Locus 3142

Sequence ID 2L_DroMel_CAF1
Location 8,943,705 – 8,943,927
Length 222
Max. P 0.920424
window4992 window4993

overview

Window 2

Location 8,943,705 – 8,943,824
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.00
Mean single sequence MFE -22.65
Consensus MFE -18.82
Energy contribution -19.19
Covariance contribution 0.37
Combinations/Pair 1.04
Mean z-score -1.87
Structure conservation index 0.83
SVM decision value 0.56
SVM RNA-class probability 0.780882
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8943705 119 - 22407834
UACCACUUCCAUAAAACAACUUUAUGUCCUCGGUCCAUUUCUUCACAUCCCGAAAAGGUUUCGU-UUGGGCUCCACUGCGGAGCUCUUCCCUUUUGUACAAAUACCAAAACUAGUUAUAA
.(((.....((((((.....))))))...((((................))))...)))...((-(((((((((.....))))))).........(((....)))..))))......... ( -19.29)
>DroSec_CAF1 154201 118 - 1
UACCACUUCCAUAAACCAACUUUAUGUCCUCGGUCCAUUUCUUCACAUCCCGAA-AGGUUUCGU-UUGGACUCCACUACGGAGCUCUUUCCUUUUGUACAAAUACCAAAACUAGGUAUAA
((((.....((((((.....)))))).....(((..((((....(((....(((-(((((((((-.(((...)))..))))))).)))))....)))..))))))).......))))... ( -23.40)
>DroSim_CAF1 153675 118 - 1
UACCACUUCCAUAAACCAACUUUAUGUCCUCGGUCCAUUUCUUCACAUCCCGAA-AGGUUUCGU-UUGGGCUCCACUGCGGAGCUCUUUCCUUUUGUACAAAUACCAAAACUAGGUAUAA
.(((.....((((((.....)))))).....)))................((((-(((......-..(((((((.....)))))))...))))))).....(((((.......))))).. ( -25.50)
>DroYak_CAF1 158879 119 - 1
UACCACUUCCAUUAAUCAACUUUAUGUCGUCGGUCCAUUUAUCCACAUCCCGAA-AGGUUUCGUUUUGGGCUCUAUUGUAGAGCUCGUUCCUUUUGUACAAAUACCAAAACUAGGUAUAA
((((........................((.((.........))))...((...-.))....(((((((((((((...))))))..((.........)).....)))))))..))))... ( -22.40)
>consensus
UACCACUUCCAUAAACCAACUUUAUGUCCUCGGUCCAUUUCUUCACAUCCCGAA_AGGUUUCGU_UUGGGCUCCACUGCGGAGCUCUUUCCUUUUGUACAAAUACCAAAACUAGGUAUAA
.(((.....((((((.....))))))...((((................))))...)))........(((((((.....)))))))...............(((((.......))))).. (-18.82 = -19.19 +   0.37)

alignment

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secondary structure

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dotplot

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Window 3

Location 8,943,824 – 8,943,927
Length 103
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 95.49
Mean single sequence MFE -22.15
Consensus MFE -20.70
Energy contribution -20.32
Covariance contribution -0.38
Combinations/Pair 1.07
Mean z-score -1.99
Structure conservation index 0.93
SVM decision value 1.13
SVM RNA-class probability 0.920424
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8943824 103 - 22407834
CACACGGGUAGACACCU-AAUGUACAUAUAGCUUUUGUAUAUAUCAAUAGAUAAUUGUGUAAUCCAACACGAUGAAUCGCUACAAGCUAUCCUAGCAAUGCCAU
.....((((((.(....-.(((((((.........))))))).......(((.(((((((......)))))))..))))))))..((((...))))....)).. ( -21.60)
>DroSec_CAF1 154319 103 - 1
CACACGGGUAGACCCGU-AAUGUACAUAUAGCUUUUGUAUAUAUCAAUAGAUAAUUGUGUAAUCCAACACGAUGAAUCGCUACAAGCUAUCCUAGCAAUGCCAU
...(((((....)))))-..(((....((((((..((((..((((....))))(((((((......))))))).......))))))))))....)))....... ( -24.10)
>DroSim_CAF1 153793 103 - 1
CACACGGGUAGACUCCU-AAUGUACAUAUAGCUUUUGUAUAUAUCAAUAGAUAAUUGUGUAAUCCAACACGAUGAAUCGCUACAAGCUAUCCUAGCAAUGCCAU
.....((((((......-.(((((((.........))))))).......(((.(((((((......)))))))..))).))))..((((...))))....)).. ( -21.30)
>DroYak_CAF1 158998 104 - 1
CACACGGGUAGACUCUUCAAUGUACAUAUAGCUUUUGUAUAUAUGAAUAGAUAAUUGUGUAAUCCUACAUGAUAAAUCGCUGCAAGCUAUCCUAGCAAUGCCAU
.....((((((.((.(((((((((((.........))))))).)))).))...((..((((....))))..))......))))..((((...))))....)).. ( -21.60)
>consensus
CACACGGGUAGACUCCU_AAUGUACAUAUAGCUUUUGUAUAUAUCAAUAGAUAAUUGUGUAAUCCAACACGAUGAAUCGCUACAAGCUAUCCUAGCAAUGCCAU
.....((((((........(((((((.........))))))).......(((.(((((((......)))))))..))).))))..((((...))))....)).. (-20.70 = -20.32 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:19 2006