.........................UGAGCUGUGGGgACUCUUA...................................................... len:19 al:1
.........................UGAGCUGUGGGAACUCUUA...................................................... len:19 al:5
.........................UGAGCUGUGGGAACUCUUAUU.................................................... len:21 al:1
...........................AGCUGUGGGAACUCUUuU..................................................... len:18 al:1
............................................UUAUUUAUGAUAUCAGUUCCACCAGCUCA......................... len:29 al:1
............................................UUAUUUAUGAUAUCAGUUCCACCAGCUCACC....................... len:31 al:2
............................................UUAUUUAUGAUAUCAGUUCCACa............................... len:23 al:1
........................................................UCAGUUCCACCAGCUCAgC....................... len:19 al:5
........................................................cCAGUUCCACCAGCUCACCAAU.................... len:22 al:3
........................................................UCAGUUCCACCAGCUCAgCAA..................... len:21 al:2
........................................................UCAGUUCCACCAGCUCACCAg..................... len:21 al:1
........................................................UCAGUUCCACCAGCUCACCAA..................... len:21 al:21
........................................................UCAGUUCCACCAGCUCAgCAAU.................... len:22 al:38
........................................................UCAGUUCCACCAGCUCAgCAAUA................... len:23 al:2
........................................................UCAGUUCCACCAGCUCACCg...................... len:20 al:7
........................................................UCAGUUCCACCAGCUCACCAAUu................... len:23 al:94
........................................................UCAGUUCCACCAGCUCACCAuUA................... len:23 al:1
........................................................aCAGUUCCACCAGCUCACCAAU.................... len:22 al:1
........................................................UCAGUUCCACCAuCUCACCA...................... len:20 al:1
........................................................UCAGUUCCACCAGCUCAgCA...................... len:20 al:11
........................................................UCAGUUCCACCAGCUCACCAAUuU.................. len:24 al:1
........................................................UCAGUUCCACCAuCUCACCAAU.................... len:22 al:21
........................................................UCAGUUCCACCAGCUCACa....................... len:19 al:1
........................................................UCAGUUCCACCAGCUCACCAgU.................... len:22 al:9
........................................................UCAGUUCCACCAGCUCACCAAU.................... len:22 al:346
........................................................UCAGUUCCACCAGCUCACC....................... len:19 al:13
........................................................UCAGUUCCACCAGCUCACCAAcA................... len:23 al:2
........................................................UCAGUUCCACCAGCUCACCA...................... len:20 al:46
........................................................UCAGUUCCACCAGCUCACCAAUAU.................. len:24 al:10
........................................................cCAGUUCCACCAGCUCACCAAUA................... len:23 al:2
........................................................UCAGUUCCACCAGCUCACCAAc.................... len:22 al:59
........................................................UCAGUUCCACCAGCUCACCAAUc................... len:23 al:13
........................................................aCAGUUCCACCAGCUCACCAAUA................... len:23 al:1
........................................................UCAGUUCCACCAGCUCACCAAa.................... len:22 al:13
........................................................UCAGUUCCACCAGCUCACCAAg.................... len:22 al:11
........................................................UCAGUUCCACCAGCUCACCAAUA................... len:23 al:310
........................................................UCAGUUCCACCAGCUCACCAAUg................... len:23 al:2
............................................................UUCCACCAGCUCACCAAUA................... len:19 al:2
............................................................UUCCACCAGCUCACCAAU.................... len:18 al:1