Locus 1052

Sequence ID 3L_DroMel_CAF1
Location 3,094,423 – 3,094,519
Length 96
Max. P 0.918270
window1631 window1632

overview

Window 1

Location 3,094,423 – 3,094,519
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.45
Mean single sequence MFE -32.13
Consensus MFE -23.42
Energy contribution -23.40
Covariance contribution -0.02
Combinations/Pair 1.25
Mean z-score -2.25
Structure conservation index 0.73
SVM decision value 1.12
SVM RNA-class probability 0.918270
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3094423 96 + 23771897
AUAAAUUGGCAACGCUAACAAUCCGAGUAUCAAUAGCCUUACCAGCGGACACGAGGGUUGUUGGAGCUGCAUAAGCCAGUCUAUGGAGCAGCAU---CC---------------------
.......(....).((((((((((..((.((....((.......)).)).))..)))))))))).(((((.....(((.....))).)))))..---..--------------------- ( -29.60)
>DroSec_CAF1 27283 96 + 1
AUAAACUGGCAAUGCUAACAAUCCGAGUAUCAAUAGCCUCACCAGCGGACACGAGGGUUGUUGGAGCUGCAUAAGCCAGUCAAUGGAGCAGCAU---CC---------------------
..............((((((((((..((.((....((.......)).)).))..)))))))))).(((((.....(((.....))).)))))..---..--------------------- ( -28.60)
>DroSim_CAF1 29771 96 + 1
AUAAACUGGCAACGCUAACAAUCCGAGUAUCAAUAGCCUCACCAGCGGACACGAGGGUUGUUGGAGCUGCAUAAGCCAGUCAAUGGAGCAGCAU---CC---------------------
.......(....).((((((((((..((.((....((.......)).)).))..)))))))))).(((((.....(((.....))).)))))..---..--------------------- ( -29.60)
>DroEre_CAF1 31921 96 + 1
AUAAACUGGCAACGCUAACAAUCCGAGUAUUAAGAGCCUCACCAGAGGACACGAGGGUUGUUGGAGUUGCAUAAGCCAGUCUAUGGAGCAGCAC---CC---------------------
.....((((((((.((((((((((..((........((((....))))..))..)))))))))).))))).....(((.....)))..)))...---..--------------------- ( -31.50)
>DroYak_CAF1 31226 96 + 1
AUAAACUGGCAAUGCCAACAAUCCGAGUAUCAAGAGCCUCACCAGCGGACACGAGGAUUGUUGGAGUUGCAUAAGCCAGUCUAUGGAGCAGCAU---CC---------------------
.....((((((((.((((((((((..((.((....((.......)).)).))..)))))))))).))))).....(((.....)))..)))...---..--------------------- ( -31.90)
>DroAna_CAF1 26033 120 + 1
GUAGAGGGGCAGGACCACCAGUCCCAUUAUCAUUAGCCUAACCAGUGGACACGAUGACUGCUGCAACUGCAUCAGCCAAUCCAAGGAGCAGCAGUAUCCCGGCUUCACUUGCUCCUCCUG
...((((((((((((.....))))...................((((((..((...((((((((....((....))...((....))))))))))....))..))))))))))))))... ( -41.60)
>consensus
AUAAACUGGCAACGCUAACAAUCCGAGUAUCAAUAGCCUCACCAGCGGACACGAGGGUUGUUGGAGCUGCAUAAGCCAGUCUAUGGAGCAGCAU___CC_____________________
..............((((((((((..((.((....((.......)).)).))..)))))))))).(((((.....(((.....))).)))))............................ (-23.42 = -23.40 +  -0.02) 

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 2

Location 3,094,423 – 3,094,519
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.45
Mean single sequence MFE -32.82
Consensus MFE -19.70
Energy contribution -21.23
Covariance contribution 1.53
Combinations/Pair 1.17
Mean z-score -1.62
Structure conservation index 0.60
SVM decision value 0.01
SVM RNA-class probability 0.536235
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3094423 96 - 23771897
---------------------GG---AUGCUGCUCCAUAGACUGGCUUAUGCAGCUCCAACAACCCUCGUGUCCGCUGGUAAGGCUAUUGAUACUCGGAUUGUUAGCGUUGCCAAUUUAU
---------------------((---(.(((((.(((.....))).....))))))))..................((((((.((((..(((......)))..)))).))))))...... ( -27.20)
>DroSec_CAF1 27283 96 - 1
---------------------GG---AUGCUGCUCCAUUGACUGGCUUAUGCAGCUCCAACAACCCUCGUGUCCGCUGGUGAGGCUAUUGAUACUCGGAUUGUUAGCAUUGCCAGUUUAU
---------------------((---(.(((((.(((.....))).....))))))))................(((((..(.((((..(((......)))..)))).)..))))).... ( -28.70)
>DroSim_CAF1 29771 96 - 1
---------------------GG---AUGCUGCUCCAUUGACUGGCUUAUGCAGCUCCAACAACCCUCGUGUCCGCUGGUGAGGCUAUUGAUACUCGGAUUGUUAGCGUUGCCAGUUUAU
---------------------((---(.(((((.(((.....))).....))))))))................(((((..(.((((..(((......)))..)))).)..))))).... ( -30.80)
>DroEre_CAF1 31921 96 - 1
---------------------GG---GUGCUGCUCCAUAGACUGGCUUAUGCAACUCCAACAACCCUCGUGUCCUCUGGUGAGGCUCUUAAUACUCGGAUUGUUAGCGUUGCCAGUUUAU
---------------------((---(......)))((((((((((..((((......(((((.((..((((((((....))))......))))..)).))))).)))).)))))))))) ( -28.20)
>DroYak_CAF1 31226 96 - 1
---------------------GG---AUGCUGCUCCAUAGACUGGCUUAUGCAACUCCAACAAUCCUCGUGUCCGCUGGUGAGGCUCUUGAUACUCGGAUUGUUGGCAUUGCCAGUUUAU
---------------------((---(......)))((((((((((..((((.....(((((((((..(((((.(((.....)))....)))))..))))))))))))).)))))))))) ( -38.10)
>DroAna_CAF1 26033 120 - 1
CAGGAGGAGCAAGUGAAGCCGGGAUACUGCUGCUCCUUGGAUUGGCUGAUGCAGUUGCAGCAGUCAUCGUGUCCACUGGUUAGGCUAAUGAUAAUGGGACUGGUGGUCCUGCCCCUCUAC
..(((((.(((.(.((.((((((((((((((((...(((.(((....))).)))..)))))))).)))...(((....((((......))))....))))))))..)))))).))))).. ( -43.90)
>consensus
_____________________GG___AUGCUGCUCCAUAGACUGGCUUAUGCAGCUCCAACAACCCUCGUGUCCGCUGGUGAGGCUAUUGAUACUCGGAUUGUUAGCGUUGCCAGUUUAU
....................................((((((((((..((((......(((((.((..(((((...(((.....)))..)))))..)).))))).)))).)))))))))) (-19.70 = -21.23 +   1.53) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:53 2006