Locus 3497

Sequence ID dm3.chr2R
Location 5,811,429 – 5,811,549
Length 120
Max. P 0.975795
window4797 window4798

overview

Window 7

Location 5,811,429 – 5,811,549
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.49
Shannon entropy 0.11451
G+C content 0.48986
Mean single sequence MFE -37.29
Consensus MFE -33.78
Energy contribution -34.02
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.774683
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 5811429 120 + 21146708
ACGUGCCACUCACCGUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGAACGCCCCCGGCAAUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGUGUGUUCC
(((.((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..)))....... ( -37.02, z-score =  -1.44, R)
>droEre2.scaffold_4929 18083887 118 - 26641161
AUGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAGCUCGGAAUAGGCUUGCGAUGGA--GCAACCGGCAGUAAUUCAUGUUUUAGUCACCAUUUGAGUGGCAUUAUGUGUUCC
..((((((((((.......(((((((((((((.(((......))).)))).((.((((......--)))))))))).(((........))))))))....)))))))))).......... ( -37.80, z-score =  -1.57, R)
>droYak2.chr2L 18437395 118 + 22324452
AUGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGA--GCCCCCGGCAGUAACUCAUGUUUAAGUCACUUCUUGAGUGGCUUUGUGUGUUUC
....((((((((.......(((((((((((((..(((.....))).)))).(((((......))--)))...)))...(((....)))..))))))....))))))))............ ( -37.60, z-score =  -1.74, R)
>droSec1.super_1 3421920 120 + 14215200
ACGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGAACGCCCCCGGCAGUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGUGUGUUCC
(((.((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..)))....... ( -37.02, z-score =  -1.32, R)
>droSim1.chr2R 4442029 120 + 19596830
ACGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGACUUGCGAUUGAACGCCCCCGGCAGUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGUGUGUUCC
(((.((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..)))....... ( -37.02, z-score =  -1.74, R)
>consensus
ACGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGAACGCCCCCGGCAGUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGUGUGUUCC
....((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))............ (-33.78 = -34.02 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,811,429 – 5,811,549
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.49
Shannon entropy 0.11451
G+C content 0.48986
Mean single sequence MFE -37.14
Consensus MFE -33.26
Energy contribution -33.86
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.47
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.94
SVM RNA-class probability 0.975795
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 5811429 120 - 21146708
GGAACACACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUAUUGCCGGGGGCGUUCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAACGGUGAGUGGCACGU
............((((((((....((((((..(((....)))...((((((((.(((...(((.((.....)).)))...)))))))....)))))))))).......)))))))).... ( -37.10, z-score =  -2.15, R)
>droEre2.scaffold_4929 18083887 118 + 26641161
GGAACACAUAAUGCCACUCAAAUGGUGACUAAAACAUGAAUUACUGCCGGUUGC--UCCAUCGCAAGCCUAUUCCGAGCUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACAU
...........(((((((((...(....).....(((.....(((((((..(((--......)))((((......).)))...........)))))))......))).)))))))))... ( -34.70, z-score =  -2.35, R)
>droYak2.chr2L 18437395 118 - 22324452
GAAACACACAAAGCCACUCAAGAAGUGACUUAAACAUGAGUUACUGCCGGGGGC--UCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACAU
............((((((((...(((((((((....)))))))))((((((((.--....(((.((.....)).)))......))))....)))).............)))))))).... ( -38.30, z-score =  -3.28, R)
>droSec1.super_1 3421920 120 - 14215200
GGAACACACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUACUGCCGGGGGCGUUCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACGU
............((((((((....((((((..(((....)))...((((((((.(((...(((.((.....)).)))...)))))))....)))))))))).......)))))))).... ( -37.10, z-score =  -2.02, R)
>droSim1.chr2R 4442029 120 - 19596830
GGAACACACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUACUGCCGGGGGCGUUCAAUCGCAAGUCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACGU
............((((((((....((((((..(((....)))...((((((((((......)))..((((......))))...)))).....))))))))).......)))))))).... ( -38.50, z-score =  -2.53, R)
>consensus
GGAACACACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUACUGCCGGGGGCGUUCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACGU
............((((((((....((((((..(((....)))...((((((((.......(((.((.....)).)))......))))....)))))))))).......)))))))).... (-33.26 = -33.86 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:11:17 2011