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___Sc0000024:4808666-4808760 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_5612.ps.pdf
Locus Name: Cluster_5612
UUUGUACUUACCCCUGCCGUCCAGAACCCAAGAAUCUCGAAGGUUUUUAAAACCUUCAAGGUUCUGGGGUUAUACGGCUUGGGUACAAACACUCU
..(((...(((((..(((((....(((((.(((((((.((((((((...)))))))).))))))).)))))..)))))..)))))...))).... (-42.70)
.UUGUACUUACCCCUGCCGUCC......................................................................... len:21 al:1
.....................CAGAACCCAAGAAUCUCGA....................................................... len:19 al:4
.....................CAGAACCCAAGAAUCUCGg....................................................... len:19 al:1
.....................CAGAACCCAAGAAUCUCGAA...................................................... len:20 al:2
.....................CAGAACCCAAGAAUCcCGAAGG.................................................... len:22 al:1
.....................CAGAACCCAAGAAUCUCGAAGG.................................................... len:22 al:1
.....................CAGAACCCAAGAAUCUCGAAG..................................................... len:21 al:3
.....................CAGAACCCAAGAAUCUCGAAGu.................................................... len:22 al:1
......................AGAACCCAAGAAUCUCGAgGG.................................................... len:21 al:1
......................AGAACuCAAGAAUCUCGAAGG.................................................... len:21 al:1
......................AGAACCCgAGAAUCUCGAAG..................................................... len:20 al:2
......................cGAACCCAAGAAUCUCGAAG..................................................... len:20 al:6
......................AGAACCCAAGAAUCUCcA....................................................... len:18 al:3
......................AGAACCCAAGAAUCUCGAAGGg................................................... len:22 al:1
......................AGAACCCAAGAAUCUCGAAa..................................................... len:20 al:105
......................AGAACCCAAGAAUCUaGAAG..................................................... len:20 al:1
......................AGAACCuAAGAAUCUCGA....................................................... len:18 al:1
......................gGAACCCAAGAAUCUCGAAG..................................................... len:20 al:7
......................AGAACCCAAGAAUCUCGAAaG.................................................... len:21 al:1
......................AGAACCCAAGAAcCUCGA....................................................... len:18 al:3
......................AGAACCCAAGAAUCUCGAAG..................................................... len:20 al:823
......................cGAACCCAAGAAUCUCGAA...................................................... len:19 al:8
......................AGAACCCAAaAAUCUCGAA...................................................... len:19 al:1
......................AGAACCCAAGAAUCUCaAAGG.................................................... len:21 al:1
......................AGAACCCAAGAAUCUCGAAGGa................................................... len:22 al:2
......................AGgACCCAAGAAUCUCGAAGG.................................................... len:21 al:1
......................AGAACCCAAGAAUCUCGAuG..................................................... len:20 al:1
......................AGAACCCAAGgAUCUCGAAGG.................................................... len:21 al:2
......................AGAACCCAAGAAUCUCGAc...................................................... len:19 al:2
......................AGAACCCAAGAAUCUCGAAGGUUa................................................. len:24 al:1
......................AGAACCCgAGAAUCUCGAAGG.................................................... len:21 al:1
......................AGAACCCAAGAAUCgCGAA...................................................... len:19 al:1
......................AGAACCCAAGAAUCcCGAAGG.................................................... len:21 al:4
......................AGAACCCAAGAgUCUCGAA...................................................... len:19 al:3
......................gGAACCCAAGAAUCUCGAA...................................................... len:19 al:10
......................AGAACCCAAGAAUCUCGAAGc.................................................... len:21 al:2
......................AGAACCCAAGAAUuUCGAAG..................................................... len:20 al:1
......................AGAACCCAAGAAUCUCGAAc..................................................... len:20 al:24
......................AGAACCCAAGgAUCUCGAA...................................................... len:19 al:2
......................AaAACCCAAGAAUCUCGAA...................................................... len:19 al:5
......................AaAACCCAAGAAUCUCGAAGG.................................................... len:21 al:2
......................AGAACCCAAGAAUCUCGAAGa.................................................... len:21 al:77
......................AGAuCCCAAGAAUCUCGAAGG.................................................... len:21 al:1
......................AGAACCCAAGAAUCUCGAcG..................................................... len:20 al:15
......................AGAACCCAAGAAUCUCGA....................................................... len:18 al:894
......................AGAACCCAAGAAUCUuGA....................................................... len:18 al:1
......................AGAACuCAAGAAUCUCGAA...................................................... len:19 al:1
......................uGAACCCAAGAAUCUCGAAGG.................................................... len:21 al:2
......................AGAAuCCAAGAAUCUCGAAG..................................................... len:20 al:1
......................AGAACCCAAaAAUCUCGA....................................................... len:18 al:1
......................AGAACCCAAGAAUCUCGu....................................................... len:18 al:29
......................AGAACCCAAGAAUCUCGAA...................................................... len:19 al:575
......................AGAACCCAAGAAUCUaGAAGG.................................................... len:21 al:1
......................AGAACCCAAGAcUCUCGA....................................................... len:18 al:1
......................AGAACCCAgGAAUCUCGA....................................................... len:18 al:4
......................AGAACCCAAGAAUCUCGAgG..................................................... len:20 al:6
......................AGAACCCAAGAAUCUuGAA...................................................... len:19 al:1
......................AGAACCCAAGAAUCUCGAAGuUU.................................................. len:23 al:2
......................AGAACCCuAGAAUCUCGA....................................................... len:18 al:1
......................AGAACCCAAGAAUCUCGAAGaUU.................................................. len:23 al:1
......................AuAACCCAAGAAUCUCGAA...................................................... len:19 al:3
......................gGAACCCAAGAAUCUCGA....................................................... len:18 al:6
......................AGgACCCAAGAAUCUCGAAG..................................................... len:20 al:1
......................cGAACCCAAGAAUCUCGAAGG.................................................... len:21 al:2
......................AGAACCCAAGAAUCUCGc....................................................... len:18 al:3
......................AaAACCCAAGAAUCUCGA....................................................... len:18 al:3
......................AGAACCCAAGAAUCUuGAAG..................................................... len:20 al:2
......................AGAACCCAuGAAUCUCGAAG..................................................... len:20 al:1
......................AGAgCCCAAGAAUCUCGA....................................................... len:18 al:4
......................AGAACCCAAGAAaCUCG........................................................ len:17 al:1
......................AGAACCCAAGgAUCUCGAAG..................................................... len:20 al:3
......................AGgACCCAAGAAUCUCGA....................................................... len:18 al:2
......................AGuACCCAAGAAUCUCGAA...................................................... len:19 al:1
......................AGAACCCuAGAAUCUCGAA...................................................... len:19 al:1
......................AGAACCCAAGAgUCUCGA....................................................... len:18 al:1
......................AGAACCCAAGAAUCUCGAAGGUUUa................................................ len:25 al:1
......................AGAACCCAAGAAUCUCGAu...................................................... len:19 al:30
......................AGAACCCAAGAAUCUCGAAGu.................................................... len:21 al:9
......................AGAACCCAAGAAcCUCGAAG..................................................... len:20 al:5
......................AGAACCCAAGAAUCUCGAAGG.................................................... len:21 al:169
......................AGAACCCuAGAAUCUCGAAG..................................................... len:20 al:3
......................AGAACCCAAGAAUCUCGg....................................................... len:18 al:23
......................AGAACuCAAGAAUCUCGA....................................................... len:18 al:2
......................AGAACCCAAGAAUCUCGAAGaU................................................... len:22 al:1
......................AGgACCCAAGAAUCUCGAA...................................................... len:19 al:5
......................AGAACCCAAGAAUCcCGAA...................................................... len:19 al:1
......................AGAACCCAAGAAUCUCGAAGGc................................................... len:22 al:1
......................AGAACCCAAGAAUCcCGA....................................................... len:18 al:5
......................AGAACCCAAGAAUCUCGuAGG.................................................... len:21 al:1
......................AGAACCCAAGAAUCUCGAAu..................................................... len:20 al:24
......................AGAACCCAAGAAUaUCGA....................................................... len:18 al:1
......................AGAACCCAAGAAUaUCGAA...................................................... len:19 al:1
......................AGAACCCAAGAAUCUCGAg...................................................... len:19 al:14
......................AcAACCCAAGAAUCUCGAAG..................................................... len:20 al:2
......................AcAACCCAAGAAUCUCGAAGG.................................................... len:21 al:3
......................AGAACCCAAGAAUCUCGAcGG.................................................... len:21 al:1
......................AGAACCuAAGAAUCUCGAA...................................................... len:19 al:1
......................AGAACCCAAGAgUCUCGAAG..................................................... len:20 al:2
......................AGAACCCAAGAAUCUCGAAGGU................................................... len:22 al:5
......................AGAACCCAAGAAUCcCGAAG..................................................... len:20 al:2
......................AGAACCCgAGAAUCUCGAA...................................................... len:19 al:1
......................AGAACCCAgGAAUCUCGAA...................................................... len:19 al:2
......................AGAACCCAgGAAUCUCGAAG..................................................... len:20 al:2
......................AGAACCCgAGAAUCUCGA....................................................... len:18 al:3
......................AGAACCCAAGAAUCUCaA....................................................... len:18 al:16
......................gGAACCCAAGAAUCUCGAAGG.................................................... len:21 al:1
......................cGAACCCAAGAAUCUCGA....................................................... len:18 al:13
......................AGAACCCAAGAAUCUCGgA...................................................... len:19 al:3
......................AGAgCCCAAGAAUCUCGAAGG.................................................... len:21 al:1
......................uGAACCCAAGAAUCUCGAAG..................................................... len:20 al:5
......................AGAuCCCAAGAAUCUCGAAG..................................................... len:20 al:1
......................AGAACCCAAGgAUCUCGA....................................................... len:18 al:2
.......................GAACCCAAGAAUCUCGAA...................................................... len:18 al:3
.......................GAACCCAAGAAUCUCGAAGu.................................................... len:20 al:1
.......................aAACCCAAGAAUCUCGAAG..................................................... len:19 al:1
.......................GAACCCAAGAAUCUCGAAu..................................................... len:19 al:1
.......................GAACCCAAGAAUCUCGAAG..................................................... len:19 al:11
.......................GAACCCAAGAAUCUCGAAa..................................................... len:19 al:3
.......................GAACCCAAGAAUCUCGAAc..................................................... len:19 al:1
.......................GAACCCAAGAAUCcCGAAG..................................................... len:19 al:1
........................cACCCAAGAAUCUCGAAG..................................................... len:18 al:1
........................AACCCAAGAAUCUCGAAG..................................................... len:18 al:1
....................................................CCUUCAAGGUUCUGGGGUUAUA..................... len:22 al:9
....................................................CCUUCAAGGUUCUGGGGUUAUc..................... len:22 al:1
....................................................CCUUCAAGGUUCUGGGGUUAU...................... len:21 al:2
....................................................CCUUuAAGGUUCUGGGGUUAUA..................... len:22 al:1
....................................................CCUUCAAGGUUCUGGGGUa........................ len:19 al:1
......................................................UUCAAGGUUCUGGGGUUAUAu.................... len:21 al:5
......................................................UUCAAGGUUCUGGGGUUAUc..................... len:20 al:1
......................................................UUCAAGGUUCUGGGGUUAUAC.................... len:21 al:4
......................................................UUCAAGGUUCUGGGGUUAUu..................... len:20 al:1
......................................................UUCAAGGUUCUGGGGUUAUA..................... len:20 al:19
......................................................UUCAAGGUUCUGGGGUUAU...................... len:19 al:19
......................................................cUCAAGGUUCUGGGGUUAU...................... len:19 al:1
......................................................UUCAAGGUUCUGGGGUUAc...................... len:19 al:2
......................................................UUCAAGGUUCUGGGGUUAUuC.................... len:21 al:1
......................................................UUCAAGGUUCUGGGGUUAUACu................... len:22 al:2
......................................................UUCAAGGUUCUGGGGUUgU...................... len:19 al:2
.......................................................UCAAGGUUCUGGGGUUAU...................... len:18 al:1
.......................................................UCAAGGUUCUGGGGUUAc...................... len:18 al:1
.......................................................UCAAGGUUCUGGGGUUAUA..................... len:19 al:1
........................................................CAAGGUUCUGGGGUUAUA..................... len:18 al:1
........................................................CAAGGUUCUGGGGUUAUg..................... len:18 al:1
..........................................................................CGGCUUGGGUACAAACACUCU len:21 al:1