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: ptg000001l:20063072-20063168 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_2646.ps.pdf
Locus Name: Cluster_2646
UGUUGCAAGUUCAGCUUGGAUUAAGAACACCCAAAAUAGCUGAGGAUUUUGUUUCCUGCUAUAUUGAGUGUUCUAACUCCUGCGAGAGCCUAGUGCA
...((((.((((.((..(((...(((((((.(((.(((((..((((.......))))))))).))).)))))))...))).))..))))....)))) (-31.70)
..................GAUUAAGAACACCCAAAAUAGCUGAGGAUc................................................. len:30 al:1
....................cUAAGAACACCCAAAAUAGCUGAGG.................................................... len:25 al:1
.....................cAAGAACACCCAAAAUAGCUGAGG.................................................... len:24 al:1
.....................cAAGAACACCCAAAAUAGCUG....................................................... len:21 al:1
.....................cAAGAACACCCAAAAUAGCUGAG..................................................... len:23 al:1
.....................UAAGAgCACCCAAAAUAGCUGAGG.................................................... len:24 al:1
.....................UAAGAACACCCAAAAUAGCU........................................................ len:20 al:1
.....................UAgGAACACCCAAAAUAGCUG....................................................... len:21 al:1
.....................UAAGAACACCCAAAAUAGC......................................................... len:19 al:1
.....................cAAGAACACCCAAAAUAGCUGAGGA................................................... len:25 al:2
.....................UAAGAACACCCAAAAUAGCUGAGGAaU................................................. len:27 al:1
.....................UAAGAACACCCAAAAUAGCUGAGG.................................................... len:24 al:112
.....................UAAGAACACCCAgAAUAGCUGA...................................................... len:22 al:2
.....................UAAGAACACCCAAAAUAGCUG....................................................... len:21 al:4
.....................UAAGAACACCCAAAAUAGCUGAG..................................................... len:23 al:14
.....................UAAGAACACCCAAAAUAGCUGAGu.................................................... len:24 al:1
.....................UAAGAACACCCAAAAUAGCUGAGGAUU................................................. len:27 al:2
.....................UAAGAACACCCAgAAUAGCUGAGGAU.................................................. len:26 al:1
.....................UAAGAACACCCAAAAUAGCUGAGGA................................................... len:25 al:26
.....................UAAGAACACCCAAAAUAGCUGAGa.................................................... len:24 al:8
.....................UAAGAACACCCAAAAUAGCUGAGGAa.................................................. len:26 al:1
.....................UAAGAACACCCAAAAUAGCUGAGGAU.................................................. len:26 al:3
.....................UAAGAACACCCAAAAUAGCUGA...................................................... len:22 al:8
.....................UAAGAACACCCAAAgUAGCUGAGG.................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUGAGGAg.................................................. len:25 al:4
......................AAGAACACCCgAAAUAGCUGAGG.................................................... len:23 al:9
......................AAGAACACCCAAAcUAGCUGAGG.................................................... len:23 al:3
......................AgGAACACCCAAAAUAGCUGAG..................................................... len:22 al:7
......................AAGAACAuCCAAAAUAGCUGAGG.................................................... len:23 al:5
......................AAGAACACCCAAAAUAGCUGu...................................................... len:21 al:19
......................AAGAACACCCcAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACACCCAAAgUAGCUG....................................................... len:20 al:1
......................AAGAACACCCAAAAUAGCUGAGGAgU................................................. len:26 al:1
......................AAGAACACCCAAAAcAGCUGAG..................................................... len:22 al:2
......................AAGAACACCCAAAAUAGCaGAGG.................................................... len:23 al:2
......................AcGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:4
......................AAGAACAaCCAAAAUAGCUGAGG.................................................... len:23 al:3
......................AAGAACACCCAAAAUAGCUGcGG.................................................... len:23 al:2
......................AAGAACACCCAAAgUAGCUGAGGA................................................... len:24 al:4
......................AAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:2806
......................AAGAcCACCCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACCCAgAAUAGC......................................................... len:18 al:1
......................AAGAACACCCAAAAcAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAgAAUAGCUGAG..................................................... len:22 al:3
......................AAGAACACCCAAAAUAGCUGAGGg................................................... len:24 al:29
......................AAGAACACCCAgAAUAGCUGAGGA................................................... len:24 al:6
......................AAGAACACCCAAAAUAGCc........................................................ len:19 al:5
......................AAGAACAuCCAAAAUAGCUGA...................................................... len:21 al:6
......................AAGAACcCCCAAAAUAGCUG....................................................... len:20 al:2
......................uAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAAAUAGCcGA...................................................... len:21 al:2
......................AAGAACACCCAAAAUAGCUGAGGAc.................................................. len:25 al:15
......................AAGAACACCCAAAAUAGCg........................................................ len:19 al:2
......................AAGAACcCCCAAAAUAGCUGAGG.................................................... len:23 al:8
......................AAGAACACCCAAAAUAaCUGAGG.................................................... len:23 al:5
......................AAGAACcCCCAAAAUAGCUGA...................................................... len:21 al:3
......................AAGAgCACCCAAAAUAGCU........................................................ len:19 al:1
......................AAGAAuACCCAAAAUAGCUGAGGA................................................... len:24 al:3
......................AAGAACACCCAAAAUAGuUGAGGA................................................... len:24 al:4
......................AAGAACACCCAAAAUAaCUGAGGA................................................... len:24 al:3
......................AuGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:4
......................AAGAACACCCAAgAUAGCUGAGG.................................................... len:23 al:13
......................cAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:1
......................AAGAACACCCAAAAUAGCUGAGGAUc................................................. len:26 al:9
......................AAGAACACuCAAAAUAGCUGAGG.................................................... len:23 al:10
......................AAGAACACCCAAAAUAGCUGAGGc................................................... len:24 al:2
......................AAGAACACCCAAcAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUgGCUGAG..................................................... len:22 al:2
......................AAGAACACCCAAAAUAGCUGAaG.................................................... len:23 al:6
......................AAGAACgCCCAAAAUAGCUGAGGA................................................... len:24 al:16
......................AAGuACACCCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGuUGA...................................................... len:21 al:1
......................AAGcACACCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAAcAGCUGAGGA................................................... len:24 al:1
......................AAGuACACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACAaCCAAAAUAGCUGAG..................................................... len:22 al:1
......................AAGAACACCCAAAAUAGC......................................................... len:18 al:21
......................AAGAACACCCAAAAUAGCUGAaGA................................................... len:24 al:3
......................AAGAACACCCAAgAUAGCUGAGGA................................................... len:24 al:6
......................AAGAACACCCAAgAUAGCUGAG..................................................... len:22 al:1
......................AgGAACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:3
......................AAGAACACCCAgAAUAGCUGAGG.................................................... len:23 al:15
......................AAGAACACCCcAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCuAAAAUAGCUGAGG.................................................... len:23 al:8
......................AAGgACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:3
......................AAGAACACCCAAAAUAGCUGAu..................................................... len:22 al:9
......................AAGAACACCCAAAAUAGCUGAcG.................................................... len:23 al:13
......................AAGAACACCCAAAcUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAcAUAGCUGAGGA................................................... len:24 al:3
......................AAGAACACCCAAgAUAGCUGA...................................................... len:21 al:4
......................AAGAACACCCAAAAUAaCUGA...................................................... len:21 al:2
......................AAGAcCACCCAAAAUAGCUGAG..................................................... len:22 al:1
......................uAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUu....................................................... len:20 al:2
......................AAGAgCACCCAAAAUAGCUG....................................................... len:20 al:1
......................gAGAACACCCAAAAUAGCUGA...................................................... len:21 al:7
......................AAGAACACCCAAgAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACaCAAAAUAGCUGAGGA................................................... len:24 al:4
......................AAGAACAgCCAAAAUAGCUGAGG.................................................... len:23 al:2
......................AAGAACACCCAAAAUAGCUGAGGAUUU................................................ len:27 al:2
......................AAGAACACCCAAAAUAGCUc....................................................... len:20 al:3
......................AAGAACuCCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCgGAGG.................................................... len:23 al:1
......................AAGgACACCCAAAAUAGCUGAGGA................................................... len:24 al:6
......................AAGAACACCCAAAAUAGCUGAGa.................................................... len:23 al:638
......................AAGAACACCCAAAAUAGCaGAGGA................................................... len:24 al:1
......................AAGcACACCCAAAAUAGCUGAGG.................................................... len:23 al:3
......................AAGAgCACCCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCU........................................................ len:19 al:55
......................AAGAACACCCAAAAUAGCUGgGGA................................................... len:24 al:14
......................AAGAACACCCAAAAUAGCUGAa..................................................... len:22 al:95
......................AAGAACACCCAAAAUgGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAgUAGCUGAG..................................................... len:22 al:1
......................AAGAACACCCgAAAUAGCUGAG..................................................... len:22 al:3
......................cAGAACACCCAAAAUAGCUG....................................................... len:20 al:1
......................AAaAACACCCAAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACACCCAAcAUAGCUGAGG.................................................... len:23 al:1
......................AAGAACACCCAAAAUAGCUG....................................................... len:20 al:435
......................gAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:9
......................AAGAACACCCAAAAUAGCUGAG..................................................... len:22 al:886
......................AAGAACACCCAAAAUAGCaGAG..................................................... len:22 al:1
......................AAGAACACCCAAAAUAGCUaAGG.................................................... len:23 al:3
......................AAGAACuCCCAAAAUAGCUGAGG.................................................... len:23 al:1
......................AAGAACACaCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................cAGAACACCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAgCACCCAAAAUAGCUGAG..................................................... len:22 al:3
......................AAGAACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:192
......................AAGAACACCCAAAgUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAcAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAaCUGAG..................................................... len:22 al:2
......................AAGAACACCCAgAAUAGCUGA...................................................... len:21 al:5
......................AAGAACACCCAAAAU............................................................ len:15 al:1
......................AAGAACACCCAAAAUAGCcG....................................................... len:20 al:4
......................AAGgACACCCAAAAUAGCUGAGGAUU................................................. len:26 al:1
......................AAGAACACCCuAAAUAGCUGAGG.................................................... len:23 al:2
......................AAGAACACCCAAAAUAGCUGA...................................................... len:21 al:1419
......................AAGAACACaCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACgCCCAAAAUAGCUGA...................................................... len:21 al:6
......................gAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:22
......................AAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:7231
......................AAGAACACCCAAAAUAGCaGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUgGCU........................................................ len:19 al:1
......................AAGAACACCCAAAAUAGCUGgGGAU.................................................. len:25 al:1
......................AAGAACACCCAAAAUgGCUGAGGA................................................... len:24 al:4
......................uAGAACACCCAAAAUAGCUG....................................................... len:20 al:2
......................AAGAACACCCAAAAUgGCUGAGG.................................................... len:23 al:23
......................AAGAAuACCCAAAAUAGCUGAGG.................................................... len:23 al:5
......................AgGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:21
......................AAGAACACCCgAAAUAGCUGAGGA................................................... len:24 al:8
......................AAGgACACCCAAAAUAGCUGAGG.................................................... len:23 al:26
......................AAGgACACCCAAAAUAGCUG....................................................... len:20 al:2
......................AAGgACACCCAAAAUAGCUGA...................................................... len:21 al:3
......................AAGAACACaCAAAAUAGCUGAGG.................................................... len:23 al:2
......................AAGAgCACCCAAAAUAGCUGAGGA................................................... len:24 al:12
......................AAGAACACCCAAAAUuGCUGAGGAUU................................................. len:26 al:2
......................AcGAACACCCAAAAUAGCUGA...................................................... len:21 al:1
......................gAGAACACCCAAAAUAGCUG....................................................... len:20 al:4
......................AAGAACACuCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAAUAGCUGAGGAUU................................................. len:26 al:140
......................AAGAACACCCAAAAUAGgUGAGG.................................................... len:23 al:1
......................AAGAACACCCAAAAUgGCUG....................................................... len:20 al:4
......................AAGAACACCCAAAAUcGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAcAAUAGCUGAGGA................................................... len:24 al:2
......................AAGgACACCCAAAAUAGCUGAG..................................................... len:22 al:1
......................AAGAACACCCAAAAUAGCUGgG..................................................... len:22 al:3
......................AAGAACACCuAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGAGGAUa................................................. len:26 al:22
......................AAGAACACCCAAAAUAGCUGAGGuU.................................................. len:25 al:2
......................AgGAACACCCAAAAUAGCUGA...................................................... len:21 al:4
......................AAGAACgCCCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACCCAAAgUAGCUGAGG.................................................... len:23 al:15
......................AAGAACACCCAAAAUAGCa........................................................ len:19 al:7
......................AAGAACACCCAAAAUAGCcGAGG.................................................... len:23 al:16
......................cAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCgGA...................................................... len:21 al:1
......................AAGAACcCCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACgCCCAAAAUAGCUGAGG.................................................... len:23 al:37
......................AAGAACAaCCAAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACgCCCAAAAUAGCUGAGGAUU................................................. len:26 al:1
......................AAGAcCACCCAAAAUAGCUGAGG.................................................... len:23 al:5
......................AAGAACACCCAAAAUAGCUGAGGgUU................................................. len:26 al:2
......................AAGAACACCCAAAAUAGuUGAGG.................................................... len:23 al:11
......................AAGAACACCCAAAAUAGCUGg...................................................... len:21 al:11
......................AAGAACgCCCAAAAUAGCUG....................................................... len:20 al:4
......................AAGAACACCCAAAAUAGCUGAGc.................................................... len:23 al:29
......................AAGAACACCCAAAAUAGCUGc...................................................... len:21 al:1
......................AAGAcCACCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAACAuCCAAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACACCCAAAAUAGCUaAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCcGAGGA................................................... len:24 al:13
......................AAGAACACCCAAAAUAGCUGAGGAcU................................................. len:26 al:4
......................AAGAACACCCAAAAUAGCgG....................................................... len:20 al:2
......................AAGAACACCCAAAAUAGCUGAGGAUUc................................................ len:27 al:1
......................AAGAACACCCAAAAUAGCUa....................................................... len:20 al:37
......................AAGAACACCCAAcAUAGCUG....................................................... len:20 al:1
......................AAGAACACuCAAAAUAGCUGAGGA................................................... len:24 al:4
......................AAGAACACCCAAAAUAGCUGAGGAaU................................................. len:26 al:4
......................AAGAACACCCAAAAUAGCUGAGGAa.................................................. len:25 al:25
......................AAcAACACCCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGAGcA................................................... len:24 al:5
......................gAGAACACCCAAAAUAGCUGAG..................................................... len:22 al:3
......................AgGAACACCCAAAAUAGCUG....................................................... len:20 al:3
......................AgGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:9
......................AAGAACACCCAAAcUAGCUGAGGAUU................................................. len:26 al:1
......................AAGAACACCCAAAAUAuCUGAGG.................................................... len:23 al:2
......................AAGuACACCCAAAAUAGCUGAGG.................................................... len:23 al:6
......................AAGcACACCCAAAAUAGCUGAGGA................................................... len:24 al:3
......................AAGAACACCCAAAAUAGCUGAGGu................................................... len:24 al:32
......................AAGAgCACCCAAAAUAGCUGAGG.................................................... len:23 al:23
......................AAGAACACCCAcAAUAGCUGAGG.................................................... len:23 al:3
......................AAGAACACCCcAAAUAGCUGAGG.................................................... len:23 al:5
......................AAGAACACCCAAAAUAGCUGgGG.................................................... len:23 al:21
......................AAGAACACCCAAAAUAGCUGAGaA................................................... len:24 al:3
......................AAGAACACCuAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUcAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUGuG..................................................... len:22 al:1
......................AAGAcCACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAgUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAuCACCCAAAAUAGCUGAGG.................................................... len:23 al:3
......................AAGAACACCCAAAAUAGCUGAGu.................................................... len:23 al:103
.......................AGAACACCCAAAAUAGCUGA...................................................... len:20 al:4
.......................AGAACACCCAAAAUAGCUGAGGA................................................... len:23 al:1
.......................AGAACACCCAAAAUAGCUGAGG.................................................... len:22 al:1
........................GAACACCCAAAAUAGCUGAGGA................................................... len:22 al:1
.........................AACACCCAAAAUAGCUGAGG.................................................... len:20 al:2
..........................ACACCCAAAAUAGCUGAG..................................................... len:18 al:1
............................................GAUUUUGUUUCCUGCUAUAUUGAGUGUU......................... len:28 al:4
............................................GAUUUUGUUUCCUGCUAUAUUGAGU............................ len:25 al:1
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUUCUAAC.................... len:31 al:9
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUU......................... len:26 al:1
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUUCU....................... len:28 al:1
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUUCUAAu.................... len:31 al:1
...............................................UUUGUUUCCUGCUAUAUUGAGU............................ len:22 al:1
......................................................CCUGCUAUAUUGAGUGUUCUAAC.................... len:23 al:3
.......................................................CUGCUAUAUUGAGUGUUC........................ len:18 al:4
.......................................................CUGCUAUAUUGAGUGUUCUAACg................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUu........................ len:18 al:1
.......................................................CUGCUAUAUUGAGUGUUCUA...................... len:20 al:3
.......................................................CUGCUAaAUUGAGUGUUCUAAC.................... len:22 al:1
.......................................................CUGCUAUAUUGcGUGUUC........................ len:18 al:1
.......................................................CUGuUAUAUUGAGUGUUCUAAC.................... len:22 al:1
.......................................................CUGCUAUAUUGAGUGUUCUAACa................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUCUAACUa.................. len:24 al:1
.......................................................CUGCUAUAUUGAGUGUUCUAACc................... len:23 al:7
.......................................................CUGCUAUAUUGAGUGUUCUAA..................... len:21 al:4
.......................................................CUGCUAUAUUGAGUGUUuUAACU................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUCU....................... len:19 al:8
.......................................................CUGCUAUAUUGAGcGUUCUAACU................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUCUAACU................... len:23 al:40
.......................................................CUGCUAUAUUGAGUGUUCUAAC.................... len:22 al:203
.......................................................CUGCUgUAUUGAGUGUUCUAAC.................... len:22 al:2
.......................................................CUGCUAUAUUGAGUGUUCUAAu.................... len:22 al:5
........................................................UGCUAUAUUGAGUGUUCUAAC.................... len:21 al:2
........................................................UGCUAUAUUGAGUGUUCUAACU................... len:22 al:2
.........................................................GCUAUAUUGAGUGUUCUAAC.................... len:20 al:1
.............................................................UAUUGAGUGUUCUAACUCCUGCGAGAaCC....... len:29 al:1
..............................................................................CCUGCGAGAGCCUAGUGu. len:18 al:2