Locus 2492

Sequence ID 2R_DroMel_CAF1
Location 8,910,935 – 8,911,095
Length 160
Max. P 0.827373
window4110 window4111 window4112

overview

Window 0

Location 8,910,935 – 8,911,055
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -39.60
Consensus MFE -29.58
Energy contribution -30.50
Covariance contribution 0.92
Combinations/Pair 1.07
Mean z-score -2.29
Structure conservation index 0.75
SVM decision value 0.70
SVM RNA-class probability 0.827373
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8910935 120 + 20766785
AACUUCUUGACAAUUCUCGACUUUUGGCUGAUCUUACUCGGAUCGAGCAAUCGCACAUCCUGACUGAAAUCCUCGGCAAGGAUUUGAAGUGUGCUCUGUCGCUUCUCACGACACUUUUGU
.........((((...(((......(((.(((((.....)))))(((((....((.(((((..((((.....))))..))))).)).....)))))....))).....))).....)))) ( -28.80)
>DroSec_CAF1 155929 120 + 1
AACUUCUUGACGAUCCUCGACUUUUGGCUGAUCUUAGUCGGAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCAAGGAUUUGAAGUGUACUCUGUCGCUUCUCGCGACACUUUUGC
.(((((.((.((((.(((((..((((((((....)))))))))))))..)))))).(((((.(((((.....))))).)))))..)))))......((((((.....))))))....... ( -40.30)
>DroSim_CAF1 156501 120 + 1
AACUUCUUGACGAUCCUCGACUUUUGGCUGAUCUUAGUCGGAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCAAGGAUUUGAAGUGUGCUCUGUCGCUUCUCGCGACACUUUUGC
...........(((((..((((...((....))..)))))))))(((((....((.(((((.(((((.....))))).))))).)).....)))))((((((.....))))))....... ( -40.40)
>DroEre_CAF1 160241 120 + 1
AACUUCUUGACGAUCCUCGACUUUUGGUUGAUCUUACUUGGAUCGAGUAAACGCACAUCCUGGCUGAAGUCCUCGGCCAGGAUUUGAAGUGAGCUCUGUCGCUUCUCGCGGCACUUGCGC
.(((((....(((((((((((.....)))))........))))))...........(((((((((((.....)))))))))))..)))))..((..((((((.....))))))...)).. ( -45.30)
>DroYak_CAF1 162273 120 + 1
AACUUCUUGACGAUCCUGGACUUUUGGCUGAUCUUGCUCGGAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCCAGGAGUUGAAGUGAGCUCUGUCGCUUCUCGCGACACUUUCGC
.(((((..(((.............((((.(((..((((((...))))))))))).))((((((((((.....))))))))))))))))))(((...((((((.....))))))..))).. ( -43.20)
>consensus
AACUUCUUGACGAUCCUCGACUUUUGGCUGAUCUUACUCGGAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCAAGGAUUUGAAGUGUGCUCUGUCGCUUCUCGCGACACUUUUGC
.............................(((((.....)))))(((((....((.(((((.(((((.....))))).))))).)).....)))))((((((.....))))))....... (-29.58 = -30.50 +   0.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 8,910,975 – 8,911,095
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.75
Mean single sequence MFE -40.51
Consensus MFE -30.30
Energy contribution -30.10
Covariance contribution -0.20
Combinations/Pair 1.17
Mean z-score -1.81
Structure conservation index 0.75
SVM decision value 0.23
SVM RNA-class probability 0.642946
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8910975 120 + 20766785
GAUCGAGCAAUCGCACAUCCUGACUGAAAUCCUCGGCAAGGAUUUGAAGUGUGCUCUGUCGCUUCUCACGACACUUUUGUUGCUCGUUGGAUGUCUUGAGAAUUAGGUCAUAGAAGUCCU
(((.(((((....((.(((((..((((.....))))..))))).)).....))))).)))..((((((.((((((..((.....))..)).)))).))))))..(((.(......).))) ( -36.90)
>DroSec_CAF1 155969 120 + 1
GAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCAAGGAUUUGAAGUGUACUCUGUCGCUUCUCGCGACACUUUUGCUGCUCGUUCGAUGUCUUGAGAAUUAGGUCAUAGAAGUCCU
((.((((((...(((((((((.(((((.....))))).))))).....))))....((((((.....)))))).......)))))).))(((.((((((........))).))).))).. ( -38.40)
>DroSim_CAF1 156541 120 + 1
GAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCAAGGAUUUGAAGUGUGCUCUGUCGCUUCUCGCGACACUUUUGCUGCUCGUUAGAUGUCUUGAGAAUUAGGUCAUAGAAGUCCU
(((.(((((....((.(((((.(((((.....))))).))))).)).....))))).)))..((((((.((((((...((.....)).)).)))).))))))..(((.(......).))) ( -38.40)
>DroEre_CAF1 160281 120 + 1
GAUCGAGUAAACGCACAUCCUGGCUGAAGUCCUCGGCCAGGAUUUGAAGUGAGCUCUGUCGCUUCUCGCGGCACUUGCGCUCCUCGUUGGACGUCUUCAGUAUCAGGUCAUAGAAGUCCU
...((((......((.(((((((((((.....))))))))))).))....((((.(((((((.....))))))...).))))))))..((((.(((...............))).)))). ( -43.16)
>DroYak_CAF1 162313 120 + 1
GAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCCAGGAGUUGAAGUGAGCUCUGUCGCUUCUCGCGACACUUUCGCUCCUCGUUGGACGUCUUUAGGAUUAGGUCGUAGAAGUCCU
(((.((((..((((...((((((((((.....))))))))))......)))))))).)))((((((.(((((.((.....((((....((....))..))))..)))))))))))))... ( -45.70)
>consensus
GAUCGAGCAAUCGCACAUCCUGGCUGAAAUCCUCGGCAAGGAUUUGAAGUGUGCUCUGUCGCUUCUCGCGACACUUUUGCUGCUCGUUGGAUGUCUUGAGAAUUAGGUCAUAGAAGUCCU
(((.(((((....((.(((((.(((((.....))))).))))).)).....))))).)))((((((...(((...(((......(((...)))......)))....)))..))))))... (-30.30 = -30.10 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 2

Location 8,910,975 – 8,911,095
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.75
Mean single sequence MFE -38.28
Consensus MFE -28.53
Energy contribution -28.97
Covariance contribution 0.44
Combinations/Pair 1.14
Mean z-score -1.86
Structure conservation index 0.75
SVM decision value 0.25
SVM RNA-class probability 0.654101
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8910975 120 - 20766785
AGGACUUCUAUGACCUAAUUCUCAAGACAUCCAACGAGCAACAAAAGUGUCGUGAGAAGCGACAGAGCACACUUCAAAUCCUUGCCGAGGAUUUCAGUCAGGAUGUGCGAUUGCUCGAUC
.(((..(((.(((........))))))..)))..((((((((.....((((((.....))))))..((((((((.((((((((...)))))))).....))).)))))).)))))))... ( -37.30)
>DroSec_CAF1 155969 120 - 1
AGGACUUCUAUGACCUAAUUCUCAAGACAUCGAACGAGCAGCAAAAGUGUCGCGAGAAGCGACAGAGUACACUUCAAAUCCUUGCCGAGGAUUUCAGCCAGGAUGUGCGAUUGCUCGAUC
..((..(((.(((........))))))..))...((((((((.....((((((.....))))))..((((((((.((((((((...)))))))).....))).)))))).)))))))... ( -34.10)
>DroSim_CAF1 156541 120 - 1
AGGACUUCUAUGACCUAAUUCUCAAGACAUCUAACGAGCAGCAAAAGUGUCGCGAGAAGCGACAGAGCACACUUCAAAUCCUUGCCGAGGAUUUCAGCCAGGAUGUGCGAUUGCUCGAUC
.(((..(((.(((........))))))..)))..((((((((.....((((((.....))))))..((((((((.((((((((...)))))))).....))).)))))).)))))))... ( -37.00)
>DroEre_CAF1 160281 120 - 1
AGGACUUCUAUGACCUGAUACUGAAGACGUCCAACGAGGAGCGCAAGUGCCGCGAGAAGCGACAGAGCUCACUUCAAAUCCUGGCCGAGGACUUCAGCCAGGAUGUGCGUUUACUCGAUC
.((((.(((...............))).))))..(((((((((((((((.(....).(((......)))))))....((((((((.(((...))).)))))))).))))))).))))... ( -40.66)
>DroYak_CAF1 162313 120 - 1
AGGACUUCUACGACCUAAUCCUAAAGACGUCCAACGAGGAGCGAAAGUGUCGCGAGAAGCGACAGAGCUCACUUCAACUCCUGGCCGAGGAUUUCAGCCAGGAUGUGCGAUUGCUCGAUC
.((((.(((...............))).))))..((((((((.....((((((.....))))))..))))...((.(((((((((.(((...))).))))))).))..))...))))... ( -42.36)
>consensus
AGGACUUCUAUGACCUAAUUCUCAAGACAUCCAACGAGCAGCAAAAGUGUCGCGAGAAGCGACAGAGCACACUUCAAAUCCUUGCCGAGGAUUUCAGCCAGGAUGUGCGAUUGCUCGAUC
.(((..(((..(........)...)))..)))..((((((((.....((((((.....))))))..(((((.......((((.((.(((...))).)).)))))))))).)))))))... (-28.53 = -28.97 +   0.44)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:22 2006