alignment to pre-microRNA

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CGGCTGGACAGCGGGCAACGGAATCCCAAAAGCAGCTGTTGTCTCCAGAGCATTCCAGCTGCGCTTGGATTTCGTCCCCTGCTCTCCTGCCT  6,848(1,800.8/8,689) adj:6,848
.(((.(((.((((((..(((((((((.((..(((((((.(((.......)))...)))))))..)))))))))))..)))))).))).))).
CAACGGAATCCCAAAAGCAGCTG 5,675(1,492.3/7,200.7) adj:5,675 + exact
CAACGGAATCCCAAAAGCAGCTGT 449(118.1/569.7) adj:449 + lv3p|lv3pE|lv3p#1
AACGGAATCCCAAAAGCAGCTG 295(77.6/374.3) adj:295 + lv5p|lv5pT|lv5p#-1
CAACGGAATCCCAAAAGCAGCT 105(27.6/133.2) adj:105 + lv3p|lv3pT|lv3p#-1
AACGGAATCCCAAAAGCAGCTGT 41(10.8/52) adj:41 + mv
CAACGGAATCCCAAAAGCAG 30(7.9/38.1) adj:30 + lv3p|lv3pT|lv3p#-3
CAACGGAATCCCAAAAGCAGCTGA 29(7.6/36.8) adj:29 + nta#A|nta#A#1
CAACGGAATCCCAAAAGCAGCTGTA 27(7.1/34.3) adj:27 + nta#A|nta#A#1
CAACGGAATCCCAAAAGCAGC 27(7.1/34.3) adj:27 + lv3p|lv3pT|lv3p#-2
CAACGGAATCCCAAAAGCAGCGG 24(6.3/30.5) adj:24 + nta#G|nta#G#2
AACGGCATCCCAAAAGCAGCTG 16(4.2/20.3) adj:16 + lv5p|lv5pT|lv5p#-1
CAACGGAATCCCAAAAGAAGCTG 13(3.4/16.5) adj:13 + exactNucVar|17:C>A
CTGCGCTTGGATTTCGTCCC 8(2.1/10.2) adj:8 + mv
CAACGGAATCCCAAAAGCGGCTG 6(1.6/7.6) adj:6 + exactNucVar|18:A>G
CAACGGAATCCCAAAAGCAGCTA 6(1.6/7.6) adj:6 + nta#A|nta#A#1
CAACGAAATCCCAAAAGCAGCTG 5(1.3/6.3) adj:5 + exactNucVar|5:G>A
CAACGGAATCCAAAAAGCAGCTG 5(1.3/6.3) adj:5 + exactNucVar|11:C>A
AACGGAATCCCAAAAGCAGCTGA 5(1.3/6.3) adj:5 + nta#A|nta#A#1
CAACGGAATCCCAAAAGCAGCTGG 4(1.1/5.1) adj:4 + nta#G|nta#G#1
CAACGGAATCCCAAAAGCAGCTGTAA 3(0.8/3.8) adj:3 + nta#A|nta#A#2
CAATGGAATCCCAAAAGCAGCTG 3(0.8/3.8) adj:3 + exactNucVar|3:C>T
CAACGGAATCCCAAAATCAGCTG 3(0.8/3.8) adj:3 + exactNucVar|16:G>T
CAACGGAATCCCAAAAGCAGATG 3(0.8/3.8) adj:3 + exactNucVar|20:C>A
CAACGGAATCTCAAAAGCAGCTG 3(0.8/3.8) adj:3 + exactNucVar|10:C>T
AACGGAATCCCAAAAGCAGCT 3(0.8/3.8) adj:3 + mv
GCTGCGCTTGGATTTCGTCCC 3(0.8/3.8) adj:3 + lv3p|lv3pT|lv3p#-1
CTGCGCTTGGATTTCGTCCT 3(0.8/3.8) adj:3 + nta#T|nta#T#1
CAACGGAATCCCAAAAGCAGCTGAT 2(0.5/2.5) adj:2 + mlv3p|mlv3p#2
CAACGGAATCCCAAAAGAAGCTGT 2(0.5/2.5) adj:2 + lv3p|lv3pE|lv3p#1
CAACGGAATACCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|9:C>A
CAACGGAATCCCGAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|12:A>G
CAACGGAATCCCAAGAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|14:A>G
CAACAGAATCCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|4:G>A
CAACGGAATCCCCAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|12:A>C
CAACGGAATCCCAGAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|13:A>G
CAACGGACTCCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|7:A>C
CAACGGAATGCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|9:C>G
CAACGGAATTCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|9:C>T
CAACGGAATCACAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|10:C>A
CAACGGAATCCCAACAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|14:A>C
CAACGCAATCCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|5:G>C
CAACGGAATCCCAAAAGCAGCTT 2(0.5/2.5) adj:2 + nta#T|nta#T#1
TAACGGAATCCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|0:C>T
CGACGGAATCCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + exactNucVar|1:A>G
CAACGGAATCCCAAAAGC 2(0.5/2.5) adj:2 + lv3p|lv3pT|lv3p#-5
AACGGAATCCCAAAAGCAGCTGTA 2(0.5/2.5) adj:2 + nta#A|nta#A#1
AACGGAATCCCAAAAGCAGC 2(0.5/2.5) adj:2 + mv
GAATCCCAAAAGCAGCTG 2(0.5/2.5) adj:2 + lv5p|lv5pT|lv5p#-5
AGCTGCGCTTGGATTTCGTCC 2(0.5/2.5) adj:2 + mv
AGCTGCGCTTGGATTTCGTC 2(0.5/2.5) adj:2 + mv
GCTGCGCTTGGATTTCGTCC 2(0.5/2.5) adj:2 + lv3p|lv3pT|lv3p#-2
GCTGCGCTTGGATTTCGTC 2(0.5/2.5) adj:2 + lv3p|lv3pT|lv3p#-3
CTGCGCTTGGATTTCGTTCCC 2(0.5/2.5) adj:2 + lv5p|lv5pT|lv5p#-1
TGCGCTTGGATTTCGTCC 2(0.5/2.5) adj:2 + mv