Locus 7537

Sequence ID 2L_DroMel_CAF1
Location 20,918,396 – 20,918,516
Length 120
Max. P 0.892350
window12117 window12118

overview

Window 7

Location 20,918,396 – 20,918,516
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -35.98
Consensus MFE -32.20
Energy contribution -32.04
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.43
Structure conservation index 0.89
SVM decision value 0.97
SVM RNA-class probability 0.892350
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918396 120 + 22407834
GAACUGUGGAUAUCCUGGUAGUUAUCGUAUUCCUUGGUGAGUAAGUCCUGAGCUUCCAUAGCUCUGAUGGUGGAUAGGCCAUUUAAAGUGGCACUAAAAUGGGAAUACAUAGGGGAUCUG
.......((((..((((((....)))((((((((.....(((..((((.(((((.....))))).......))))..(((((.....)))))))).....))))))))..)))..)))). ( -35.80)
>DroSec_CAF1 3750 120 + 1
GAACUGUGGAGAUCCUGGUAGUUAUCGUAUUCCUUGGUGAGCAAGUCCUGAGCUCCCAUAGAUCUGAUGGUGGGUAGGCCAUUUAAAGUGGCACUAAAAUGGGAAUACAUUGGGGAUCUG
.........((((((((((....)))(((((((((((.((((.........)))))))(((((((......))))..(((((.....))))).)))....))))))))....))))))). ( -37.00)
>DroSim_CAF1 3010 120 + 1
GAACUGUGGAGAUCCUGGUAGUUAUCGUAUUCCUUGGUGAGCAAGUCCUGAGCUCCCAUAGAUCUGAUGGUGGGUAGGCCAUUUAAAGUGGCACUAAAAUGCGAAUACAUUGGGGAUCUG
.........(((((((.(..((..(((((((((.(((.((((.........)))))))...(((....))))).((((((((.....))))).))).)))))))..))..).))))))). ( -35.40)
>DroEre_CAF1 2804 120 + 1
GAACUGUGGAGAUCCUGGUAGUUAUCGUACUCCUUAGUCAAUAAUUCCUGAGCUUCCAUAGCUCUGAUGGUGGGUAGGCCAUUUAAAGUGGCACUAAAAUGGGAGUACAUUGGGGAUCUG
.........((((((((((....)))((((((((...(((...(((...(((((.....))))).)))..))).((((((((.....))))).)))....))))))))....))))))). ( -38.40)
>DroYak_CAF1 2807 120 + 1
GAACUGUGGAGAUCCUGGUAGUUAUCGUAUUCCUUAGUCAAUAAUUCCUGAGCUUCCAUAGAUCUGAUGGUGGGUAGGCCAUUUAAAGUGGCACUAAAAUGGGAAUACAUUGGGGAUCUG
.........((((((((((....)))((((((((((((.........(((..((.((((.......)))).)).)))(((((.....)))))))))....))))))))....))))))). ( -33.30)
>consensus
GAACUGUGGAGAUCCUGGUAGUUAUCGUAUUCCUUGGUGAGUAAGUCCUGAGCUUCCAUAGAUCUGAUGGUGGGUAGGCCAUUUAAAGUGGCACUAAAAUGGGAAUACAUUGGGGAUCUG
.........((((((((((....)))((((((((((((.........(((..(..((((.......))))..).)))(((((.....)))))))))....))))))))....))))))). (-32.20 = -32.04 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,918,396 – 20,918,516
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -27.32
Consensus MFE -21.72
Energy contribution -21.80
Covariance contribution 0.08
Combinations/Pair 1.04
Mean z-score -1.87
Structure conservation index 0.80
SVM decision value 0.69
SVM RNA-class probability 0.822642
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918396 120 - 22407834
CAGAUCCCCUAUGUAUUCCCAUUUUAGUGCCACUUUAAAUGGCCUAUCCACCAUCAGAGCUAUGGAAGCUCAGGACUUACUCACCAAGGAAUACGAUAACUACCAGGAUAUCCACAGUUC
..(((..(((..(((((((.....(((.((((.......)))))))..........(((((.....)))))................)))))))(........))))..)))........ ( -24.50)
>DroSec_CAF1 3750 120 - 1
CAGAUCCCCAAUGUAUUCCCAUUUUAGUGCCACUUUAAAUGGCCUACCCACCAUCAGAUCUAUGGGAGCUCAGGACUUGCUCACCAAGGAAUACGAUAACUACCAGGAUCUCCACAGUUC
.((((((.....(((((((.....(((.((((.......)))))))................(((((((.........)))).))).)))))))(........).))))))......... ( -29.90)
>DroSim_CAF1 3010 120 - 1
CAGAUCCCCAAUGUAUUCGCAUUUUAGUGCCACUUUAAAUGGCCUACCCACCAUCAGAUCUAUGGGAGCUCAGGACUUGCUCACCAAGGAAUACGAUAACUACCAGGAUCUCCACAGUUC
.((((((.....((..(((.....(((.((((.......)))))))............(((.(((((((.........)))).))).)))...)))..)).....))))))......... ( -27.90)
>DroEre_CAF1 2804 120 - 1
CAGAUCCCCAAUGUACUCCCAUUUUAGUGCCACUUUAAAUGGCCUACCCACCAUCAGAGCUAUGGAAGCUCAGGAAUUAUUGACUAAGGAGUACGAUAACUACCAGGAUCUCCACAGUUC
.((((((.....(((((((.....(((.((((.......)))))))..........(((((.....)))))................)))))))(........).))))))......... ( -30.00)
>DroYak_CAF1 2807 120 - 1
CAGAUCCCCAAUGUAUUCCCAUUUUAGUGCCACUUUAAAUGGCCUACCCACCAUCAGAUCUAUGGAAGCUCAGGAAUUAUUGACUAAGGAAUACGAUAACUACCAGGAUCUCCACAGUUC
.((((((.....(((((((.....(((.((((.......)))))))....((((.......)))).((.((((......))))))..)))))))(........).))))))......... ( -24.30)
>consensus
CAGAUCCCCAAUGUAUUCCCAUUUUAGUGCCACUUUAAAUGGCCUACCCACCAUCAGAUCUAUGGAAGCUCAGGACUUACUCACCAAGGAAUACGAUAACUACCAGGAUCUCCACAGUUC
.((((((.....(((((((.....(((.((((.......)))))))....((((.......))))......................)))))))(........).))))))......... (-21.72 = -21.80 +   0.08)

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 12:39:18 2006