Locus 11556

Sequence ID dm3.chr3R
Location 22,084,859 – 22,084,959
Length 100
Max. P 0.953487
window15878 window15879

overview

Window 8

Location 22,084,859 – 22,084,959
Length 100
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 87.38
Shannon entropy 0.23963
G+C content 0.55069
Mean single sequence MFE -39.90
Consensus MFE -29.19
Energy contribution -29.62
Covariance contribution 0.42
Combinations/Pair 1.27
Mean z-score -2.52
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.59
SVM RNA-class probability 0.953487
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22084859 100 + 27905053
UCACUUUUAUUGCCGCUGCUGCUGC-GCUGUUCCUGCAGGCAGCGACGCCAACGCAGGGCGCAUGAAUUUUCGCUUGACAUUGAACAAGGUCAAGCAACAA
.....(((((((((.((((.(((((-.((((....)))))))))(....)...)))))))).))))).....(((((((.((....)).)))))))..... ( -36.70, z-score =  -1.64, R)
>droSim1.chr3R 21929367 100 + 27517382
UCACUUUUAUCGCCGCUGCUGCUGC-GCUGCCCCUGCAGGCAGCGACGCCAACGCAGGGCGCAUGAAUUUUCGCUUGACAUUGAACAAGGUCAAGCAACAA
.....(((((((((.((((.((..(-((((((......)))))))..))....)))))))).))))).....(((((((.((....)).)))))))..... ( -41.80, z-score =  -3.15, R)
>droSec1.super_13 864773 100 + 2104621
UCACUUUUAUCGUCGCUUCUGCUGC-GCUGCCCCUGCAGGCAGCGACGCUAACGCAGGGCGCAUGAAUUUUCGCUUGACAUUGAACAAGGUCAAGCAACAA
.........(((((((((.((((((-.((((....))))))))))..((....)).))))).))))......(((((((.((....)).)))))))..... ( -36.90, z-score =  -2.43, R)
>droEre2.scaffold_4820 4506054 100 - 10470090
UCACUUUUAUCGCCGCUGCUGCUGC-GCUGCCCCUGCAGGCAGCGACGGCAACGCAGGGCGCAUGAAUUUUCGCCUGACAUUGAACAAGGUCAAGCAACAA
.....(((((((((.((((((((((-((((((......))))))).)))))..)))))))).))))).....((.((((.((....)).)))).))..... ( -43.40, z-score =  -3.24, R)
>droYak2.chr3R 4432765 100 - 28832112
UCACUUUUAUCAUCGCUGCUGCUGC-UCUGCCGCUGCAGGCAGCGACGGCAACGCAGGGCGCAUGUAUUUUCGCUUGACAUUGAACAAGGUCAAGCAACAA
................((((((.((-((((((((((....)))))..(....))))))))))).))).....(((((((.((....)).)))))))..... ( -37.20, z-score =  -2.10, R)
>droAna3.scaffold_13340 23620591 101 + 23697760
UCACUUUUAUUGGCGCUGCCAACGUUGCUGCCGACGACGGCAGAGAUGCGGGCGUGGGGCGCAUGUGUUGGGGCCUGACAUUGAACAAGGUCAGGCAACAA
............((((((((..(((..((((((....))))))..)))..)))....))))).....(((..(((((((.((....)).)))))))..))) ( -43.40, z-score =  -2.58, R)
>consensus
UCACUUUUAUCGCCGCUGCUGCUGC_GCUGCCCCUGCAGGCAGCGACGCCAACGCAGGGCGCAUGAAUUUUCGCUUGACAUUGAACAAGGUCAAGCAACAA
.....(((((((((.((((((((((..((((....))))))))))..(....))))))))).))))).....(((((((.((....)).)))))))..... (-29.19 = -29.62 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 22,084,859 – 22,084,959
Length 100
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 87.38
Shannon entropy 0.23963
G+C content 0.55069
Mean single sequence MFE -39.09
Consensus MFE -29.63
Energy contribution -29.50
Covariance contribution -0.13
Combinations/Pair 1.27
Mean z-score -1.67
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.630934
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22084859 100 - 27905053
UUGUUGCUUGACCUUGUUCAAUGUCAAGCGAAAAUUCAUGCGCCCUGCGUUGGCGUCGCUGCCUGCAGGAACAGC-GCAGCAGCAGCGGCAAUAAAAGUGA
...(((((((((.((....)).)))))))))....((((..(((.......)))((((((((((((.........-))))..)))))))).......)))) ( -36.10, z-score =  -0.63, R)
>droSim1.chr3R 21929367 100 - 27517382
UUGUUGCUUGACCUUGUUCAAUGUCAAGCGAAAAUUCAUGCGCCCUGCGUUGGCGUCGCUGCCUGCAGGGGCAGC-GCAGCAGCAGCGGCGAUAAAAGUGA
...(((((((((.((....)).)))))))))....((((.((((((((....((..((((((((....)))))))-)..)).)))).))))......)))) ( -44.90, z-score =  -2.33, R)
>droSec1.super_13 864773 100 - 2104621
UUGUUGCUUGACCUUGUUCAAUGUCAAGCGAAAAUUCAUGCGCCCUGCGUUAGCGUCGCUGCCUGCAGGGGCAGC-GCAGCAGAAGCGACGAUAAAAGUGA
...(((((((((.((....)).)))))))))....((((........((((.((.(((((((((((....)))).-))))).)).))))))......)))) ( -35.64, z-score =  -0.85, R)
>droEre2.scaffold_4820 4506054 100 + 10470090
UUGUUGCUUGACCUUGUUCAAUGUCAGGCGAAAAUUCAUGCGCCCUGCGUUGCCGUCGCUGCCUGCAGGGGCAGC-GCAGCAGCAGCGGCGAUAAAAGUGA
...(((((((((.((....)).)))))))))....((((.((((((((..(((.(.((((((((....)))))))-)).))))))).))))......)))) ( -44.90, z-score =  -2.23, R)
>droYak2.chr3R 4432765 100 + 28832112
UUGUUGCUUGACCUUGUUCAAUGUCAAGCGAAAAUACAUGCGCCCUGCGUUGCCGUCGCUGCCUGCAGCGGCAGA-GCAGCAGCAGCGAUGAUAAAAGUGA
...(((((((((.((....)).))))))))).....(((.(((..((((((((((((((((....))))))).).-))))).))))))))).......... ( -39.20, z-score =  -2.25, R)
>droAna3.scaffold_13340 23620591 101 - 23697760
UUGUUGCCUGACCUUGUUCAAUGUCAGGCCCCAACACAUGCGCCCCACGCCCGCAUCUCUGCCGUCGUCGGCAGCAACGUUGGCAGCGCCAAUAAAAGUGA
(((..(((((((.((....)).)))))))..)))((((((((.........)))))..((((((....))))))....((((((...))))))....))). ( -33.80, z-score =  -1.76, R)
>consensus
UUGUUGCUUGACCUUGUUCAAUGUCAAGCGAAAAUUCAUGCGCCCUGCGUUGGCGUCGCUGCCUGCAGGGGCAGC_GCAGCAGCAGCGGCGAUAAAAGUGA
...(((((((((.((....)).))))))))).......(((((.(((((....)((.(((((((....))))))).)).))))..))).)).......... (-29.63 = -29.50 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:10 2011