Genome: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/D-Apul/data/Apulchra-genome.fa
Alignments: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/D-Apul/output/11-Apul-sRNA-ShortStack_4.1.0-pulchra_genome/ShortStack_out/merged_alignments.bam
Location: ptg000008l:10811493-10811585 minus
PDF file name: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/D-Apul/output/11-Apul-sRNA-ShortStack_4.1.0-pulchra_genome/ShortStack_out/strucVis/Cluster_4573.ps.pdf
Locus Name: Cluster_4573
UUUUCAUAUAUUUCUCGCUCUUGGGAAAGGGAAGUUACUCCCCUUUAUGGGGUUUAGGUUCCUUUUUUCAUGAGCGUGACAUAGCAAAGAAAC
.((((...(((.((.(((((.((((((((((((.(((..((((.....))))..))).)))))))))))).))))).)).))).....)))). (-38.20)
UUUUCAUAUAUUUCUCGCUC......................................................................... len:20 al:2
.UUUCAUAUAUUUCUCGCUC......................................................................... len:19 al:3
.UUUCAcAUAUUUCUCGCUC......................................................................... len:19 al:1
..UUCAUAUAUUUCUCGCUC......................................................................... len:18 al:2
..UUCAUAUAUUUCcCGCUC......................................................................... len:18 al:1
...UCAUAUAUUUCUCGCUC......................................................................... len:17 al:1
...................CUUGGGAAgGGGAAGUUACU...................................................... len:20 al:1
...................CUUGGGAAAGGGAAGUUACUC..................................................... len:21 al:2
...................CUUGGGAAAGGGAAGU.......................................................... len:16 al:1
....................UUGGGAAgGGGAAGUUACU...................................................... len:19 al:3
....................UUaGGAAAGGGAAGUUACU...................................................... len:19 al:3
....................UUGGGAAAGGGAAGUUACUCCCCUa................................................ len:25 al:2
....................UcGGGAAAGGGAAGUUACUC..................................................... len:20 al:3
....................UUGGGAAAGGGAAGUUACUCCaC.................................................. len:23 al:1
....................UUGGGAAAGGGcAGUUACUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAAGUUACUCCCCg................................................. len:24 al:4
....................UUGGGAAAGGGAgGUUACUCCC................................................... len:22 al:1
....................UUGGGAAgGGGAAGUUACUCCCC.................................................. len:23 al:1
....................UUGGGAAAGGGcAGUUACUCC.................................................... len:21 al:3
....................UUGaGAAAGGGAAGUUACUC..................................................... len:20 al:2
....................UUGGGAAAaGGAAGUUACUCCCC.................................................. len:23 al:1
....................UUGGGAAAGGGAAGUUcCUCC.................................................... len:21 al:1
....................UUGGGAAAGGGgAGUUACUC..................................................... len:20 al:3
....................UUGGGAAAGGGAcGUUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAGUUACUCCCCcU................................................ len:25 al:2
....................UaGGGAAAGGGAAGUUACU...................................................... len:19 al:1
....................UUGGaAAAGGGAAGUUACU...................................................... len:19 al:1
....................UUGGGAAAGGGAAGUUACg...................................................... len:19 al:14
....................UUGGGAgAGGGAAGUUACUCC.................................................... len:21 al:3
....................UUGGGAAAGGGuAGUUACU...................................................... len:19 al:1
....................UUGGGAAAGGGAAGUUACUu..................................................... len:20 al:25
....................UUGGGAAAGGGAAGUUACUCCCg.................................................. len:23 al:1
....................UUGGGAAAGGGAAGaUACUC..................................................... len:20 al:1
....................UUGGGAAAGGGAuGUUACUC..................................................... len:20 al:1
....................UUGGGAAAGGGAAGUUACUC..................................................... len:20 al:640
....................UUGGGAAAGGGAAGUUACcCCCCU................................................. len:24 al:2
....................UUGGGgAAGGGAAGUUACUCCCC.................................................. len:23 al:2
....................UUGGGAAAGGGAAGUUACUCu.................................................... len:21 al:201
....................cUGGGAAAGGGAAGUUACUCC.................................................... len:21 al:3
....................UUGGGgAAGGGAAGUUACUCCC................................................... len:22 al:1
....................UUGGGAAAuGGAAGUUACUCC.................................................... len:21 al:2
....................UUGGGAAAGGGgAGUUACU...................................................... len:19 al:3
....................UUGGGAAAGGGAAGaUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAGUUACUgC.................................................... len:21 al:1
....................UUGGGAAuGGGAAGUUACUC..................................................... len:20 al:2
....................UUGGGAgAGGGAAGUUACU...................................................... len:19 al:2
....................UUGGGAAAGGGgAGUUACUCC.................................................... len:21 al:3
....................UUGGGAAAGGGAAGUU......................................................... len:16 al:2
....................UUGGaAAAGGGAAGUUACUCCC................................................... len:22 al:1
....................UUGGGAAAGGGAAGcUACUCCC................................................... len:22 al:2
....................UUGGGAAAGGGAAGUUAu....................................................... len:18 al:2
....................UUGGGAAAGGGAAGUUACUCCCCU................................................. len:24 al:282
....................UUGGGAAAGGGAgGUUACUC..................................................... len:20 al:2
....................UUGGGAAgGGGAAGUUACUCC.................................................... len:21 al:6
....................UUaGGAAAGGGAAGUUACUC..................................................... len:20 al:1
....................UUGGGAAAGGGAAGUUACUCCCC.................................................. len:23 al:182
....................UUGGGAAAGGGAgGUUACUCC.................................................... len:21 al:3
....................UgGGGAAAGGGAAGUUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAgGUUACUCCCC.................................................. len:23 al:1
....................UUGGGAAuGGGAAGUUACUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAAGUUACUCCu................................................... len:22 al:7
....................UUGGGAAAGGGAAGUUACUuC.................................................... len:21 al:3
....................UUGGGgAAGGGAAGUUACUC..................................................... len:20 al:1
....................UUGGGAcAGGGAAGUUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAGUUAC....................................................... len:18 al:12
....................UUGGGAAAGGGAAGUUACUCCCCUaU............................................... len:26 al:7
....................UUGGGAAAGGGgAGUUACUCCCC.................................................. len:23 al:1
....................UUGGGAAAGGGAAaUUACUCC.................................................... len:21 al:3
....................UaGGGAAAGGGAAGUUACUC..................................................... len:20 al:1
....................UUGGGAAAGGGAAGUUACUCCCu.................................................. len:23 al:27
....................UUGGGAAAGGGAAGUUACUCCCCaUU............................................... len:26 al:3
....................UUGGGAAAGGGAAGUUgCUC..................................................... len:20 al:1
....................UUGGGAAAGGGAAGUcACUC..................................................... len:20 al:1
....................UUGGGAAAGGGAAGU.......................................................... len:15 al:1
....................UUGGGAcAGGGAAGUUACUCCCCU................................................. len:24 al:1
....................UUGGGcAAGGGAAGUUACU...................................................... len:19 al:1
....................UUGGGAAAGGGAAGUUAuUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAcGUUACU...................................................... len:19 al:1
....................UUGGGgAAGGGAAGUUACUCC.................................................... len:21 al:4
....................aUGGGAAAGGGAAGUUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAaUUACU...................................................... len:19 al:1
....................UUGGGAAAGaGAAGUUACUC..................................................... len:20 al:2
....................UUGGGAAAGGGAAGUUACUCC.................................................... len:21 al:1012
....................UUGGGAAAGGGcAGUUACU...................................................... len:19 al:1
....................UUGGGAAAGGGAAGUUACUCCa................................................... len:22 al:17
....................UUGGGAAAGGGAAGUUACUCCCCa................................................. len:24 al:36
....................UUGGGAAAGGGAgGUUACU...................................................... len:19 al:2
....................UUGGGAAAGGGAAGUUgCU...................................................... len:19 al:3
....................UcGGGAAAGGGAAGUUACU...................................................... len:19 al:1
....................UUGGGAAAGGGAAGUUAaU...................................................... len:19 al:1
....................UUGGGgAAGGGAAGUUACU...................................................... len:19 al:2
....................UUGGGAAAGGGAAGUUACa...................................................... len:19 al:12
....................UUGGGAAAGGGAgGUUACUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAAGUUACUCCCuU................................................. len:24 al:2
....................UUGGGAAAaGGAAGUUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAGUUACUCa.................................................... len:21 al:86
....................UUGGGAAAGGGAAGUUACUCCCCUUU............................................... len:26 al:2
....................UUGGGAAgGGGAAGUUACUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAAGUUACUCg.................................................... len:21 al:2
....................UUGGGAAAGGGAAGUUACcC..................................................... len:20 al:8
....................UUGGGAAAGGGAAGUcACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAGcUACUCCCC.................................................. len:23 al:1
....................UUuGGAAAGGGAAGUUACUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAAGUUAa....................................................... len:18 al:3
....................cUGGGAAAGGGAAGUUACU...................................................... len:19 al:2
....................cUGGGAAAGGGAAGUUACUC..................................................... len:20 al:1
....................UUGGGAAAGGGAAGUUACUCCCa.................................................. len:23 al:19
....................gUGGGAAAGGGAAGUUACU...................................................... len:19 al:2
....................UUGGGAAgGGGAAGUUACUC..................................................... len:20 al:6
....................UUGGGAAAGGGAAGUUACUCCC................................................... len:22 al:17
....................UUGGGAAAGGGAAGUUACUCCCCc................................................. len:24 al:27
....................UUGGGAAAGGGAcGUUACUCCCCU................................................. len:24 al:1
....................UUGGGAAAGGGAAGUUACUCCCCUU................................................ len:25 al:10
....................UUGGGAAAGGGAAGcUACU...................................................... len:19 al:1
....................UUGGGAAAGGGAAGUUACUa..................................................... len:20 al:10
....................UUGGGAcAGGGAAGUUACUCCCC.................................................. len:23 al:1
....................UUGGGAAAGGGAAGUcACU...................................................... len:19 al:2
....................gUGGGAAAGGGAAGUUACUC..................................................... len:20 al:1
....................UUGGGAgAGGGAAGUUACUC..................................................... len:20 al:4
....................UUGGGAAAGGGAAGcUACUCC.................................................... len:21 al:4
....................UUGGGAAAGGGAAGUUACc...................................................... len:19 al:69
....................UUGGGAAAGGGAAGgUACUCC.................................................... len:21 al:1
....................UUGGGAAAGGGAAGUUACU...................................................... len:19 al:749
....................UcGGGAAAGGGAAGUUACUCC.................................................... len:21 al:2
....................UUGGGAAcGGGAAGUUACUC..................................................... len:20 al:2
.....................UGGGAAAGGGAAGUUACUCC.................................................... len:20 al:2
.....................UGGGAAAGGGAAGUUACUCu.................................................... len:20 al:4
.....................UGGGAAAGGGAAGUUACU...................................................... len:18 al:9
.....................UGGGAAgGGGAAGUUACUCCC................................................... len:21 al:1
.....................UGGGAAAGGGAAGUUACUCCCCU................................................. len:23 al:1
.....................UGGGAAAGGGAAGUUACUC..................................................... len:19 al:3
.....................UGGGAAAGGGAAGUUACcCC.................................................... len:20 al:1
.....................UaGGAAAGGGAAGUUACUCC.................................................... len:20 al:1
......................GGGAAAGGGAAGUUACUCa.................................................... len:19 al:1
......................GGGAAAGGGAAGUUACUC..................................................... len:18 al:1
.........................................CCUUUAUGGGGUUUAGGUUCCUUUUUUCA....................... len:29 al:1
.........................................CCUUUAUGGGGUUUAGGUUCCUUUUUUCAUG..................... len:31 al:6
.........................................CCUUUAUGGGGUUUAGGUUCCUUUUUUCAUu..................... len:31 al:4
..........................................CUUUAUGGGGUUUAGGcUCCUUUUUUCAUGA.................... len:31 al:1
..........................................CUUUAUGGGGUUUAGGUUCCUUUUUUCAUu..................... len:30 al:4
..........................................CUUUAUGGGGUUUAGGUUCCUUUUUUCAUGA.................... len:31 al:48
..........................................CcUUAUGGGGUUUAGGUUCCUUUUUUCAUGA.................... len:31 al:1
..........................................CUUUAUGGGGUUUAGGUUCCUUUUUUCAUGg.................... len:31 al:1
..........................................CUUUAUGGGGUUUAGGUUCCUUUUUUCA....................... len:28 al:1
..........................................CUcUAUGGGGUUUAGGUUCCUUUUUUCAUGA.................... len:31 al:1
..........................................CUUUAUGGGGcUUAGGUUCCUUUUUUCAUGA.................... len:31 al:2
..........................................CUUUAUGGGGUUUAGGUUCCUUUUUUCAUG..................... len:30 al:4
..........................................CUUUAUGGGGUUUAGGUUCCUcUUUUCA....................... len:28 al:1
...........................................UUUAUGGGGUUUAGGUUCCUUUUUUCAUG..................... len:29 al:1
...........................................UUUAUGGGGUUUAGGUUCCUUUUUUCAUGA.................... len:30 al:6
...........................................UUUAUGGGGUUUAGGUUCCUUUUUUCAUu..................... len:29 al:1
...........................................UUUAUGGGGUUUAGGUUCCUUUUUUCAUGu.................... len:30 al:1
..................................................GGUUUAGGUUCCUUUUUU......................... len:18 al:1
..................................................GGUUUAGGUUCCUcUUUUCAUGA.................... len:23 al:1
..................................................GGUUUAGGUUCCUUUUUUCAUGA.................... len:23 al:143
..................................................GGUUUAGGUUCCUUUUUUCAUa..................... len:22 al:5
..................................................GGUUUAGGUUCCUUUUUUCAUGAu................... len:24 al:20
..................................................GGUUUAGGUUCCUUUUUcCAUG..................... len:22 al:1
..................................................GGUUUAGGUUCCUUUUUUCAcG..................... len:22 al:1
..................................................GGUUUAGGUUCCUUUUUUCAUGg.................... len:23 al:2
..................................................GGUUUAGGUUCCUUUUUUCAUG..................... len:22 al:28
..................................................GGUUUAGGUUCCUUUUUUC........................ len:19 al:1
..................................................GGUUUAGGcUCCUUUUUUCAUG..................... len:22 al:1
..................................................GGUUUAGGUUCCUcUUUUCA....................... len:20 al:1
..................................................GGUUUAGGUUCCUUUUUUCA....................... len:20 al:2
..................................................GGUUUAGGUUCCcUUUUUCAUGA.................... len:23 al:3
..................................................GGUUUAGGUUCCUUUUUUCgUGA.................... len:23 al:3
..................................................GGUUUAGGUUCCUUUUUcCAUGA.................... len:23 al:3
..................................................GGUUUAGGUUCCUUUUUUCAUGu.................... len:23 al:4
..................................................GGUUcAGGUUCCUUUUUUCAUGA.................... len:23 al:1
..................................................GGUUUAGGUUCCUUUUUUCAUu..................... len:22 al:3
..................................................GGUUUAGGUUCCUUUUUUCAU...................... len:21 al:3
..................................................GGUUUAGGUUCCUUUUUUCAUcA.................... len:23 al:1
..................................................GGUUUAGGUUCCUUUUcUCAUGA.................... len:23 al:1
....................................................UUUAGGUUCCUUUUUUCAUGA.................... len:21 al:4
....................................................UUUAGGUUCCUUUUUUCA....................... len:18 al:1
....................................................UUUAGGUUCCUUUUUUCAUGu.................... len:21 al:1
....................................................UUUAGGUUCCUUUUUUCAUG..................... len:20 al:2
.....................................................UUAGGUUCCUUUUUUCAU...................... len:18 al:1
.....................................................UUAGGUUCCUUUUUUCAUc..................... len:19 al:1
......................................................UAGGUUCCUUUUUUCAUGA.................... len:19 al:1
.........................................................................GCGUGACAUAGCAAAGAAAC len:20 al:1