Locus 7808

Sequence ID dm3.chr3L
Location 17,473,284 – 17,473,396
Length 112
Max. P 0.999402
window10739 window10740

overview

Window 9

Location 17,473,284 – 17,473,396
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.33
Shannon entropy 0.20998
G+C content 0.37606
Mean single sequence MFE -33.08
Consensus MFE -23.85
Energy contribution -24.85
Covariance contribution 1.00
Combinations/Pair 1.09
Mean z-score -4.61
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.72
SVM RNA-class probability 0.999215
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17473284 112 + 24543557
UGCUAAUUUAAGCUGACCACAAAACCCAGUGAAACCACAAUGUACACACAAGAAUAC--------GAUUCACAACAUAUUCCUGUACCUACUUGUGUUUUCAUUGGACUUCUUGGUCGAA
.(((......)))((((((..((..(((((((((.(((((.(((...(((.(((((.--------(........).))))).)))...)))))))).)))))))))..))..)))))).. ( -32.40, z-score =  -5.04, R)
>droSim1.chr3L 16814122 111 + 22553184
UGCUAAUUUAAGCUGACCACAAAACCCAAUGGAACCACA-UGUACACACAAGAAUAU--------GAUUCACAACCUAUUCCUGUACCUACUUGUGUUUUCAUUGGCGUUCUUGGUCGAA
.(((......)))((((((...((((((((((((.((((-.(((...(((.(((((.--------(........).))))).)))...))).)))).))))))))).)))..)))))).. ( -33.30, z-score =  -4.90, R)
>droSec1.super_0 9526184 112 + 21120651
UGCUAAUUUAAGCUGACCACAAAACCCAAUGGAACCACAAUGUACACACAAGAAUAU--------GAUUCACAACCUAUUCCUGUACCUACUUGUGUUUUCAUUGGCGUUCUUGGUCGAA
.(((......)))((((((...((((((((((((.(((((.(((...(((.(((((.--------(........).))))).)))...)))))))).))))))))).)))..)))))).. ( -33.60, z-score =  -4.99, R)
>droYak2.chr3L 7604678 112 - 24197627
UGAUAAUUUAAACUGACCAGAAAACCCAUUGAAAACACAAUGUACACACAGCAAUAC--------GAUUCACAACAUAUUCCUGUAGUUACUUGUGUUUCCAUUAGAGUUCCUGGUCGAA
.............(((((((.((......((.((((((((.(((.((((((.((((.--------(........).)))).)))).))))))))))))).))......)).))))))).. ( -26.10, z-score =  -3.02, R)
>droEre2.scaffold_4784 9386795 120 - 25762168
UGAUAAUUUAAACUGACCAGAAAACCCAUUGAAAACACAAUGUACAUACAGGAAUACAUGGGUACGAAUCACAACAUAUUCCUGUAGUUACCUGUGUUUUUAUUGGAGUUCUUGGUCGAA
.............(((((((((...(((.((((((((((..(((..((((((((((..(((((....))).))...))))))))))..))).)))))))))).)))..))).)))))).. ( -40.00, z-score =  -5.12, R)
>consensus
UGCUAAUUUAAGCUGACCACAAAACCCAAUGAAACCACAAUGUACACACAAGAAUAC________GAUUCACAACAUAUUCCUGUACCUACUUGUGUUUUCAUUGGAGUUCUUGGUCGAA
.............((((((..((..(((((((((.(((((.(((...(((.(((((....................))))).)))...)))))))).)))))))))..))..)))))).. (-23.85 = -24.85 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,473,284 – 17,473,396
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.33
Shannon entropy 0.20998
G+C content 0.37606
Mean single sequence MFE -43.74
Consensus MFE -32.85
Energy contribution -33.53
Covariance contribution 0.68
Combinations/Pair 1.15
Mean z-score -6.10
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.86
SVM RNA-class probability 0.999402
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17473284 112 - 24543557
UUCGACCAAGAAGUCCAAUGAAAACACAAGUAGGUACAGGAAUAUGUUGUGAAUC--------GUAUUCUUGUGUGUACAUUGUGGUUUCACUGGGUUUUGUGGUCAGCUUAAAUUAGCA
...(((((.(((..(((.(((((.((((((((..((((((((((((........)--------)))))))))))..))).))))).))))).)))..))).))))).(((......))). ( -47.10, z-score =  -7.14, R)
>droSim1.chr3L 16814122 111 - 22553184
UUCGACCAAGAACGCCAAUGAAAACACAAGUAGGUACAGGAAUAGGUUGUGAAUC--------AUAUUCUUGUGUGUACA-UGUGGUUCCAUUGGGUUUUGUGGUCAGCUUAAAUUAGCA
...((((((((((.((((((....((((.(((..(((((((((((((.....)))--------.))))))))))..))).-))))....))))))))))).))))).(((......))). ( -42.40, z-score =  -5.45, R)
>droSec1.super_0 9526184 112 - 21120651
UUCGACCAAGAACGCCAAUGAAAACACAAGUAGGUACAGGAAUAGGUUGUGAAUC--------AUAUUCUUGUGUGUACAUUGUGGUUCCAUUGGGUUUUGUGGUCAGCUUAAAUUAGCA
...((((((((((.((((((....((((((((..(((((((((((((.....)))--------.))))))))))..))).)))))....))))))))))).))))).(((......))). ( -42.70, z-score =  -5.49, R)
>droYak2.chr3L 7604678 112 + 24197627
UUCGACCAGGAACUCUAAUGGAAACACAAGUAACUACAGGAAUAUGUUGUGAAUC--------GUAUUGCUGUGUGUACAUUGUGUUUUCAAUGGGUUUUCUGGUCAGUUUAAAUUAUCA
...(((((((((..(((.((((((((((((((..(((((.((((((........)--------))))).)))))..))).))))))))))).)))..))))))))).............. ( -45.30, z-score =  -7.02, R)
>droEre2.scaffold_4784 9386795 120 + 25762168
UUCGACCAAGAACUCCAAUAAAAACACAGGUAACUACAGGAAUAUGUUGUGAUUCGUACCCAUGUAUUCCUGUAUGUACAUUGUGUUUUCAAUGGGUUUUCUGGUCAGUUUAAAUUAUCA
...((((((((((.(((.(.((((((((((((..(((((((((((((.(((.....)))..)))))))))))))..))).))))))))).).)))))))).))))).............. ( -41.20, z-score =  -5.41, R)
>consensus
UUCGACCAAGAACUCCAAUGAAAACACAAGUAGGUACAGGAAUAUGUUGUGAAUC________GUAUUCUUGUGUGUACAUUGUGGUUUCAAUGGGUUUUGUGGUCAGCUUAAAUUAGCA
...((((((((((.(((.(((((.((((((((..((((((((((....................))))))))))..))).))))).))))).)))))))).))))).(((......))). (-32.85 = -33.53 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:33:49 2011