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: ptg000024l:4086202-4086295 plus
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_13595.ps.pdf
Locus Name: Cluster_13595
UGAUUCAAGACUAUGUACUCAGCUUUCGCGGGAUAAAAACUCCUUCAUGUGAAUUUUUAGCCCGCGGAAGUUGCGUAAGUAUGUCAUAUUCCAC
........((((((.(((.(((((((((((((.((((((.(((.....).)).)))))).))))))))))))).))).))).)))......... (-34.60)
UGAUUCAAGACUAUGUACUC.......................................................................... len:20 al:4
.GAUUCAAGACUAUGUACUC.......................................................................... len:19 al:6
..AUUCAAGACUAUGUACUC.......................................................................... len:18 al:3
....................AGCUcUCGCGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUcCGCGGGAUAAAAACUC.................................................... len:22 al:2
....................AGCUUUCGCGGGAUAAAAACUu.................................................... len:22 al:5
....................AGCUUUCGCGGGAUAAcAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGcUAAAAACUCC................................................... len:23 al:1
....................AGCUUUCGCGGGAUAAAAACUCCUUCAUa............................................. len:29 al:1
....................AGCcUUCGCGGGAUAAAAAC...................................................... len:20 al:1
....................AGCUUUCGCGGGAUAAAAACUCCUUCAUGU............................................ len:30 al:3
....................gGCUUUCGCGGGAUAAAAACU..................................................... len:21 al:3
....................AGuUUUCGCGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAA....................................................... len:19 al:3
....................AGCUUUCGCGGGgUAAAAACUCCU.................................................. len:24 al:1
....................AGCUUUCGCGGGAUAAAAACUCuU.................................................. len:24 al:6
....................AGCUUUCGuGGGAUAAAAACUC.................................................... len:22 al:2
....................AGCUUUCGgGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAACUCg................................................... len:23 al:2
....................AGCUUUCGCGGGAUAAAAACUCa................................................... len:23 al:441
....................AGCUUUCGCGGGAUAAAgACU..................................................... len:21 al:2
....................AGCUUUCGCGGGAUAAAAACc..................................................... len:21 al:45
....................AGCUUUCGuGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCaGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAgCUC.................................................... len:22 al:1
....................AGCUUUCGCGGGgUAAAAACU..................................................... len:21 al:2
....................AGCUUUCGCGGaAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAACUCu................................................... len:23 al:148
....................AGCUUUCGCGGGAUAAgAACU..................................................... len:21 al:2
....................AGCUUUCaCGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAACUCC................................................... len:23 al:66
....................AGCUUUCGCGGGAUAAAAACUCCa.................................................. len:24 al:18
....................gGCUUUCGCGGGAUAAAAACUC.................................................... len:22 al:1
....................AGCUUUCGCGGGAUAAAAACU..................................................... len:21 al:532
....................AGCUUUCGCGGGAUAAAAACUCuUU................................................. len:25 al:3
....................uGCUUUCGCGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAACUCCUUCAUGUa........................................... len:31 al:1
....................AGCUUUCGCGGGAUAAAAACa..................................................... len:21 al:14
....................AGCUUUCGCGGGAUgAAAACUCCUU................................................. len:25 al:1
....................AGCUUUCGCGGGcUAAAAACU..................................................... len:21 al:1
....................AGCUUcCGCGGGAUAAAAACU..................................................... len:21 al:5
....................AGCUUUCGCGGGAUAAAAACUCaU.................................................. len:24 al:10
....................AGCUUUCGCGGGAUAAAAACUCCUUCAUGc............................................ len:30 al:1
....................AGCUUUCGCGGGAUAAAAACUa.................................................... len:22 al:18
....................AGCUUUCGCGGGAUAAAgACUC.................................................... len:22 al:1
....................AGCUUUCGCGGGAUAAAAACUCCU.................................................. len:24 al:1
....................AGCUUUCGCGGGAUAAAAACg..................................................... len:21 al:3
....................AGCUUUCGCGGGAUAAAAACcC.................................................... len:22 al:4
....................AGCUUUCGCGGGAUAAAAACUCCUUCAUGUG........................................... len:31 al:1
....................AGCUUUCGCGGGAcAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGaGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCaCGGGAUAAAAACUC.................................................... len:22 al:1
....................AGCUUUCGCGGGAUAAAAACUCaUU................................................. len:25 al:12
....................AGCUUUCGaGGGAUAAAAACUC.................................................... len:22 al:1
....................AGCUUUCGCGGGAUAAAAACUC.................................................... len:22 al:346
....................AGCUUUCGCGGGAUAAAAACUCCUUCA............................................... len:27 al:13
....................AGCUUUCGCGGGAUAAAAAuU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAAAAC...................................................... len:20 al:16
....................AGCUUUCGaGGGAUAAAAACU..................................................... len:21 al:1
....................AGCUUUCGCGGGAUAAgAACUCC................................................... len:23 al:1
....................AGCUUUCGCGGGAUAAAAACUCCUUC................................................ len:26 al:4
.....................GCUUUCGCGGGAUAAAAACUCaUU................................................. len:24 al:2
.....................GCUUUCGCGGGAUAAAAACU..................................................... len:20 al:3
.....................GCUUUCGCGGGAUAAAAACUCu................................................... len:22 al:2
.....................GCUUUCGCGGGAUAAAAACUCg................................................... len:22 al:1
.....................GCUUUCGCGGGAUAAAAACUCaU.................................................. len:23 al:1
.....................GCUUUCGCGGGAUAAAAACUCa................................................... len:22 al:4
......................CUUUCGCGGGAUAAAAACUCCUUCAUGU............................................ len:28 al:1
......................CUUUCGCGGGAUAAAAACUCa................................................... len:21 al:1
.......................UcUCGCGGGAUAAAAACUC.................................................... len:19 al:1
.........................UCGCGGGAUAAAAACUCa................................................... len:18 al:1
............................................UCAUGUGAAUUUUUAGCCCGCGGAAGUUGCa................... len:31 al:2
.............................................CAUGUGAAUUUUUAGCCCGCGGAAGU....................... len:26 al:1
.............................................CAUGUGAAUUUUUAGCCCGCGGAAGUUGC.................... len:29 al:3
...............................................UGUGAAUUUUUAGCCCGCGGAAGUUGu.................... len:27 al:1
...................................................AAUUUUUAGCCCGCGGAAGUUGCG................... len:24 al:1
...................................................AAUUUUcAGCCCGCGGAAGUUGC.................... len:23 al:1
...................................................AAUUUUUAGCCCGCGGAAGUUa..................... len:22 al:3
...................................................AAUUUUUAGCCCGCGGAAGUU...................... len:21 al:1
...................................................AAUUUUUgGCCCGCGGAAGUUGC.................... len:23 al:1
...................................................AAUUUUUAGCCCGCGGAAGUUGu.................... len:23 al:30
...................................................AAUUUUUAGCCCGCGGAAGa....................... len:20 al:1
...................................................AAcUUUUAGCCCGCGGAAGUUGC.................... len:23 al:4
...................................................AAUUUUUAGCuCGCGGAAGUUGC.................... len:23 al:1
...................................................AAUUUUUAGCCCGCGGAAGUUG..................... len:22 al:3
...................................................AAUUUUUAGuCCGCGGAAGUUGC.................... len:23 al:1
...................................................AAUUgUUAGCCCGCGGAAGUUGC.................... len:23 al:1
...................................................AAUUUUUAGCCCGCGGAAGUUGCa................... len:24 al:5
...................................................AAUUUUUAGCCCGCGGAAGUUGCc................... len:24 al:2
...................................................AuUUUUUAGCCCGCGGAAGUUGC.................... len:23 al:1
...................................................AAUUUUUAGCCCGCGGAAGcUGC.................... len:23 al:1
...................................................AAUUUUUAGCCCGCGGAAGUUGC.................... len:23 al:100
...................................................AAUUUUUAGCCCGCGGAAGUUGCu................... len:24 al:8
...................................................AAUUUUUAGCCCGCGGgAGUUGC.................... len:23 al:1
....................................................cUUUUUAGCCCGCGGAAGUUGC.................... len:22 al:4
....................................................AUUUUUAGCCuGCGGAAGUUGC.................... len:22 al:15
....................................................AUUUUUAGCuCGCGGAAGUU...................... len:20 al:2
....................................................AUUUUUAGCCaGCGGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAaCCCGCGGAAGUUGC.................... len:22 al:3
....................................................AUUUUUAGCCCGCGGAAGUUGCGUc................. len:25 al:1
....................................................AUcUUUAGCCCGCGGAAGUU...................... len:20 al:2
....................................................AUUUUUAGCCCGCGGAAGUUGuG................... len:23 al:1
....................................................AUUUUUgGCCCGCGGAAGU....................... len:19 al:1
....................................................AUUUUUAGCCCGCGGAAGUUGC.................... len:22 al:9023
....................................................AUUUUUAGCCCGCGGAuGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAAGUUGCcU.................. len:24 al:7
....................................................AUUUUUAGCCCGCGGAAGUUGg.................... len:22 al:29
....................................................AUUUUUAGCuCGCGGAAGUUGC.................... len:22 al:10
....................................................AUUUUUAGCCCGCGGcAGUUGC.................... len:22 al:3
....................................................AUUUUUAGCCCGCGGAgGUUG..................... len:21 al:1
....................................................AUUUUUgGCCCGCGGAAGUU...................... len:20 al:1
....................................................AUUUcUAGCCCGCGGAAGUUGC.................... len:22 al:6
....................................................AUUUUUAGCCCGCGGAAGUUGCc................... len:23 al:642
....................................................AUUUUUAGCaCGCGGAAGUUGC.................... len:22 al:2
....................................................AcUUUUAGCCCGCGGAAGU....................... len:19 al:2
....................................................AUUUUUAGCCCGCGGgAGUUGC.................... len:22 al:16
....................................................AUUUaUAGCCCGCGGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCaCGGAAGUUGC.................... len:22 al:6
....................................................AUUUUUAGCCCGCGGAAGcUG..................... len:21 al:1
....................................................AUUUUUuGCCCGCGGAAGUUGC.................... len:22 al:2
....................................................AUUUUUAGCCCGCGGgAGUU...................... len:20 al:1
....................................................AUUaUUAGCCCGCGGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAAGUUGCu................... len:23 al:4947
....................................................AUUUUUcGCCCGCGGAAGUU...................... len:20 al:1
....................................................AUaUUUAGCCCGCGGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAAGa....................... len:19 al:2
....................................................AUUUUUAGCCCGCGGuAGUUG..................... len:21 al:1
....................................................gUUUUUAGCCCGCGGAAGUUGCGU.................. len:24 al:1
....................................................AUUUUUAGCCCGCGGAAGUUa..................... len:21 al:16
....................................................AUUUUUAGCCCGCaGAAGUUGC.................... len:22 al:7
....................................................AcUUUUAGCCCGCGGAAGUUGC.................... len:22 al:17
....................................................AUUUUUAGCCCGuGGAAGUUGC.................... len:22 al:6
....................................................AUUUUUAGCCCGCGGAAGUUGgG................... len:23 al:1
....................................................AUUUgUAGCCCGCGGAAGUUGC.................... len:22 al:2
....................................................AUUUUUAGCCCGCGGAAGUUaCG................... len:23 al:1
....................................................AUUUUUcGCCCGCGGAAGUUG..................... len:21 al:1
....................................................AUUUUUAGCCCGCGGAAGUUaC.................... len:22 al:23
....................................................AUUUUUAGCCCGCGGAAGUUGCGUA................. len:25 al:3
....................................................AUUUUUAGCCCGCGGAAGUUGCaUA................. len:25 al:196
....................................................AUUaUUAGCCCGCGGAAGUU...................... len:20 al:1
....................................................AUUUUUAGCCCGCGGAAGUUcC.................... len:22 al:4
....................................................AUcUUUAGCCCGCGGAAG........................ len:18 al:2
....................................................AUUUUUAGCCCGCGGAAGUU...................... len:20 al:153
....................................................AUUUUUAGCCCGCGGAAGUUGCG................... len:23 al:92
....................................................AUUUUUAGCCCGCGGAgGUUGC.................... len:22 al:26
....................................................AUUUUUAGuCCGCGGAAGUU...................... len:20 al:1
....................................................AUUUUUAGCCCGCGGAAGUUGa.................... len:22 al:289
....................................................AUUUUUAGCCCGCGGAAGUUGCaUAAG............... len:27 al:1
....................................................AUUUUUAGCCCGCGGAAGUUu..................... len:21 al:2
....................................................AUUUUUAGCCCGCGGAAGU....................... len:19 al:116
....................................................AUUUUUAGCCCGCGGAAaUUGC.................... len:22 al:3
....................................................AUUUUUAGCCCGCuGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAuCCCGCGGAAGUUGC.................... len:22 al:6
....................................................AUUUUUAGuCCGCGGAAGUUGC.................... len:22 al:18
....................................................AUUUUUAGCCCGCGGAAGUUGCaU.................. len:24 al:480
....................................................AUUUUUAGCCCGCGGAAGUUGu.................... len:22 al:2571
....................................................AUUUUUAGCCCGCGGAAGUUc..................... len:21 al:5
....................................................AUUUaUAGCCCGCGGAAGUUGCG................... len:23 al:1
....................................................AUUUUUAGCCCGCGGAAG........................ len:18 al:10
....................................................AUUUUUAGCCCGaGGAAGUUGC.................... len:22 al:2
....................................................gUUUUUAGCCCGCGGAAGUU...................... len:20 al:2
....................................................AUUUUUAGCCCGCGGAAu........................ len:18 al:1
....................................................AUUUUUuGCCCGCGGAAGUUGCG................... len:23 al:1
....................................................AUUUUUAGCCCGCGGAAGUcG..................... len:21 al:1
....................................................uUUUUUAGCCCGCGGAAGUUGC.................... len:22 al:5
....................................................AUUUUUAGCCCuCGGAAGUUGC.................... len:22 al:1
....................................................AUgUUUAGCCCGCGGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAcGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCcCGGAAGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGaGGAAGUUGCG................... len:23 al:1
....................................................AUUUUUAGCCCGCGG........................... len:15 al:1
....................................................AUUUUUgGCCCGCGGAAGUUG..................... len:21 al:1
....................................................AUUUUUAGCCCGCGGAAuUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAAGUUGCuUA................. len:25 al:74
....................................................AUcUUUAGCCCGCGGAAGUUGC.................... len:22 al:18
....................................................AUUUUUAGCCCGCGGAAGg....................... len:19 al:2
....................................................AUUUUUAGCCCGCGGAAuU....................... len:19 al:1
....................................................AUUUUUAGCCCGCGGAAGUaGC.................... len:22 al:3
....................................................AUUUUUAGCCCGCGuAAGUUGC.................... len:22 al:2
....................................................AUUUUUAGCaCGCGGAAGUU...................... len:20 al:1
....................................................AUUUUUAGCCCGCGGAAGUgGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAAGcU...................... len:20 al:1
....................................................gUUUUUAGCCCGCGGAAGUUGC.................... len:22 al:27
....................................................AUUUUUAcCCCGCGGAAGUUGC.................... len:22 al:2
....................................................AUUUUUAGCCCGCGGA.......................... len:16 al:7
....................................................AUUUUUAGCCCGCGGAAGUUGCuU.................. len:24 al:341
....................................................AUUUUUAGCCCGCGGAAGgUGC.................... len:22 al:2
....................................................AUUUUUAGCCCGCGGAAGUc...................... len:20 al:14
....................................................AUUUUUgGCCCGCGGAAGUUGC.................... len:22 al:17
....................................................AUUUUUAGCCCGCGGAAGUUGCGU.................. len:24 al:3
....................................................AUUUUUAGCCCGCGGAAGUUGCa................... len:23 al:2376
....................................................AUUUUUcGCCCGCGGAAGUUGC.................... len:22 al:10
....................................................gUUUUUAGCCCGCGGAAGUUG..................... len:21 al:2
....................................................AUUUUUAGCCCGCGGAAGaUGC.................... len:22 al:2
....................................................AUUUUUAGCCCGCGGAAGc....................... len:19 al:11
....................................................AUUUUUAGCCCGCGGAAGcUGC.................... len:22 al:17
....................................................AUUUUcAGCCCGCGGAAGUUGC.................... len:22 al:17
....................................................AUUUUUAGCuCGCGGAAGUUG..................... len:21 al:2
....................................................AUUUUUAGCCCGCGGAAGUUG..................... len:21 al:283
....................................................AUUUUUAGCCCGCGaAAGUUGC.................... len:22 al:1
....................................................AUUUUUAGCCCGCGGAAGUcGC.................... len:22 al:19
....................................................AUUUUUAGCCCGCcGAAGUUGC.................... len:22 al:1
....................................................AUUcUUAGCCCGCGGAAGUUGC.................... len:22 al:9
.....................................................UUUUUAGCCCGCGGAAGUUGCaU.................. len:23 al:7
.....................................................UUUUUAGCCCGCGGAAGUUGCu................... len:22 al:198
.....................................................UUUUUAGCuCGCGGAAGUUGC.................... len:21 al:1
.....................................................UUUUUAGCCCGCGGAAGUUGu.................... len:21 al:53
.....................................................UUUUUAGCCCGCGGAAGUUGCG................... len:22 al:6
.....................................................UUUUUAGCCCGCGGAAGUUG..................... len:20 al:4
.....................................................UUUUUAaCCCGCGGAAGUUGC.................... len:21 al:1
.....................................................UUUUUAGCCCGCGGAAGUUGCc................... len:22 al:39
.....................................................UUUUUAGCCCGCGGAAGUUGCuU.................. len:23 al:20
.....................................................UUUUUAGCCCGCGGAAGUUGCa................... len:22 al:113
.....................................................UUUUUAGCCCGCGGAAGUcGC.................... len:21 al:2
.....................................................UUUUUAGCCCGCGGAAGUU...................... len:19 al:7
.....................................................UUUUUAGCCCGCGGAAGUUGCuUA................. len:24 al:2
.....................................................UUUUUAGCCCGCGGAAGUUGa.................... len:21 al:3
.....................................................UUUcUAGCCCGCGGAAGUUGC.................... len:21 al:1
.....................................................cUUUUAGCCCGCGGAAGUU...................... len:19 al:2
.....................................................aUUUUAGCCCGCGGAAGUUGC.................... len:21 al:9
.....................................................UUUUUAGCCCGCGGAAGUUGCaUA................. len:24 al:3
.....................................................aUUUUAGCCCGCGGAAGUUGCG................... len:22 al:1
.....................................................UUUUcAGCCCGCGGAAGUU...................... len:19 al:1
.....................................................UUUUUAGCCCGCGGAAGcUGC.................... len:21 al:1
.....................................................UUUUUAGCCCGCGGAAGUUGC.................... len:21 al:163
.....................................................UUcUUAGCCCGCGGAAGUUGC.................... len:21 al:1
.....................................................UUUUUAGCCCGCGGAAGU....................... len:18 al:2
......................................................UUUUAGCCCGCGGAAGUUGCaU.................. len:22 al:5
......................................................UUUUAGCCuGCGGAAGUUGC.................... len:20 al:1
......................................................cUUUAGCCCGCGGAAGUUGC.................... len:20 al:1
......................................................UUUUAGCCCGCGGAAGUUGu.................... len:20 al:13
......................................................UUUUAGCCCGCGGAAGUUGC.................... len:20 al:63
......................................................UUUUAGCCCGCGGAAGUUGCa................... len:21 al:44
......................................................UUUUAGCCCGCGGAAGUUGCuU.................. len:22 al:6
......................................................UUUUAGCCCGCGGAAGUUGCu................... len:21 al:53
......................................................UUUUAGCCCGCGGAAGUc...................... len:18 al:1
......................................................UUUUgGCCCGCGGAAGUU...................... len:18 al:1
......................................................UUUUAGCCCGCGGAAGUU...................... len:18 al:8
......................................................UUUUAGCCCGCGGAAGUUGCc................... len:21 al:7
......................................................UUUUAGCCCGCGGAAGUUG..................... len:19 al:2
......................................................UUUUAGCCCGCGGAAGUUGa.................... len:20 al:3
.......................................................UUUAGCCCGCGGAAGUUa..................... len:18 al:1
.......................................................UUUAGCCCGCGGAAGUUGCa................... len:20 al:10
.......................................................UUUAGCCCGCGGAAGUUGCuU.................. len:21 al:4
.......................................................UUUAGCCCGCGGAAGUUGC.................... len:19 al:4
.......................................................UUUAGCCCGCGGAAGUUGCG................... len:20 al:1
.......................................................UUUAGCCCGCGGAAGUUGCu................... len:20 al:10
.......................................................UUUAGCCCGCGGAAGUUGCaUA................. len:22 al:1
.......................................................UUUAGCCCGCGGAAGUUGu.................... len:19 al:1
........................................................UUAGCCCGCGGAAGUUGCuU.................. len:20 al:1
........................................................UUAGCCCGCGGAAGUUGu.................... len:18 al:1
........................................................UUAGCCCGCGGAAGUUGCa................... len:19 al:2
..........................................................AGCCCGCGGAAGUUGCaU.................. len:18 al:1