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/04-Apul-sRNA-discovery-ShortStack/ShortStack_out/merged_alignments.bam
Location: ptg000001l:20063072-20063168 plus
PDF file name: /home/shared/8TB_HDD_02/shedurkin/timeseries_molecular/D-Apul/output/04-Apul-sRNA-discovery-ShortStack/ShortStack_out/strucVis/Cluster_2746.ps.pdf
Locus Name: Cluster_2746
UGUUGCAAGUUCAGCUUGGAUUAAGAACACCCAAAAUAGCUGAGGAUUUUGUUUCCUGCUAUAUUGAGUGUUCUAACUCCUGCGAGAGCCUAGUGCA
...((((.((((.((..(((...(((((((.(((.(((((..((((.......))))))))).))).)))))))...))).))..))))....)))) (-31.70)
..................GAUUAAGAACACCCAAAAUAGCUGAGGAUc................................................. len:30 al:1
....................cUAAGAACACCCAAAAUAGCUGAGG.................................................... len:25 al:1
.....................UAgGAACACCCAAAAUAGCUG....................................................... len:21 al:1
.....................UAAGAACACCCAAAAUAGCUGAGGAaU................................................. len:27 al:1
.....................UAAGAACACCCAAAAUAGCUGA...................................................... len:22 al:8
.....................cAAGAACACCCAAAAUAGCUG....................................................... len:21 al:1
.....................UAAGAACACCCAAAAUAGCU........................................................ len:20 al:1
.....................UAAGAACACCCAAAAUAGCUGAGa.................................................... len:24 al:8
.....................UAAGAACACCCAAAAUAGCUGAG..................................................... len:23 al:17
.....................cAAGAACACCCAAAAUAGCUGAGGA................................................... len:25 al:4
.....................UAAGAACACCCAAAAUAGCUGAGu.................................................... len:24 al:1
.....................UAAGAACACCCAAAAUAGCUGAGG.................................................... len:24 al:120
.....................UAAGAACACCCAAAgUAGCUGAGG.................................................... len:24 al:1
.....................cAAGAACACCCAAAAUAGCUGAG..................................................... len:23 al:2
.....................UAAGAACACCCAAAAUAGCUGAGGAa.................................................. len:26 al:1
.....................UAAGAACACCCAAAAUAGC......................................................... len:19 al:1
.....................UAAGAACACCCAgAAUAGCUGAGGAU.................................................. len:26 al:1
.....................UAAGAACACCCAAAAUAGCUGAGGAU.................................................. len:26 al:3
.....................UAAGAACACCCAAAAUAGCUG....................................................... len:21 al:4
.....................UAAGAgCACCCAAAAUAGCUGAGG.................................................... len:24 al:1
.....................UAAGAACACCCAgAAUAGCUGA...................................................... len:22 al:2
.....................UAAGAACACCCAAAAUAGCUGAGGAUU................................................. len:27 al:2
.....................cAAGAACACCCAAAAUAGCUGAGG.................................................... len:24 al:1
.....................UAAGAACACCCAAAAUAGCUGAGGA................................................... len:25 al:29
......................AAGAACACCCAAAAUgGCUG....................................................... len:20 al:4
......................AAGAACACCCAAAAUAGCUGAGGuU.................................................. len:25 al:2
......................AAGAACACCCAAAAUAGCaGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCa........................................................ len:19 al:7
......................gAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:25
......................AAGAACACCCAAAAUAGCgG....................................................... len:20 al:2
......................AAGAACACCCAAAAUAGCUGAGGgUU................................................. len:26 al:2
......................AAGAACACCCAAAAUAGCcGA...................................................... len:21 al:2
......................AAGcACACCCAAAAUAGCUGAGGA................................................... len:24 al:4
......................AAGAACACCCAAAAUAGuUGAGGA................................................... len:24 al:4
......................AAGAACACaCAAAAUAGCUGAGGA................................................... len:24 al:5
......................AAGAgCACCCAAAAUAGCU........................................................ len:19 al:1
......................AAGAACACCCAAAAU............................................................ len:15 al:2
......................AAGAACACCCgAAAUAGCUGAGGA................................................... len:24 al:8
......................AAGAACACCCAAgAUAGCUGAG..................................................... len:22 al:2
......................AAGAACACCCAAAAUAGCUGAGGAUa................................................. len:26 al:23
......................cAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................gAGAACACCCAAAAUAGCUG....................................................... len:20 al:4
......................AAGAACACCCAAAAUAGCUu....................................................... len:20 al:2
......................AAGAACACCCAAAAUAGCUGAGc.................................................... len:23 al:30
......................AAGAACACCCAAAAUAGCUa....................................................... len:20 al:38
......................AAGAACACCCAAAAUAGCUc....................................................... len:20 al:3
......................AAGAACAaCCAAAAUAGCUGAGG.................................................... len:23 al:3
......................AAGAACAuCCAAAAUAGCUGA...................................................... len:21 al:6
......................AAGAACACCCAAAAUAGCUGAGuA................................................... len:24 al:1
......................AAGAACACuCAAAAUAGCUGAGGA................................................... len:24 al:4
......................AAGAACACCCAAAAUAGCcGAGGA................................................... len:24 al:13
......................AAGAACACCCAAcAUAGCUGAGGA................................................... len:24 al:3
......................AAGAACACCCAcAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACgCCCAAAAUAGCUGA...................................................... len:21 al:7
......................AAGAACACCCAAAAUAGCgGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGAGGAUUUU............................................... len:28 al:1
......................AAGAACACCCAgAAUAGCUGAG..................................................... len:22 al:3
......................AAGAACACCCAAAAUAGCUGAGGAa.................................................. len:25 al:26
......................AAGAACACCCAAAAUAGCaGAG..................................................... len:22 al:1
......................AAGAACgCCCAAAAUAGCUG....................................................... len:20 al:4
......................AAGAACACCCAAAAUAGCUGAaG.................................................... len:23 al:6
......................AAGAACACCCAcAAUAGCUGAGG.................................................... len:23 al:5
......................AAGAACACuCAAAAUAGCUGAGG.................................................... len:23 al:10
......................AAGAACuCCCAAAAUAGCUGAGG.................................................... len:23 al:1
......................AAGAACACCCAAAAUAGCUGAGGu................................................... len:24 al:32
......................AAaAACACCCAAAAUAGCUGAGGA................................................... len:24 al:2
......................gAGAACACCCAAAAUAGCUGA...................................................... len:21 al:7
......................AAGAACACCCAAAAUAGCUGu...................................................... len:21 al:11
......................AAGAACACCCAAAAcAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAAAUgGCUGAGG.................................................... len:23 al:27
......................AAGAACACCCAAAAUAGCcGAGG.................................................... len:23 al:16
......................AAGAACACaCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................AcGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:4
......................uAGAACACCCAAAAUAGCUG....................................................... len:20 al:2
......................AAGAACACCuAAAAUAGCUGAGG.................................................... len:23 al:9
......................AAGAACACCCcAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACgCCCAAAAUAGCUGAGG.................................................... len:23 al:39
......................AAGAACAuCCAAAAUAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAgAUAGCUGAGG.................................................... len:23 al:13
......................AAGAACACCCAAAAUAGCUGcGG.................................................... len:23 al:2
......................AAGAACAaCCAAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACACCCAAAAUAGCUGgGG.................................................... len:23 al:23
......................AAGAACACCCAAcAUAGCUG....................................................... len:20 al:1
......................cAGAACACCCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACaCAAAAUAGCUGAGG.................................................... len:23 al:2
......................AAGAgCACCCAAAAUAGCUGAGGA................................................... len:24 al:14
......................AAGcACACCCAAAAUAGCUGAGG.................................................... len:23 al:3
......................AuGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:4
......................AAGAACACCCAgAAUAGCUGAGGA................................................... len:24 al:6
......................AcGAACACCCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAgUAGCUGAGG.................................................... len:23 al:18
......................AAGcACACCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAAUAGCU........................................................ len:19 al:54
......................AAGAACACCCAAAAUgGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAAUAGuUGAGG.................................................... len:23 al:11
......................AAGAACACCCAAAAUAGCcG....................................................... len:20 al:4
......................AAGAcCACCCAAAAUAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAAAUAGCUGAGGAc.................................................. len:25 al:15
......................AAGAACgCCCAAAAUAGCUGAGGAUU................................................. len:26 al:1
......................uAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAgUAGCUG....................................................... len:20 al:1
......................AAGuACACCCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGAGGAgU................................................. len:26 al:1
......................AAGAACACCCAAAAUAGCUGgGGA................................................... len:24 al:14
......................AAGAACgCCCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAcCACCCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACCCAAAAUAGCUGAGaA................................................... len:24 al:3
......................AgGAACACCCAAAAUAGC......................................................... len:18 al:1
......................AAGAACACCCAAAgUAGCUGAG..................................................... len:22 al:1
......................AgGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:23
......................AAGAACACCCAAAAUAGCUGcGGA................................................... len:24 al:1
......................AAGAACcCCCAAAAUAGCUGAGG.................................................... len:23 al:9
......................AAGAACACCCAAAAUAaCUGAG..................................................... len:22 al:2
......................AAGAACACCCAAAAUAGCUGAGGAUUc................................................ len:27 al:1
......................AAGAAuACCCAAAAUAGCUGAGGA................................................... len:24 al:4
......................AAGAACcCCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUaAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUGg...................................................... len:21 al:10
......................AgGAACACCCAAAAUAGCUGAG..................................................... len:22 al:7
......................AAGAACACCCgAAAUAGCUGAGG.................................................... len:23 al:9
......................AAGAACACCCAAAAcAGCUGAG..................................................... len:22 al:2
......................AAGAACACaCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAgCACCCAAAAUAGCUGAGG.................................................... len:23 al:23
......................AAGAACACCCAAcAUAGCUGA...................................................... len:21 al:1
......................AAGAACAaCCAAAAUAGCUGAG..................................................... len:22 al:1
......................AAGAACACCCAAAAUAGCgGAGG.................................................... len:23 al:1
......................AAGAACACCCAgAAUAGCUGA...................................................... len:21 al:5
......................AAGAACAgCCAAAAUAGCUGAGG.................................................... len:23 al:2
......................AAGAACACCCAAAAcAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAcAUAGCUGAGG.................................................... len:23 al:2
......................AAGAACACCCAAAAUAGCUGAGu.................................................... len:23 al:103
......................AAGgACACCCAAAAUAGCUGAGGAUU................................................. len:26 al:1
......................AAGAACACCCAAAAUAGCUGc...................................................... len:21 al:1
......................AAGAgCACCCAAAAUAGCUG....................................................... len:20 al:1
......................AAGAgCACCCAAAAUAGCUGAG..................................................... len:22 al:3
......................AAGAACACCCAAgAUAGCUGA...................................................... len:21 al:4
......................AAGAACACCCcAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGAACACuCAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGA...................................................... len:21 al:1382
......................AAGAACACCCAAAgUAGCUGAGGA................................................... len:24 al:4
......................AAGAACACCCuAAAUAGCUGAGG.................................................... len:23 al:2
......................AAGgACACCCAAAAUAGCUGAGG.................................................... len:23 al:29
......................cAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:1
......................uAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAAAUAGCUcAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUuGCUGAGGAUU................................................. len:26 al:2
......................AAGgACACCCAAAAUAGCUGAGGA................................................... len:24 al:7
......................AAGAACACCCAAAAUAaCUGA...................................................... len:21 al:1
......................AgGAACACCCAAAAUAGCUG....................................................... len:20 al:3
......................AAGgACACCCAAAAUAGCUG....................................................... len:20 al:2
......................gAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:9
......................AAGAACACCCAAAAUAaCUGAGGA................................................... len:24 al:3
......................gAGAACACCCAAAAUAGCUGAG..................................................... len:22 al:3
......................AAGAACACCCAAAAUgGCU........................................................ len:19 al:1
......................AAGAACACCCAAAAUAGCUGuG..................................................... len:22 al:1
......................AAGAACACCCAAAAUAuCUGAGG.................................................... len:23 al:2
......................AAGAACcCCCAAAAUAGCUG....................................................... len:20 al:2
......................AAGAACACCCAAAAUAGCUG....................................................... len:20 al:463
......................AAGAACAuCCAAAAUAGCUGAGGA................................................... len:24 al:2
......................AAGuACACCCAAAAUAGCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:207
......................AAGAACACCCAAAAUgGCUGAG..................................................... len:22 al:2
......................AAGuACACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACgCCCAAAAUAGCUGAG..................................................... len:22 al:1
......................AAGAuCACCCAAAAUAGCUGAGG.................................................... len:23 al:3
......................AAGAACACCCAAAgUAGCUGA...................................................... len:21 al:1
......................AgGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:9
......................AAGAACACCCAgAAUAGCUGAGG.................................................... len:23 al:15
......................AAGAACACCCAAAAUAGCUGAu..................................................... len:22 al:8
......................AAGAACACCCAAAAUAGCUGAGcA................................................... len:24 al:5
......................AAGAACACCCAAAAUAGCUGAGGg................................................... len:24 al:30
......................AAGAACACCCAAAAUAGCUGAGGAUc................................................. len:26 al:10
......................AAGAACACCCAAAAUgGCUGAGGA................................................... len:24 al:4
......................AAGAACACCCAAAAUAGCUaAGG.................................................... len:23 al:3
......................AAGAACACCCAAgAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACCuAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUGAGGAUUU................................................ len:27 al:2
......................AAGAACuCCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAaCUGAGG.................................................... len:23 al:6
......................AAGAACACCCAAAAUAGCUGAGGc................................................... len:24 al:4
......................AAGAACACCCAAAAUAGCaGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCg........................................................ len:19 al:2
......................AAGAACACCCAAAAUAGCUGgG..................................................... len:22 al:3
......................AAGAACACCCAAAAUAGCUGAGGA................................................... len:24 al:3023
......................AAGAACACCCAAAAUAGCUGAGGAUU................................................. len:26 al:147
......................AAGAcCACCCAAAAUAGCUGAGGA................................................... len:24 al:1
......................AgGAACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:3
......................AAGAACACCCAAAAUAGCUGAGa.................................................... len:23 al:664
......................AAGAACACCCAAAAUAGCUGgGGAU.................................................. len:25 al:1
......................gAGAACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACCCAAAAUAGuUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGAGGAaU................................................. len:26 al:4
......................AAGAACACCCAAAAUAGC......................................................... len:18 al:21
......................AAGAACACCuAAAAUAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGgUGAGG.................................................... len:23 al:1
......................AgGAACACCCAAAAUAGCUGA...................................................... len:21 al:4
......................AAGAACgCCCAAAAUAGCUGAGGA................................................... len:24 al:16
......................AAGAACACCCAAAcUAGCUGAGG.................................................... len:23 al:3
......................AAGAACACCCAAgAUAGCUGAGGA................................................... len:24 al:7
......................AAGAAuACCCAAAAUAGCUGAGG.................................................... len:23 al:5
......................AAGAACACCCAAAcUAGCUGAGGAUU................................................. len:26 al:1
......................AAGAACACCCAgAAUAGC......................................................... len:18 al:1
......................AAGAACACCCgAAAUAGCUGAG..................................................... len:22 al:3
......................AAGAACACCCAAAAUAGCUGAGG.................................................... len:23 al:7755
......................AAGgACACCCAAAAUAGCUGAGGAU.................................................. len:25 al:3
......................AAGAACACCCAAAAUcGCUGAGGA................................................... len:24 al:1
......................AAGAACACCCAAAAUAGCUGAcG.................................................... len:23 al:13
......................AAGAACACCCAAAAUAGCUGAG..................................................... len:22 al:974
......................AAGgACACCCAAAAUAGCUGAG..................................................... len:22 al:1
......................AAGAACACCCAAAgUAGCUGAGGAU.................................................. len:25 al:1
......................AAGAACACCCAAAAUAGCUGAa..................................................... len:22 al:59
......................AAGAcCACCCAAAAUAGCUGAG..................................................... len:22 al:1
......................AAGAACACCCAAAcUAGCUGAGGA................................................... len:24 al:2
......................AAGAACACCCAAAAUAGCUGAGGAg.................................................. len:25 al:4
......................AAGAACACCCAAAAUAGCaGAGG.................................................... len:23 al:2
......................AAGAACcCCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAAcAGCUGA...................................................... len:21 al:1
......................AAGAACACCCAAAAUAGCUGAGGAcU................................................. len:26 al:4
......................AAGAgCACCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGgACACCCAAAAUAGCUGA...................................................... len:21 al:3
......................AAGAACACCCAAAAUAGCc........................................................ len:19 al:6
......................AAGAcCACCCAAAAUAGCUGA...................................................... len:21 al:2
......................AAGAACACCCAAAAUAGCUGAaGA................................................... len:24 al:3
......................AAGAACACCCcAAAUAGCUGAGG.................................................... len:23 al:5
.......................AGAACACCCAAAAUAGCUGAGGA................................................... len:23 al:1
.......................AGAACACCCAAAAUAGCUGA...................................................... len:20 al:4
.......................AGAACACCCAAAAUAGCUGAGG.................................................... len:22 al:1
........................GAACACCCAAAAUAGCUGAGGA................................................... len:22 al:1
.........................AACACCCAAAAUAGCUGAGG.................................................... len:20 al:2
..........................ACACCCAAAAUAGCUGAG..................................................... len:18 al:1
............................................GAUUUUGUUUCCUGCUAUAUUGAGU............................ len:25 al:1
............................................GAUUUUGUUUCCUGCUAUAUUGAGUGUU......................... len:28 al:4
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUUCUAAC.................... len:31 al:11
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUUCUAAu.................... len:31 al:1
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUU......................... len:26 al:1
..............................................UUUUGUUUCCUGCUAUAUUGAGUGUUCU....................... len:28 al:1
...............................................UUUGUUUCCUGCUAUAUUGAGU............................ len:22 al:1
......................................................CCUGCUAUAUUGAGUGUUCUAAC.................... len:23 al:3
.......................................................CUGCUAUAUUGAGUGUUCUAAC.................... len:22 al:211
.......................................................CUGCUAUAUUGAGUGUUCUAACc................... len:23 al:7
.......................................................CUGCUAUAUUGAGUGUUCUAACU................... len:23 al:41
.......................................................CUGCUAaAUUGAGUGUUCUAAC.................... len:22 al:1
.......................................................CUGCUAUAUUGAGUGUUCUAACUa.................. len:24 al:1
.......................................................CUGCUAUAUUGAGUGUUCUA...................... len:20 al:3
.......................................................CUGCUAUAUUGAGUGUUCUAACg................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUCUAA..................... len:21 al:4
.......................................................CUGCUAUAUUGAGUGUUCUAACa................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUuUAACU................... len:23 al:1
.......................................................CUGCUAUAUUGAGUGUUCU....................... len:19 al:8
.......................................................CUGCUAUAUUGAGUGUUCUAAu.................... len:22 al:5
.......................................................CUGCUgUAUUGAGUGUUCUAAC.................... len:22 al:2
.......................................................CUGCUAUAUUGAGUGUUu........................ len:18 al:1
.......................................................CUGCUAUAUUGAGcGUUCUAACU................... len:23 al:1
.......................................................CUGuUAUAUUGAGUGUUCUAAC.................... len:22 al:1
.......................................................CUGCUAUAUUGcGUGUUC........................ len:18 al:1
.......................................................CUGCUAUAUUGAGUGUUCUgAC.................... len:22 al:1
.......................................................CUGCUAUAUUGAGUGUUC........................ len:18 al:4
........................................................UGCUAUAUUGAGUGUUCUAACU................... len:22 al:2
........................................................UGCUAUAUUGAGUGUUCUAAC.................... len:21 al:2
.........................................................GCUAUAUUGAGUGUUCUAAC.................... len:20 al:1
.............................................................UAUUGAGUGUUCUAACUCCUGCGAGAaCC....... len:29 al:1
..............................................................................CCUGCGAGAGCCUAGUGu. len:18 al:2