Locus 2445

Sequence ID 2R_DroMel_CAF1
Location 8,808,082 – 8,808,173
Length 91
Max. P 0.918618
window4043 window4044

overview

Window 3

Location 8,808,082 – 8,808,173
Length 91
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 80.59
Mean single sequence MFE -28.47
Consensus MFE -19.62
Energy contribution -19.90
Covariance contribution 0.28
Combinations/Pair 1.30
Mean z-score -2.04
Structure conservation index 0.69
SVM decision value 0.84
SVM RNA-class probability 0.863132
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8808082 91 + 20766785
UGGCAUCA-GCAGAU-----------GCUGCUGCUGCUCCGAUGCUGGCCACUUUGAGACUUUGAGAUGUUUGGCCAGCAGACAAAUAAGUUGAUGUUGAUUG
.(((((((-((...(-----------(..((....))..)).(((((((((......(((........)))))))))))).........)))))))))..... ( -29.90)
>DroSec_CAF1 52593 88 + 1
UGGCAUCA-GCAGAU-----------GCUGCUGCUG---CGAUGCUGGCCACUUUGAGACUUUGAGAUGUUUGGCCAGCAGACAAAUAAGUUGAUGUUGAUUG
.(((((((-((....-----------..(((....)---)).(((((((((......(((........)))))))))))).........)))))))))..... ( -30.00)
>DroSim_CAF1 53703 88 + 1
UGGCAUCA-GCAGAU-----------GCUGCUGCUG---CGAUGCUGGCCACUUUGAGACUUUGAGAUGUUUGGCCAGCAGACAAAUAAGUUGAUGUUGAUUG
.(((((((-((....-----------..(((....)---)).(((((((((......(((........)))))))))))).........)))))))))..... ( -30.00)
>DroEre_CAF1 55465 94 + 1
UGGCAUCA-GCAGAUCCUGCUGCUGUGCUGCUGCUGCUGCGACGUUGGCCACU--------UUGAGAUGUUUGGCCAGCAGACAAAUAAGUUGAUGUUGAUUG
.((((.((-((((......))))))))))((....))..((((((((((((..--------(......)..)))))))).(((......)))...)))).... ( -31.80)
>DroYak_CAF1 55423 83 + 1
UGGAUUUA-GCAGAU-----------GCUGCUAUUUCUGCGAUGCUGGCCACU--------UUGAGAUGUUUGGCCAGCAGACAAAUAAGUUGAUGUUGAUUG
.(((..((-((((..-----------.))))))..))).((((((((((((..--------(......)..)))))))).(((......)))...)))).... ( -26.30)
>DroPer_CAF1 61195 74 + 1
UGGCAACGGGCAGAU-----------GCUGCUGCUG-------GUU---CG--------CUUUGAAAUGUUUGGCCAGCAGACAAAUAAGCUGAUGUUGAUUG
...(((((..(((..-----------..((((((((-------(((---.(--------(........))..))))))))).))......))).))))).... ( -22.80)
>consensus
UGGCAUCA_GCAGAU___________GCUGCUGCUG___CGAUGCUGGCCACU______CUUUGAGAUGUUUGGCCAGCAGACAAAUAAGUUGAUGUUGAUUG
.(((((((.((((..............)))).(((.......(((((((((....................)))))))))........))))))))))..... (-19.62 = -19.90 +   0.28)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 8,808,082 – 8,808,173
Length 91
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.59
Mean single sequence MFE -24.56
Consensus MFE -11.62
Energy contribution -13.51
Covariance contribution 1.89
Combinations/Pair 1.06
Mean z-score -3.21
Structure conservation index 0.47
SVM decision value 1.12
SVM RNA-class probability 0.918618
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8808082 91 - 20766785
CAAUCAACAUCAACUUAUUUGUCUGCUGGCCAAACAUCUCAAAGUCUCAAAGUGGCCAGCAUCGGAGCAGCAGCAGC-----------AUCUGC-UGAUGCCA
.................((((..(((((((((....................))))))))).))))(((.((((((.-----------..))))-)).))).. ( -27.65)
>DroSec_CAF1 52593 88 - 1
CAAUCAACAUCAACUUAUUUGUCUGCUGGCCAAACAUCUCAAAGUCUCAAAGUGGCCAGCAUCG---CAGCAGCAGC-----------AUCUGC-UGAUGCCA
.......................(((((((((....................)))))))))..(---((.((((((.-----------..))))-)).))).. ( -26.65)
>DroSim_CAF1 53703 88 - 1
CAAUCAACAUCAACUUAUUUGUCUGCUGGCCAAACAUCUCAAAGUCUCAAAGUGGCCAGCAUCG---CAGCAGCAGC-----------AUCUGC-UGAUGCCA
.......................(((((((((....................)))))))))..(---((.((((((.-----------..))))-)).))).. ( -26.65)
>DroEre_CAF1 55465 94 - 1
CAAUCAACAUCAACUUAUUUGUCUGCUGGCCAAACAUCUCAA--------AGUGGCCAACGUCGCAGCAGCAGCAGCACAGCAGCAGGAUCUGC-UGAUGCCA
.......(((((.......(((((((((((((..........--------..)))))......((....))))))).)))((((......))))-)))))... ( -26.20)
>DroYak_CAF1 55423 83 - 1
CAAUCAACAUCAACUUAUUUGUCUGCUGGCCAAACAUCUCAA--------AGUGGCCAGCAUCGCAGAAAUAGCAGC-----------AUCUGC-UAAAUCCA
.................(((((.(((((((((..........--------..)))))))))..)))))..((((((.-----------..))))-))...... ( -25.00)
>DroPer_CAF1 61195 74 - 1
CAAUCAACAUCAGCUUAUUUGUCUGCUGGCCAAACAUUUCAAAG--------CG---AAC-------CAGCAGCAGC-----------AUCUGCCCGUUGCCA
....((((....((..(((((.(((((((........(((....--------.)---)))-------))))))))).-----------))..))..))))... ( -15.20)
>consensus
CAAUCAACAUCAACUUAUUUGUCUGCUGGCCAAACAUCUCAAAG______AGUGGCCAGCAUCG___CAGCAGCAGC___________AUCUGC_UGAUGCCA
.......(((((...........(((((((((....................)))))))))...........((((..............)))).)))))... (-11.62 = -13.51 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:17 2006