Locus 10161

Sequence ID 3R_DroMel_CAF1
Location 27,290,996 – 27,291,096
Length 100
Max. P 0.989280
window16166 window16167

overview

Window 6

Location 27,290,996 – 27,291,096
Length 100
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 91.74
Mean single sequence MFE -26.18
Consensus MFE -22.79
Energy contribution -22.95
Covariance contribution 0.16
Combinations/Pair 1.05
Mean z-score -1.96
Structure conservation index 0.87
SVM decision value 2.16
SVM RNA-class probability 0.989280
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27290996 100 + 27905053
CGGGGCGCAGCCUAGGAACCGCCUAAAUGGCAGCUUCCUUGGGUAACCAUAAACAAACUGGAAUUAGGCGAA-A--------------CCCAGUCCCUAAAAUUAAGAAAUUUAU
.(((.(((.((((((((((.(((.....))).).)))).)))))..(((.........)))......)))..-.--------------)))........................ ( -27.30)
>DroSec_CAF1 63697 101 + 1
CGGGGCGCAGCCUAGGAACCGCCUAAAUGGCAGCUUCCUUGGGUAACCAUAAACAAACAGGAAUUAGGCGAAAA--------------CCCAGUCCCUAAAAUUAAGAAAUUUAU
.(((((...((((((((((.(((.....))).).)))).(((....)))...............)))))(....--------------..).))))).................. ( -27.00)
>DroSim_CAF1 65335 101 + 1
CGGGGCGCAGCCUAGGAACCGCCUAAAUGGCAGCUUCCUUGGGUAACCAUAAACAAACAGGAAUUAGGCGAAAA--------------CCCAGUCCCUAAAAUUAAGAAAUUUAU
.(((((...((((((((((.(((.....))).).)))).(((....)))...............)))))(....--------------..).))))).................. ( -27.00)
>DroEre_CAF1 66616 101 + 1
CGGGGAGCAGCCUAGGAACCGCCUAAAUGGCAGCUUCCUUGGGUAACUAUAAACAAACAGGAAUUAGGCGAAAA--------------CCCAGUCCCUAAAAUUAAGAAAUUUAU
.(((.....((((((.....(((.....)))...(((((((..((....))..))...))))))))))).....--------------)))........................ ( -24.00)
>DroYak_CAF1 70373 115 + 1
CGGGGAGCAGCCUAGGCACCGCCUAAAUGGCAGCUUCCUUGGGCAACUAUAAACAAACAGGAAUUAGGCGAAAACCCAAAACCCAAAACCCAGUCCCUCAAAUUAAGAAAUUUAU
.(((.....((((((.....(((.....)))...((((((((....))).........))))))))))).....)))...................................... ( -25.60)
>consensus
CGGGGCGCAGCCUAGGAACCGCCUAAAUGGCAGCUUCCUUGGGUAACCAUAAACAAACAGGAAUUAGGCGAAAA______________CCCAGUCCCUAAAAUUAAGAAAUUUAU
.(((((...((((((...(((((.....)))........(((....)))..........))..)))))).......................))))).................. (-22.79 = -22.95 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 27,290,996 – 27,291,096
Length 100
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 91.74
Mean single sequence MFE -31.24
Consensus MFE -22.39
Energy contribution -22.99
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.72
SVM decision value 0.02
SVM RNA-class probability 0.543100
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27290996 100 - 27905053
AUAAAUUUCUUAAUUUUAGGGACUGGG--------------U-UUCGCCUAAUUCCAGUUUGUUUAUGGUUACCCAAGGAAGCUGCCAUUUAGGCGGUUCCUAGGCUGCGCCCCG
..................(((.(((((--------------.-.((((((((...((((((.((..(((....))))).))))))....))))))))..)))))((...))))). ( -32.50)
>DroSec_CAF1 63697 101 - 1
AUAAAUUUCUUAAUUUUAGGGACUGGG--------------UUUUCGCCUAAUUCCUGUUUGUUUAUGGUUACCCAAGGAAGCUGCCAUUUAGGCGGUUCCUAGGCUGCGCCCCG
................((((((.((((--------------(....))))).)))))).........(((((.((.(((((.(((((.....)))))))))).)).)).)))... ( -29.80)
>DroSim_CAF1 65335 101 - 1
AUAAAUUUCUUAAUUUUAGGGACUGGG--------------UUUUCGCCUAAUUCCUGUUUGUUUAUGGUUACCCAAGGAAGCUGCCAUUUAGGCGGUUCCUAGGCUGCGCCCCG
................((((((.((((--------------(....))))).)))))).........(((((.((.(((((.(((((.....)))))))))).)).)).)))... ( -29.80)
>DroEre_CAF1 66616 101 - 1
AUAAAUUUCUUAAUUUUAGGGACUGGG--------------UUUUCGCCUAAUUCCUGUUUGUUUAUAGUUACCCAAGGAAGCUGCCAUUUAGGCGGUUCCUAGGCUGCUCCCCG
................((((((.((((--------------(....))))).)))))).........(((...((.(((((.(((((.....)))))))))).))..)))..... ( -28.70)
>DroYak_CAF1 70373 115 - 1
AUAAAUUUCUUAAUUUGAGGGACUGGGUUUUGGGUUUUGGGUUUUCGCCUAAUUCCUGUUUGUUUAUAGUUGCCCAAGGAAGCUGCCAUUUAGGCGGUGCCUAGGCUGCUCCCCG
.....(..(((.....)))..)..(((....(((..((((((....))))))..)))..........(((.(((..(((..((((((.....)))))).))).))).))).))). ( -35.40)
>consensus
AUAAAUUUCUUAAUUUUAGGGACUGGG______________UUUUCGCCUAAUUCCUGUUUGUUUAUGGUUACCCAAGGAAGCUGCCAUUUAGGCGGUUCCUAGGCUGCGCCCCG
................((((((.((((....................)))).))))))..........((...((.((((.((((((.....)))))))))).))..))...... (-22.39 = -22.99 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:10 2006