Locus 6876

Sequence ID dm3.chr3L
Location 10,427,384 – 10,427,562
Length 178
Max. P 0.765676
window9466 window9467

overview

Window 6

Location 10,427,384 – 10,427,562
Length 178
Sequences 5
Columns 179
Reading direction forward
Mean pairwise identity 71.88
Shannon entropy 0.49175
G+C content 0.32478
Mean single sequence MFE -39.42
Consensus MFE -16.81
Energy contribution -17.53
Covariance contribution 0.72
Combinations/Pair 1.38
Mean z-score -1.93
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.62
SVM RNA-class probability 0.765676
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10427384 178 + 24543557
GUGCACUGAAAUUAUUUUCGUACCUACUCCGAGUGGAAA-AAGGGUGACUUCACUUAAAUAAUUAUGCAUGUCUUCAUUUUGAUUAAUGAGUUAAACUAAUGCUACUUAAAAUGCAAUUGUAUAACUAAUUAAUGUGAGUCAUUAAACAGUGCUUUGUGACACUCUUUCUUUCGGUGUA
.((((((((((........((....))...(((((....-...(((((((.(((((((.((.(((((((....((((((......)))))).........(((..........)))..))))))).)).)))).))))))))))..((((....))))..)))))....)))))))))) ( -40.20, z-score =  -2.14, R)
>droSim1.chr3L 9822796 165 + 22553184
GUGCACUGAAACAAUUUUGUUACAAGCUCUGGGUAAAAA-AUGGGUGACUAGACUUAAAUAAUUAAGCAUGUUUUUAAUUUGAUUAAUGAGUUACACCAAAGCUACUUAAAAUUCAAUUGUAUAACUAAAUAAUGUUAGUCGUUAAUCA-------------CUCUUUCUUUCAGUGUA
.(((((((((((((((..(((...((((.(((((.....-.(((....)))((((((..((((((((...........)))))))).)))))))).))).))))......)))..)))))).........(((((.....)))))....-------------........))))))))) ( -32.60, z-score =  -1.24, R)
>droSec1.super_0 2637464 161 + 21120651
GUGCACUGAAACAAUUUUGUUACCAGCUCUUGGUAAA-----GGGUGACUAGACUUAAACAAUUAAGCAUGUCUUUAAUUUGAUUAAUGAGUUACACCAAUGCUACUUAAAAUCCAAUUGUAUAACUAAAUAAUGUGAGUCGUUAAUCA-------------CUCUUUCUUUCAGUGUA
.((((((((((.........((((((...))))))((-----(((((((..(.(((((....))))))..)))........(((((((((.(((((.((((...............))))(((......))).))))).))))))))))-------------)))))..)))))))))) ( -37.36, z-score =  -2.38, R)
>droYak2.chr3L 10417086 163 + 24197627
GUGCACUGAAAGAAUAUCAGUACCUGCUUAGGGUGGGACCAAGAUCGACUACAUAUAAAUUAUUAUGUUUGGCUUUUAUUUAAUUGAUGACUUACAUUAAAGCUACUUGAAAUUAAAUUGUAUGACU----------------UAAUCAGUGCUUUGUGACACUCUUUCUUCCAGUGUA
.(((((((.((((((((((((.((..(.....)..))...(((.((((..(((((........)))))))))))).......))))))).....(((.(((((.(((.((..((((.((....)).)----------------)))))))))))))))).......))))).))))))) ( -34.30, z-score =  -0.71, R)
>droEre2.scaffold_4784 10417119 178 + 25762168
GUACACUGCAAAAAUAUCAGUACCCGCUCAGGGUGCGAC-AAUACGUACUGCAUACAAAUUAUUAUGUUUGGCUUUCAUUUGCUUGAUGCCUAGCAUUAAAGCUACUUAAAAUUAAAUUGUUUGUCUAAUUAAUGUGGGGCGUUAAUCAGUGCUUUGUGACACUCUUUCUUGCAGUGUA
.((((((((((........((((((.....)))))).((-((...((((((....(((((......)))))((........))(((((((((.(((((((.........((((......))))......))))))).))))))))).)))))).))))...........)))))))))) ( -52.66, z-score =  -3.20, R)
>consensus
GUGCACUGAAACAAUUUUAGUACCAGCUCAGGGUGAAAA_AAGGGUGACUACACUUAAAUAAUUAUGCAUGUCUUUAAUUUGAUUAAUGAGUUACACUAAAGCUACUUAAAAUUCAAUUGUAUAACUAAAUAAUGUGAGUCGUUAAUCAGUGCUUUGUGACACUCUUUCUUUCAGUGUA
.((((((((((........((((((.....))))))............................................((((((((((.................................................))))))))))....................)))))))))) (-16.81 = -17.53 +   0.72)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 10,427,384 – 10,427,562
Length 178
Sequences 5
Columns 179
Reading direction reverse
Mean pairwise identity 71.88
Shannon entropy 0.49175
G+C content 0.32478
Mean single sequence MFE -37.16
Consensus MFE -12.92
Energy contribution -13.38
Covariance contribution 0.46
Combinations/Pair 1.30
Mean z-score -2.08
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.08
SVM RNA-class probability 0.532446
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10427384 178 - 24543557
UACACCGAAAGAAAGAGUGUCACAAAGCACUGUUUAAUGACUCACAUUAAUUAGUUAUACAAUUGCAUUUUAAGUAGCAUUAGUUUAACUCAUUAAUCAAAAUGAAGACAUGCAUAAUUAUUUAAGUGAAGUCACCCUU-UUUCCACUCGGAGUAGGUACGAAAAUAAUUUCAGUGCAC
(((.((((...(((.(((((......))))).)))..((((((((.((((.(((((((.....(((.......)))((((..((((...(((((......)))))))))))))))))))).))))))).))))).....-.......)))).))).((((((((....)))).)))).. ( -39.70, z-score =  -3.03, R)
>droSim1.chr3L 9822796 165 - 22553184
UACACUGAAAGAAAGAG-------------UGAUUAACGACUAACAUUAUUUAGUUAUACAAUUGAAUUUUAAGUAGCUUUGGUGUAACUCAUUAAUCAAAUUAAAAACAUGCUUAAUUAUUUAAGUCUAGUCACCCAU-UUUUUACCCAGAGCUUGUAACAAAAUUGUUUCAGUGCAC
..((((((((.......-------------........((((((......))))))...(((((.....(((...((((((((.((((....(((((...)))))......((((((....))))))............-...))))))))))))..)))...)))))))))))))... ( -31.40, z-score =  -1.53, R)
>droSec1.super_0 2637464 161 - 21120651
UACACUGAAAGAAAGAG-------------UGAUUAACGACUCACAUUAUUUAGUUAUACAAUUGGAUUUUAAGUAGCAUUGGUGUAACUCAUUAAUCAAAUUAAAGACAUGCUUAAUUGUUUAAGUCUAGUCACCC-----UUUACCAAGAGCUGGUAACAAAAUUGUUUCAGUGCAC
..((((((((.((((.(-------------((((((..((((...((((...((((((((...((.((.....))..))...))))))))...))))........(((((........))))).))))))))))).)-----)((((((.....)))))).....)).))))))))... ( -36.00, z-score =  -1.82, R)
>droYak2.chr3L 10417086 163 - 24197627
UACACUGGAAGAAAGAGUGUCACAAAGCACUGAUUA----------------AGUCAUACAAUUUAAUUUCAAGUAGCUUUAAUGUAAGUCAUCAAUUAAAUAAAAGCCAAACAUAAUAAUUUAUAUGUAGUCGAUCUUGGUCCCACCCUAAGCAGGUACUGAUAUUCUUUCAGUGCAC
..((((((((((....((((((.(((((((((((((----------------(((......))))))))...))).))))).........................(((..(((((........))))).......(((((.......)))))..)))..))))))))))))))))... ( -32.50, z-score =  -1.53, R)
>droEre2.scaffold_4784 10417119 178 - 25762168
UACACUGCAAGAAAGAGUGUCACAAAGCACUGAUUAACGCCCCACAUUAAUUAGACAAACAAUUUAAUUUUAAGUAGCUUUAAUGCUAGGCAUCAAGCAAAUGAAAGCCAAACAUAAUAAUUUGUAUGCAGUACGUAUU-GUCGCACCCUGAGCGGGUACUGAUAUUUUUGCAGUGUAC
(((((((((((((..(((((......))))).((((..((((...........(((((((((.(((........((((......))))(((.(((......)))..)))........))).)))).(((.....)))))-)))((.......))))))..)))).))))))))))))). ( -46.20, z-score =  -2.51, R)
>consensus
UACACUGAAAGAAAGAGUGUCACAAAGCACUGAUUAACGACUCACAUUAAUUAGUUAUACAAUUGAAUUUUAAGUAGCUUUAGUGUAACUCAUUAAUCAAAUUAAAGACAUGCAUAAUUAUUUAAGUGUAGUCACCCUU_GUUCCACCCAGAGCAGGUACCAAAAUUGUUUCAGUGCAC
..((((((((.....(((((......))))).............................................((.((((((.....))))))...............((((((....)))))).........................))..............))))))))... (-12.92 = -13.38 +   0.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:16:13 2011