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___Sc0000012:6455183-6455276 plus
PDF file name: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/F-Ptua/output/04-Ptua-sRNA-discovery-ShortStack/ShortStack_out/strucVis/Cluster_3713.ps.pdf
Locus Name: Cluster_3713
UCUCCGUUUCUUAGGUGAGCGGUGAAAUACUCUGACGGAGUCAGCUUCAGUGCACUCCAUCAGAAUAUUUUGCGCUCGCUUAAAGAUUGAUCAG
..((.((((.(((((((((((.(((((((.(((((.(((((..((......))))))).))))).)))))))))))))))))))))).)).... (-37.60)
UCUCCGUUUCUUgGGUGAGCGG........................................................................ len:22 al:2
..........UUgGGUGAGCGGUGAAAUACUCU............................................................. len:23 al:1
...........UgGGUGAGCGGUGAAAUACUCUGAC.......................................................... len:25 al:1
.................AGCGGUGAAAUACUCUGACGGA....................................................... len:22 al:1
..................GCGGUGAAAUACUCUGACGG........................................................ len:20 al:1
.....................cUGAAAUACUCUGACGGAGUCAGC................................................. len:24 al:2
.....................cUGAAAUACUCUGACGGAGUCAGCUU............................................... len:26 al:1
.....................cUGAAAUACUCUGACGGAGUCAGCU................................................ len:25 al:2
......................UGAAAUACUCUGACGGAGcCAGCU................................................ len:24 al:1
......................UGAAAUcCUCUGACGGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGACGGAGUu.................................................... len:20 al:10
......................UGAAAUACUCUGACGGAGUCAG.................................................. len:22 al:376
......................UGAAAUACUCUGACGGAuUCAGCUUCAGUG.......................................... len:30 al:1
......................UGAAAcACUCUGACGGAGUCAGCU................................................ len:24 al:1
......................UGAAuUACUCUGACGGAGUCAGCU................................................ len:24 al:2
......................UGAAAUACcCUGACGGAGUC.................................................... len:20 al:2
......................UGAAAUACUCUGACGGAuUCAGCU................................................ len:24 al:24
......................UGAAAUACUCUGACGGAGUCAGCUa............................................... len:25 al:4
......................UGAAAUACUCUGACGGAGa..................................................... len:19 al:5
......................UGAAAcACUCUGACGGAGUCAG.................................................. len:22 al:1
......................UGAAAUACUCUGACGGAGUCAGC................................................. len:23 al:3046
......................UGAAAUACUCUGACGGAGUCAGCUUCAGU........................................... len:29 al:13
......................UGAAAUACUCcGACGGAGU..................................................... len:19 al:2
......................UGAuAUACUCUGACGGAGUC.................................................... len:20 al:1
......................UGAAAUAuUCUGACGGAGU..................................................... len:19 al:4
......................cGAAAUACUCUGACGGAGUCAGCU................................................ len:24 al:3
......................UGAAAUACUCUGACGGgGUC.................................................... len:20 al:1
......................UGgAAUACUCUGACGGAGUCAGCU................................................ len:24 al:2
......................UGAAAUACUCUGuCGGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGACGGAaU..................................................... len:19 al:3
......................UGAAAUACUCUGACGGgGUCAGCUU............................................... len:25 al:2
......................aGAAAUACUCUGACGGAGUC.................................................... len:20 al:1
......................UGAAAUACUCUGACGGAGUCAGCUc............................................... len:25 al:3
......................UGAAAUACUCUGACuGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGAaGGAGUCAG.................................................. len:22 al:1
......................UGAAAUACaCUGACGGAGUCAGC................................................. len:23 al:1
......................UGAAAUACUuUGACGGAGU..................................................... len:19 al:2
......................UGAAAUACUCUGACGGAaUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGACGGAGUCAu.................................................. len:22 al:2
......................UGAAAUACUCUGACGGAcUCAG.................................................. len:22 al:1
......................UGAAAUACaCUGACGGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGgCGGAGUC.................................................... len:20 al:1
......................UGAAAUACUCUGgCGGAGUCAGC................................................. len:23 al:10
......................UGAAAUACUCUGACGGAGcCAGC................................................. len:23 al:12
......................UGAAAUACUCUGACGGAGg..................................................... len:19 al:6
......................UGAAAUACgCUGACGGAGU..................................................... len:19 al:1
......................UGAAAUACUCUGACGGAGUCuGC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAGUCAGuU................................................ len:24 al:13
......................UGAAAUACUCcGACGGAGUC.................................................... len:20 al:4
......................UGAAAUACUCUGACGG........................................................ len:16 al:8
......................UGAAAUACUCUGACGGAGUa.................................................... len:20 al:5
......................UGAAAUACcCUGACGGAGUCAGC................................................. len:23 al:7
......................UGcAAUACUCUGACGGAGU..................................................... len:19 al:1
......................UGAAAUACcCUGACGGAGU..................................................... len:19 al:5
......................UGAAAUACUCUGACGGAGUCAGCc................................................ len:24 al:62
......................UGAAAUcCUCUGACGGAGU..................................................... len:19 al:1
......................UGAgAUACUCUGACGGAGUC.................................................... len:20 al:2
......................UGAAAUACUCUGACGGAGUCAGCUU............................................... len:25 al:67
......................UGAAAUACUCUaACGGAGUCAGC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAGUCAaC................................................. len:23 al:16
......................UGAAAUACUCUGgCGGAG...................................................... len:18 al:1
......................UGAAAUACUCUGACGGAGUCgG.................................................. len:22 al:1
......................UGAgAUACUCUGACGGAGU..................................................... len:19 al:2
......................UGAAAUACUCUGACGGcGUCAGC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAGcCAG.................................................. len:22 al:2
......................UGAAAUACUCUGACGGuGUCAGC................................................. len:23 al:3
......................UGAAAUACUCUGACGGAu...................................................... len:18 al:4
......................UGAAAUACUCUGACaGAGUCAG.................................................. len:22 al:2
......................UGAAAUACUCUGACGGAGUCAc.................................................. len:22 al:1
......................UGAAAUACUCUGACGGAGU..................................................... len:19 al:1155
......................UGAAAUACUuUGACGGAGUCAGC................................................. len:23 al:1
......................UGAAAUgCUCUGACGGAGU..................................................... len:19 al:4
......................UGAAAUACUCUGACGGgGUCAG.................................................. len:22 al:1
......................UGAAAUACUCUGACGGAuUCAGCUU............................................... len:25 al:3
......................UGAAAUACUCUGACGGAGUCAGCg................................................ len:24 al:6
......................UGAAAUACUCUGACGu........................................................ len:16 al:1
......................UGAAAUACUgUGACGGAGUCAGC................................................. len:23 al:1
......................UGAAAUACUCUGAuGGAGU..................................................... len:19 al:2
......................UGAAAUACUCUGACGGAGUCAa.................................................. len:22 al:5
......................UGAAAUACUCUGACGGAGUCAGCUUu.............................................. len:26 al:16
......................UGAAAUACUCcGACGGAGUCAG.................................................. len:22 al:7
......................UGAAAUACUCUGACGaAGUCAGC................................................. len:23 al:3
......................UGAAAUACUCUGACGGAGUCAGCcU............................................... len:25 al:2
......................UGAAAUACUCUGACGGAcUCAGC................................................. len:23 al:2
......................aGAAAUACUCUGACGGAGU..................................................... len:19 al:1
......................UGAAAUACUCUGACGGAuUCA................................................... len:21 al:3
......................UGAAAUACUCUGACGGAGUC.................................................... len:20 al:408
......................UGAAAUACUCUGgCGGAGU..................................................... len:19 al:9
......................UGAAAUAuUCUGACGGAGUCAGC................................................. len:23 al:2
......................UGAAAUACUCUGACGGAuU..................................................... len:19 al:14
......................UGAAcUACUCUGACGGAGUCAGC................................................. len:23 al:6
......................UGAAAUACUCUGACGGAGUCAGa................................................. len:23 al:19
......................UGAAAUACUCUGgCGGAGUCAG.................................................. len:22 al:2
......................UGAAAUACUCUGACGGAGUCcGC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAuUCAGCUUC.............................................. len:26 al:1
......................UGAAAUACUCUGACGGAGcC.................................................... len:20 al:3
......................UGAuAUACUCUGACGGAGUCAGC................................................. len:23 al:1
......................cGAAAUACUCUGACGGAGUCAGC................................................. len:23 al:10
......................cGAAAUACUCUGACGGAGU..................................................... len:19 al:5
......................UGAAAUACUCUGACGGAuUCAGC................................................. len:23 al:260
......................UGAAAUACUCUGACGGAc...................................................... len:18 al:1
......................UGAAAUACUCUGACGGAGUCAGCUUCAGUG.......................................... len:30 al:2
......................UGAAgUACUCUGACGGAGUCAGC................................................. len:23 al:9
......................UGAcAUACUCUGACGGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGACGGAGc..................................................... len:19 al:78
......................UGAAcUACUCUGACGGAGU..................................................... len:19 al:1
......................UGAAAUACUCUGACGGAGUCAGCUUCAGUGu......................................... len:31 al:13
......................UGAAAUACUCUGACGGAuUCAG.................................................. len:22 al:30
......................UGAAAUACUCaGACGGAGU..................................................... len:19 al:2
......................UGAAAUACUCUGACGGAGUCA................................................... len:21 al:19
......................UGgAAUACUCUGACGGAGU..................................................... len:19 al:3
......................UGAAAUACUCUGACGGAGUCgGC................................................. len:23 al:9
......................UGAAAUACUCUGACGGA....................................................... len:17 al:13
......................UGAAAUACUCUGACGGAGUCAGCUUC.............................................. len:26 al:3
......................UGAAAUACUCUGACGGAGUCAcC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAGaCAGC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAGUuAGC................................................. len:23 al:9
......................UGAAAUACUCUGACGGAGUCAGCUUCAGUGC......................................... len:31 al:1
......................UGAAAUACaCUGACGGAGUC.................................................... len:20 al:2
......................UGAAAUACUCUGACGGAGaC.................................................... len:20 al:1
......................UGAAAUACUCUGAuGGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGACGGAGUCgGCU................................................ len:24 al:3
......................UGAAAUACUCUGACGGAuUC.................................................... len:20 al:29
......................UGAAAUACUCUGACGGgGU..................................................... len:19 al:8
......................UGAAgUACUCUGACGGAGU..................................................... len:19 al:6
......................UGAAgUACUCUGACGGAGUCAGCU................................................ len:24 al:4
......................UGAgAUACUCUGACGGAGUCAGC................................................. len:23 al:4
......................UGAAAUACUCUGACGGgGUCAGC................................................. len:23 al:13
......................UGAAAUACUCcGACGGAGUCAGC................................................. len:23 al:4
......................UGAAgUACUCUGACGGAGUC.................................................... len:20 al:1
......................aGAAAUACUCUGACGGAGUCAGC................................................. len:23 al:3
......................UGAAAUACUCUGACGGAGUCAGCU................................................ len:24 al:624
......................UGAAAUACcCUGACGGAG...................................................... len:18 al:1
......................UGuAAUACUCUGACGGAGUCAGC................................................. len:23 al:1
......................UGAAAUACcCUGACGGAGUCAGCU................................................ len:24 al:5
......................UGAAAUACUCUGgCGGAGUCAGCU................................................ len:24 al:1
......................UGAAAUACUCUGACGGAG...................................................... len:18 al:38
......................UGgAAUACUCUGACGGAGUC.................................................... len:20 al:2
......................UGAAAUACUCUGACGGAGUCAGu................................................. len:23 al:223
......................UGAAAUACUCUGACGGAGUCAGg................................................. len:23 al:1
......................UGAAAUACUCUGAaGGAGUCAGC................................................. len:23 al:1
......................UGAAAUACaCUGACGGAGU..................................................... len:19 al:1
......................UGAAAUACUCcGACGGAGUCAGCU................................................ len:24 al:2
......................UGgAAUACUCUGACGGAGUCAG.................................................. len:22 al:2
......................UGAAAUACUCUGACGuAGU..................................................... len:19 al:2
......................UGAAAUcCUCUGACGGAGUCAG.................................................. len:22 al:1
......................UGAAAUACUCUGACG......................................................... len:15 al:5
......................UGAAAUACUCUGACGGgGUCAGCU................................................ len:24 al:2
......................UGAAAUACUCUGAaGG........................................................ len:16 al:1
......................UGAAAUACUCUGACGGAGUCAGCa................................................ len:24 al:25
......................UGAAAUACUCUGACGGuGUCAGCU................................................ len:24 al:1
......................gGAAAUACUCUGACGGAGUCAGC................................................. len:23 al:1
......................UGAAAUACUCUGACGGAa...................................................... len:18 al:1
......................UGAAAUACUCUGACa......................................................... len:15 al:1
......................UGAAAUACUCUGACGGAGcCAGCUU............................................... len:25 al:1
......................UGAAAUACUCUGACGGAGUCAGaU................................................ len:24 al:3
......................UGAAAUACUCUGACGGAGUuAGCU................................................ len:24 al:1
......................UGAAcUACUCUGACGGAGUCAG.................................................. len:22 al:2
......................UGAcAUACUCUGACGGAGUCAGC................................................. len:23 al:2
......................UGAAAUcCUCUGACGGAGUCAGC................................................. len:23 al:2
......................UGAAAUACUCUGcCGGAGU..................................................... len:19 al:1
......................UGAAAUACUCUGACGGAGUCAGCUUa.............................................. len:26 al:1
......................UGAcAUACUCUGACGGAGU..................................................... len:19 al:2
......................UGAAAUACUCUGACGGAGUCAGCaU............................................... len:25 al:1
......................UGAAAUACUCUGcCGGAGUCAGC................................................. len:23 al:2
......................UGAAAUACUCUGACaGAGUCAGC................................................. len:23 al:7
......................UGAAAcACUCUGACGGAGU..................................................... len:19 al:3
......................UGAAAUgCUCUGACGGAGUCAGC................................................. len:23 al:3
......................UGgAAUACUCUGACGGAGUCAGC................................................. len:23 al:17
......................UGAAAUACUCUGACGGAaUCAGC................................................. len:23 al:1
.......................GAAAUACUCUGACGGAGUCAGCU................................................ len:23 al:2
.......................GAAAUACUCUGACGGAGUCAGCc................................................ len:23 al:2
.......................GAAAUACUCUGACGGAGc..................................................... len:18 al:1
.......................GAAAUACUCUGACGGAGUCAGC................................................. len:22 al:2
.......................GAAAUACUCUGACGGAGUa.................................................... len:19 al:1
.......................GAAAUACUCUGACGGAGU..................................................... len:18 al:17
.......................GAAAUACUCUGACGGAGUCAGCUU............................................... len:24 al:2
.......................GAAAUACUCUGACGGAGUCAG.................................................. len:21 al:2
.......................GAAAUACUCUGACGGAuUCAGC................................................. len:22 al:1
.......................GAAAUACcCUGACGGAGU..................................................... len:18 al:1
........................AAAUACUCUGACGGAGUCAGC................................................. len:21 al:1
........................AAAUACUCUGACGGAGUCAG.................................................. len:20 al:1
........................AAAUACUCUGACGGAuUCAGC................................................. len:21 al:2
........................AAAUACUCUGACGGAGUCAGCU................................................ len:22 al:1
.........................AAUACUCUGACGGAGUCAGCU................................................ len:21 al:1
.........................AAUACUCUGACGGAuUCAG.................................................. len:19 al:1
..........................AUACUCUGACGGAGU..................................................... len:15 al:1
...........................UACUCUGACGGAGUCAGCU................................................ len:19 al:1
............................................CUUCAGUGuACUCCAUCAGAAUAUUUUGCG.................... len:30 al:2
.............................................UUCAGUGCACUCCAUCAGAAUAUUUUGCc.................... len:29 al:1
.............................................UUCAGUGuACUCCAUCAGAAUA........................... len:22 al:3
.............................................UUCAGUGuACUCCAUCAGAAU............................ len:21 al:7
.............................................UUCAGUGCACUCCAUCAGAAUAUUUUGCa.................... len:29 al:1
.............................................UUCAGUGuACUCCAUCAGAAUAUUU........................ len:25 al:1
.............................................UUCAGUGuACUCCAUCAGAAUAUUUU....................... len:26 al:2
.............................................UUCAGUGuACUCCAUCAGAAUAU.......................... len:23 al:2
.............................................UUCAGUGuACUCCAUCAGAAUAUUUUGCG.................... len:29 al:69
.............................................UUCAGUGuACUCCAUCAGAAUAUU......................... len:24 al:1
.............................................UUCAGUGuACUCCAUCAGAAUAUUUUGC..................... len:28 al:76
.............................................UUCAGUGCACUCCAUCAGAAUAUUUUGCu.................... len:29 al:13
.............................................UUCAGUGuACUCCAUCAGAAUAUUUUG...................... len:27 al:1
..............................................UCAGUGuACUCCAUCAGAAUAUUUUGC..................... len:27 al:3
...............................................CAGUGuACUCCAUCAGAA............................. len:18 al:2
...............................................CAGUGuACUCCAUCAGAAUAUUUUGCG.................... len:27 al:3
...............................................CAGUGuACUCCAUCAGAAUAUUUUGC..................... len:26 al:2
................................................AGUGuACUCCAUCAGAAUAUUUUGC..................... len:25 al:10
................................................AGUGuACUCCAUCAGAAUAU.......................... len:20 al:1
.................................................GUGuACUCCAUCAGAAUAUUUUGC..................... len:24 al:2
..................................................UGgACUCCAUCAGAAUAUUUUGC..................... len:23 al:1
..................................................UGuACUCCAUCAGAAUAUUUUGC..................... len:23 al:18
...................................................GuACUCCAUCAGAAUAUUUUGCG.................... len:23 al:1
...................................................GuACUCCAUCAGAAUAUUUUGC..................... len:22 al:37
...................................................GuACUCCAUCAGAAUAUU......................... len:18 al:1
....................................................uACUCCAUCAGAAUAUUUUGCG.................... len:22 al:1
....................................................uACUCCAUCAGAAUAUUUUGC..................... len:21 al:24
.....................................................ACUCCAUCAGAAUAUUUUGC..................... len:20 al:1
......................................................CUCCAUCAGAAUAUUUUGCa.................... len:20 al:1