Locus 974

Sequence ID 3R_DroMel_CAF1
Location 3,159,420 – 3,159,534
Length 114
Max. P 0.901895
window1565 window1566

overview

Window 5

Location 3,159,420 – 3,159,534
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.24
Mean single sequence MFE -36.20
Consensus MFE -31.85
Energy contribution -32.60
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.88
SVM decision value 1.02
SVM RNA-class probability 0.901895
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3159420 114 + 27905053
CACAUCAUGUGUGGCUCCAUCUCCUCCUAUGUGGCUAUCUGCGCAUCAUCA------UCAGCAGCAGAAGCAGAGAAGUCCUGCGAUAUGCUGGCCCACAUGAUGUCCUUCUCGUUGGUC
.((((((((((.(((.............(((((.(.....)))))).....------....(((((...((((.(....)))))....))))))))))))))))))((........)).. ( -37.00)
>DroSec_CAF1 7291 117 + 1
CACAUCAUGUGUGGCUCCAUCUCCUCCUAUGUGGCAAUCUGCGCAUCAUCAUCAUCAUCAGCAGCA---GCAGAGGAGUCCUGCGAUAUGCUGGCCCACAUGAUGUCCUUCUUGUUGGUC
.((((((((((.(((.............(((((........)))))............(((((...---((((.......))))....))))))))))))))))))((........)).. ( -36.30)
>DroSim_CAF1 9472 120 + 1
CACAUCAUGUGUGGCUCUAUCUCCUCCUAUUUGGCAAUCUGCGCAUCAUCAUCAUCAUCAGCAGCAGUAGCAGAGGAGUCCUGCGAUAUGAUGGCCCACAUGAUGUCCUUCUUGUUGGUC
.((((((((((.((((.((((.((((((.....((...((((((................)).))))..))..)))))....).))))....))))))))))))))((........)).. ( -36.09)
>DroYak_CAF1 8836 117 + 1
CACAUCAUGUGUGGCUCCAUCUCCUCCUUUGUGGCAAUCUGCGCAUCAUCAUCAUC---AGCAGCAGCAGAAGAGCAGUCCUGCGAUAUGCUGGCCCACAUGAUGUCCUUCUUGUUGGUC
.((((((((((.(((...............(((((.....)).))).........(---((((...((((..........))))....))))))))))))))))))((........)).. ( -35.40)
>consensus
CACAUCAUGUGUGGCUCCAUCUCCUCCUAUGUGGCAAUCUGCGCAUCAUCAUCAUC_UCAGCAGCAG_AGCAGAGGAGUCCUGCGAUAUGCUGGCCCACAUGAUGUCCUUCUUGUUGGUC
.((((((((((.(((...............(((((.....)).)))...............(((((...((((.......))))....))))))))))))))))))((........)).. (-31.85 = -32.60 +   0.75) 

alignment

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secondary structure

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dotplot

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Window 6

Location 3,159,420 – 3,159,534
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.24
Mean single sequence MFE -39.05
Consensus MFE -34.06
Energy contribution -34.94
Covariance contribution 0.88
Combinations/Pair 1.03
Mean z-score -1.72
Structure conservation index 0.87
SVM decision value 0.70
SVM RNA-class probability 0.825963
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3159420 114 - 27905053
GACCAACGAGAAGGACAUCAUGUGGGCCAGCAUAUCGCAGGACUUCUCUGCUUCUGCUGCUGA------UGAUGAUGCGCAGAUAGCCACAUAGGAGGAGAUGGAGCCACACAUGAUGUG
..((........))((((((((((((((.((.....))....(((((((((((((((.((...------.......))))))).)))......)))))))...).))).)))))))))). ( -41.10)
>DroSec_CAF1 7291 117 - 1
GACCAACAAGAAGGACAUCAUGUGGGCCAGCAUAUCGCAGGACUCCUCUGC---UGCUGCUGAUGAUGAUGAUGAUGCGCAGAUUGCCACAUAGGAGGAGAUGGAGCCACACAUGAUGUG
..((........))((((((((((((((.((.....))....(((((((((---..((((..((.((....)).))..))))...))......)))))))...).))).)))))))))). ( -40.10)
>DroSim_CAF1 9472 120 - 1
GACCAACAAGAAGGACAUCAUGUGGGCCAUCAUAUCGCAGGACUCCUCUGCUACUGCUGCUGAUGAUGAUGAUGAUGCGCAGAUUGCCAAAUAGGAGGAGAUAGAGCCACACAUGAUGUG
..((........))((((((((((((((......((....))(((((((((..((((.((................))))))...))......)))))))...).))).)))))))))). ( -37.99)
>DroYak_CAF1 8836 117 - 1
GACCAACAAGAAGGACAUCAUGUGGGCCAGCAUAUCGCAGGACUGCUCUUCUGCUGCUGCU---GAUGAUGAUGAUGCGCAGAUUGCCACAAAGGAGGAGAUGGAGCCACACAUGAUGUG
..((........))(((((((((((((..((.....))....((((((((((.((((.((.---............))))))...........))))))).))).))).)))))))))). ( -37.02)
>consensus
GACCAACAAGAAGGACAUCAUGUGGGCCAGCAUAUCGCAGGACUCCUCUGCU_CUGCUGCUGA_GAUGAUGAUGAUGCGCAGAUUGCCACAUAGGAGGAGAUGGAGCCACACAUGAUGUG
..((........))((((((((((((((.((.....))....(((((((((..((((.((................))))))...))......)))))))...).))).)))))))))). (-34.06 = -34.94 +   0.88) 

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 09:57:08 2006