Locus 500

Sequence ID 2L_DroMel_CAF1
Location 1,495,741 – 1,495,884
Length 143
Max. P 0.874268
window799 window800

overview

Window 9

Location 1,495,741 – 1,495,844
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 80.39
Mean single sequence MFE -35.58
Consensus MFE -27.72
Energy contribution -27.70
Covariance contribution -0.02
Combinations/Pair 1.47
Mean z-score -1.47
Structure conservation index 0.78
SVM decision value 0.52
SVM RNA-class probability 0.767684
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1495741 103 + 22407834
AGACCAUGAGAGUCAGGUGGAACCAUUUCAAGUUAUUGCUGUUUUGGCUAACGGUUUUAGCUGUCUUGGCCUUUGAAGCCGAGGCCAGGAAGCGUGUUAGGAU
...((.(((((....((.....)).)))))(((((..((((((......))))))..))))).((((((((((.......)))))))))).........)).. ( -31.50)
>DroSec_CAF1 113397 103 + 1
AGACCAUGAGGGUCAGGUGGAACCAUUCCAAGUUAUUGCUGUUCUGGCUAACAGUUUUAGCUGUCUUGGCCUUUGAAGCGGAGGCCAGGAAGCGUGUUAGGAU
.((((.....)))).((.....))..(((.(((((..((((((......))))))..))))).((((((((((((...)))))))))))).........))). ( -38.30)
>DroSim_CAF1 115957 103 + 1
AGACCAUGAGGGUCAGGUGGAACCAUUUCAAGUUAUUGCUGUUCUGGCUAACAGUUUUAGCUGUCUUGGCCUUUGAAGCGGAGGCCAGGAAGCGUGUUAGGAU
.((((.....))))........((......(((((..((((((......))))))..))))).((((((((((((...)))))))))))).........)).. ( -35.70)
>DroEre_CAF1 119607 103 + 1
GGACCAUGAGGGACAGAUGGAGCCGUUUCCAGCUAUUGCUGUUCUGGCUAACAGUCUUGGCCGUCUGGGCCUUUGAAGUGGAGGCCAGGAAGCGCGUUAAGCU
(..((....))..)((....(((((((((((((....))))..((((((..((.((..((((.....))))...))..))..)))))))))))).)))...)) ( -38.30)
>DroYak_CAF1 116585 103 + 1
GGACCAUGGGGGUCAGGUGGAACCACUUCAAGUUACUGCUGCUCUGGCUAACAGUCUUGGCUGUCUUGGCCUUGGAAGUGGAGGCCAGGAAGCGCGUUAAGAU
.((((.....))))(((((....)))))((((..((((..((....))...))))))))(((.((((((((((.......))))))))))))).......... ( -36.50)
>DroAna_CAF1 139975 100 + 1
CGACCACGAUGGUCAAGUCGAAGUGUUGUAAGC---UGGUGUUUUGGAUGGCAUUGGUGGUUCUCCUAGCCUCCAAAGUGGAGGCCCGCAAGCGCCUCAAGGU
.((((.....)))).....((.(((((((..((---..(((((......)))))..))..........((((((.....))))))..)).))))).))..... ( -33.20)
>consensus
AGACCAUGAGGGUCAGGUGGAACCAUUUCAAGUUAUUGCUGUUCUGGCUAACAGUUUUAGCUGUCUUGGCCUUUGAAGCGGAGGCCAGGAAGCGCGUUAAGAU
.((((.....)))).((((....))))...(((((..((((((......))))))..))))).(((((((((((.....)))))))))))............. (-27.72 = -27.70 +  -0.02) 

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 1,495,779 – 1,495,884
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -36.72
Consensus MFE -26.06
Energy contribution -26.73
Covariance contribution 0.67
Combinations/Pair 1.39
Mean z-score -2.34
Structure conservation index 0.71
SVM decision value 0.88
SVM RNA-class probability 0.874268
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1495779 105 + 22407834
CUGUUUUGGCUAACGGUUUUAGCUGUCUUGGCCUUUGAAGCCGAGGCCAGGAAGCGUGUUAGGAUUGGAUUGCACAAGAAUCCUGAACCAAUUGAGGAGAACAUA
...(((((((...((((((((((..((((((((((.......)))))))))).....))))))))))....)).))))).((((.((....)).))))....... ( -33.90)
>DroSec_CAF1 113435 105 + 1
CUGUUCUGGCUAACAGUUUUAGCUGUCUUGGCCUUUGAAGCGGAGGCCAGGAAGCGUGUUAGGAUUGGAUUGCACAAGAAUCCUGAACCAAUUGAGGACAACAUA
.((((((.(((..((((....))))((((((((((((...)))))))))))))))(..((((((((............))))))))..).....))))))..... ( -36.20)
>DroSim_CAF1 115995 105 + 1
CUGUUCUGGCUAACAGUUUUAGCUGUCUUGGCCUUUGAAGCGGAGGCCAGGAAGCGUGUUAGGAUUGGAUUGCACAAGAAUCCUGAACCAAUUGAGGACAACAUA
.((((((.(((..((((....))))((((((((((((...)))))))))))))))(..((((((((............))))))))..).....))))))..... ( -36.20)
>DroEre_CAF1 119645 105 + 1
CUGUUCUGGCUAACAGUCUUGGCCGUCUGGGCCUUUGAAGUGGAGGCCAGGAAGCGCGUUAAGCUCGGAUUGCACAAGAAUCCCGAGCCCAUCGAGGAGAACAUA
.((((((((((.....(((((((.((((((((((((.....)))))))....(((.......)))))))).)).)))))......))))........)))))).. ( -37.00)
>DroYak_CAF1 116623 105 + 1
CUGCUCUGGCUAACAGUCUUGGCUGUCUUGGCCUUGGAAGUGGAGGCCAGGAAGCGCGUUAAGAUUGGAUUGCACAAGAAUCCUGAGCCAAUUGAGGAGAACAUU
((.((((((((...(((((((((..((((((((((.......)))))))))).....)))))))))(((((.......)))))..)))))...))).))...... ( -39.20)
>DroAna_CAF1 140010 105 + 1
GUGUUUUGGAUGGCAUUGGUGGUUCUCCUAGCCUCCAAAGUGGAGGCCCGCAAGCGCCUCAAGGUUGGGAUACACAAAAAUCCUCAGUCUAGUCAUCAAAAUGUG
(..(((((.(((((.((((.((((.....)))).))))....(((((.(....).))))).((..((((((........)))).))..)).))))))))))..). ( -37.80)
>consensus
CUGUUCUGGCUAACAGUUUUAGCUGUCUUGGCCUUUGAAGCGGAGGCCAGGAAGCGCGUUAAGAUUGGAUUGCACAAGAAUCCUGAACCAAUUGAGGAGAACAUA
..(((((.((...((((((((((..(((((((((((.....))))))))))).....))))))))))....))...)))))........................ (-26.06 = -26.73 +   0.67) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:40 2006