Locus 5659

Sequence ID 2R_DroMel_CAF1
Location 17,964,059 – 17,964,156
Length 97
Max. P 0.984660
window9069 window9070

overview

Window 9

Location 17,964,059 – 17,964,156
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.70
Mean single sequence MFE -27.91
Consensus MFE -21.87
Energy contribution -21.75
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -1.48
Structure conservation index 0.78
SVM decision value 0.06
SVM RNA-class probability 0.565719
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17964059 97 + 20766785
AUGCGGCUUUGAUAGCCACAUCGAUUAAUCAACGACACUUUAAUGGCUAUCUGCAGAUUUGGGUUGGCA----------------------CAGUCCACGGACUUUGUAGCAAAUCAGU-
.....((...((((((((.........................)))))))).)).((((((.....(((----------------------.((((....)))).)))..))))))...- ( -25.01)
>DroSec_CAF1 21364 97 + 1
AUGCGGCUUUGAUAGCCACAUCGAUUAAUCAACGACACUUUAAUGGCUAUCUGCCGAUUUUGGACGGCA----------------------CAGUUCACGGACUUUGUAGCAAAUCAGU-
.((((((...((((((((.........................)))))))).)))...........(((----------------------.((((....)))).))).))).......- ( -24.31)
>DroSim_CAF1 17005 97 + 1
AUGCGGCUUUGAUAGCCACAUCGAUUAAUCAACGACACUUUAAUGGCUAUCUGCCGAUUUUGGACGGCA----------------------CAGUCCACGGACUUUGUAGCAAAUCAGU-
.((((((...((((((((.........................)))))))).)))...........(((----------------------.((((....)))).))).))).......- ( -26.61)
>DroEre_CAF1 25876 98 + 1
AUGCGGCUUUGAUAGCCACAUCGAUUAAUCAACGACACUUUAAUGGCUAUCUGCCGAUUUGGGACGGCA----------------------CAGUCCAUGGACUUUGUAGCAAAUCAGUC
....(((...((((((((.........................)))))))).)))((((((.....(((----------------------.((((....)))).)))..)))))).... ( -28.71)
>DroYak_CAF1 25314 119 + 1
AUGCGGCUUUGAUAGCCACAUCGAUUAAUCAACGACACUUUAAUGGCUAUCUGCCGAUUUUGGACGGCACAUGGACAUGUUCCAUGGUCCACAGUCCAUGGACUUUGUAGCAAAUCAGU-
.((((((...((((((((.........................)))))))).)))((((.(((((....((((((.....))))))))))).)))).............))).......- ( -34.91)
>consensus
AUGCGGCUUUGAUAGCCACAUCGAUUAAUCAACGACACUUUAAUGGCUAUCUGCCGAUUUUGGACGGCA______________________CAGUCCACGGACUUUGUAGCAAAUCAGU_
.(((.((...((((((((.........................))))))))(((((........))))).......................((((....))))..)).)))........ (-21.87 = -21.75 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,964,059 – 17,964,156
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.70
Mean single sequence MFE -30.52
Consensus MFE -26.04
Energy contribution -26.64
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.85
SVM decision value 1.98
SVM RNA-class probability 0.984660
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17964059 97 - 20766785
-ACUGAUUUGCUACAAAGUCCGUGGACUG----------------------UGCCAACCCAAAUCUGCAGAUAGCCAUUAAAGUGUCGUUGAUUAAUCGAUGUGGCUAUCAAAGCCGCAU
-...((((((...((.((((....)))).----------------------))......))))))....(((((((((......((((.........))))))))))))).......... ( -24.00)
>DroSec_CAF1 21364 97 - 1
-ACUGAUUUGCUACAAAGUCCGUGAACUG----------------------UGCCGUCCAAAAUCGGCAGAUAGCCAUUAAAGUGUCGUUGAUUAAUCGAUGUGGCUAUCAAAGCCGCAU
-...(((((......))))).(((.....----------------------(((((........)))))(((((((((......((((.........))))))))))))).....))).. ( -27.30)
>DroSim_CAF1 17005 97 - 1
-ACUGAUUUGCUACAAAGUCCGUGGACUG----------------------UGCCGUCCAAAAUCGGCAGAUAGCCAUUAAAGUGUCGUUGAUUAAUCGAUGUGGCUAUCAAAGCCGCAU
-...(((((......))))).((((.((.----------------------(((((........)))))(((((((((......((((.........)))))))))))))..)))))).. ( -31.40)
>DroEre_CAF1 25876 98 - 1
GACUGAUUUGCUACAAAGUCCAUGGACUG----------------------UGCCGUCCCAAAUCGGCAGAUAGCCAUUAAAGUGUCGUUGAUUAAUCGAUGUGGCUAUCAAAGCCGCAU
((.(((((.((.(((......((((.(((----------------------(((((........)))))..))))))).....))).)).))))).)).((((((((.....)))))))) ( -30.90)
>DroYak_CAF1 25314 119 - 1
-ACUGAUUUGCUACAAAGUCCAUGGACUGUGGACCAUGGAACAUGUCCAUGUGCCGUCCAAAAUCGGCAGAUAGCCAUUAAAGUGUCGUUGAUUAAUCGAUGUGGCUAUCAAAGCCGCAU
-...(((((.......((((....)))).(((((((((((.....))))))....))))))))))(((.(((((((((......((((.........)))))))))))))...))).... ( -39.00)
>consensus
_ACUGAUUUGCUACAAAGUCCGUGGACUG______________________UGCCGUCCAAAAUCGGCAGAUAGCCAUUAAAGUGUCGUUGAUUAAUCGAUGUGGCUAUCAAAGCCGCAU
........(((.....((((....)))).......................(((((........)))))(((((((((......((((.........)))))))))))))......))). (-26.04 = -26.64 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:13 2006