Locus 7881

Sequence ID dm3.chr3L
Location 18,092,234 – 18,092,290
Length 56
Max. P 0.996734
window10844 window10845

overview

Window 4

Location 18,092,234 – 18,092,290
Length 56
Sequences 8
Columns 58
Reading direction forward
Mean pairwise identity 77.25
Shannon entropy 0.44023
G+C content 0.46268
Mean single sequence MFE -15.16
Consensus MFE -10.28
Energy contribution -10.30
Covariance contribution 0.02
Combinations/Pair 1.09
Mean z-score -2.62
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.98
SVM RNA-class probability 0.996734
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18092234 56 + 24543557
UGAAAAAUAUAAGACAGGGG-CGGGCGCGCUUUAGGUU-AACAACCUUGACCGCGAAU
................((((-((....)))))).((((-((.....))))))...... ( -10.40, z-score =   0.17, R)
>droPer1.super_20 843017 50 + 1872136
--------UCAAAACAAAGUUCAGCCGCGUUUCAGGUUCAAUAACCUUGACCGCGAAU
--------.................((((.((.(((((....))))).)).))))... ( -11.00, z-score =  -2.34, R)
>dp4.chrXR_group6 10932765 50 + 13314419
--------UCAAAACAAAGUUCAGCCGCGUUUCAGGUUCAAUAACCUUGACCGCGAAU
--------.................((((.((.(((((....))))).)).))))... ( -11.00, z-score =  -2.34, R)
>droEre2.scaffold_4784 9963387 56 - 25762168
UAAAAAAUAUAAGACCGCGG-CGGGCGCGGUUCAGGUU-AACAACCUUGACCGCGAAU
..............(((...-))).(((((((.((((.-....)))).)))))))... ( -18.70, z-score =  -2.27, R)
>droYak2.chr3L 8234111 56 - 24197627
UGAGAAAUACAAGACCGAGG-CGGGCGCGGUUCAGGUU-AACAACCUUGACCGCGAAU
..............(((...-))).(((((((.((((.-....)))).)))))))... ( -18.70, z-score =  -2.63, R)
>droSec1.super_19 88186 56 + 1257711
UGAAAAAUAUAAGACAGAGG-CGGGCGCGGUUAAGGUU-AACAACCUUGACCGCGAAU
....................-....((((((((((((.-....))))))))))))... ( -20.50, z-score =  -4.77, R)
>droSim1.chr3L 17419051 56 + 22553184
UGAAAAAUAUAAGACAGAGG-CGGGCGCGGUUAAGGUU-AACAACCUUGACCGCGAAU
....................-....((((((((((((.-....))))))))))))... ( -20.50, z-score =  -4.77, R)
>droVir3.scaffold_13049 17006381 56 + 25233164
UAAAAAAUUCGUAA-AAAGCUGAGUCGCCGUUCAGGUU-AAUAACCUUGACCGUGAAU
..............-.........((((.(((.((((.-....)))).))).)))).. ( -10.50, z-score =  -1.97, R)
>consensus
UGAAAAAUACAAGACAGAGG_CGGGCGCGGUUCAGGUU_AACAACCUUGACCGCGAAU
.........................((((.((.(((((....))))).)).))))... (-10.28 = -10.30 +   0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,092,234 – 18,092,290
Length 56
Sequences 8
Columns 58
Reading direction reverse
Mean pairwise identity 77.25
Shannon entropy 0.44023
G+C content 0.46268
Mean single sequence MFE -13.43
Consensus MFE -8.64
Energy contribution -8.89
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.62
SVM RNA-class probability 0.955820
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18092234 56 - 24543557
AUUCGCGGUCAAGGUUGUU-AACCUAAAGCGCGCCCG-CCCCUGUCUUAUAUUUUUCA
...((((.(..((((....-.))))..).))))....-.................... (  -9.70, z-score =  -0.29, R)
>droPer1.super_20 843017 50 - 1872136
AUUCGCGGUCAAGGUUAUUGAACCUGAAACGCGGCUGAACUUUGUUUUGA--------
..(((((....(((((....)))))....)))))................-------- ( -12.60, z-score =  -1.31, R)
>dp4.chrXR_group6 10932765 50 - 13314419
AUUCGCGGUCAAGGUUAUUGAACCUGAAACGCGGCUGAACUUUGUUUUGA--------
..(((((....(((((....)))))....)))))................-------- ( -12.60, z-score =  -1.31, R)
>droEre2.scaffold_4784 9963387 56 + 25762168
AUUCGCGGUCAAGGUUGUU-AACCUGAACCGCGCCCG-CCGCGGUCUUAUAUUUUUUA
...((((((..((((....-.))))..)))))).(((-...))).............. ( -16.10, z-score =  -1.41, R)
>droYak2.chr3L 8234111 56 + 24197627
AUUCGCGGUCAAGGUUGUU-AACCUGAACCGCGCCCG-CCUCGGUCUUGUAUUUCUCA
...((((((..((((....-.))))..)))))).(((-...))).............. ( -16.10, z-score =  -1.96, R)
>droSec1.super_19 88186 56 - 1257711
AUUCGCGGUCAAGGUUGUU-AACCUUAACCGCGCCCG-CCUCUGUCUUAUAUUUUUCA
...((((((.(((((....-.))))).))))))....-.................... ( -15.70, z-score =  -3.88, R)
>droSim1.chr3L 17419051 56 - 22553184
AUUCGCGGUCAAGGUUGUU-AACCUUAACCGCGCCCG-CCUCUGUCUUAUAUUUUUCA
...((((((.(((((....-.))))).))))))....-.................... ( -15.70, z-score =  -3.88, R)
>droVir3.scaffold_13049 17006381 56 - 25233164
AUUCACGGUCAAGGUUAUU-AACCUGAACGGCGACUCAGCUUU-UUACGAAUUUUUUA
((((.((.(((.(((....-.)))))).))((......))...-....))))...... (  -8.90, z-score =  -0.93, R)
>consensus
AUUCGCGGUCAAGGUUGUU_AACCUGAACCGCGCCCG_CCUCUGUCUUAUAUUUUUCA
...((((....(((((....)))))....))))......................... ( -8.64 =  -8.89 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:35:14 2011