Locus 5056

Sequence ID 3R_DroMel_CAF1
Location 13,311,537 – 13,311,629
Length 92
Max. P 0.949181
window8248 window8249

overview

Window 8

Location 13,311,537 – 13,311,629
Length 92
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.33
Mean single sequence MFE -25.41
Consensus MFE -11.98
Energy contribution -12.40
Covariance contribution 0.42
Combinations/Pair 1.05
Mean z-score -2.54
Structure conservation index 0.47
SVM decision value 1.30
SVM RNA-class probability 0.939636
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13311537 92 + 27905053
U------GUGUGUGUGCCUGUGC-AUUUUUAGUGCUGCUAAUGCAACUCGUUGCAUGGGUGAAUGCGUUGCAUAAAUUGCAAUAUUCAUAAUUAAAUAG
.------..((((.(((((((((-(.......(((.......)))......)))))))))).))))((((((.....))))))................ ( -24.52)
>DroVir_CAF1 62706 80 + 1
-------------------GUGCAAUUUGUAGGGCCGCUAAUGCAGCACGUUGCGUCCGCAAAUACGUUGCAUAAAUUGCAAUAUUCAUAAUUAAAAGG
-------------------.((((((((((.((((.((....)).((.....))))))((((.....)))))))))))))).................. ( -22.30)
>DroGri_CAF1 63244 72 + 1
-------------------AUGCAAUUUGCAAUGGCGCUAAUGCAGCACGUUGC--------AUGCGUUGCAUAAAUUGCAAAAUGCAUAAUUAAACAG
-------------------(((((.((((((((...((.((((((((.....))--------.))))))))....)))))))).))))).......... ( -25.10)
>DroEre_CAF1 65647 94 + 1
----CGUGUGUGUGUGCCUGUGC-AUUUUUAGUGCUGCUAAUGCAACUCGUUGCACGGGUGAAUGCGUUGCAUAAAUUGCAAUAUUCAUAAUUAAACAG
----..(((((((.(((((((((-(.......(((.......)))......)))))))))).))))((((((.....))))))............))). ( -27.72)
>DroYak_CAF1 77096 98 + 1
UGUGCGUGUGUGUGAGCCUGUGC-AUUUUUAGUGCUGCUAAUGCAACUCGUUGCAUGGGUGAAUGCGUUGCAUAAAUUGCAAUAUUCAUAAUUAAACAG
((((.((((((((..((((((((-(.......(((.......)))......)))))))))..))))..((((.....)))))))).))))......... ( -26.92)
>DroAna_CAF1 84739 92 + 1
------UGUGUGCGUGUGUGUGC-AUUUUUAGUGCUGCUAAUGCAGCUCGUUGCAUGGAUAAAUGCGUUGCAUAAAUUGCAAUAUUCAUAAUUAAACAG
------((((.((((((.(((((-(......(.(((((....))))).)..)))))).))..))))((((((.....))))))...))))......... ( -25.90)
>consensus
_______GUGUGUGUGCCUGUGC_AUUUUUAGUGCUGCUAAUGCAACUCGUUGCAUGGGUGAAUGCGUUGCAUAAAUUGCAAUAUUCAUAAUUAAACAG
....................(((.((((.(((.....)))(((((((.((((.........)))).))))))))))).))).................. (-11.98 = -12.40 +   0.42)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,311,537 – 13,311,629
Length 92
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 77.33
Mean single sequence MFE -18.49
Consensus MFE -11.87
Energy contribution -11.90
Covariance contribution 0.03
Combinations/Pair 1.29
Mean z-score -2.05
Structure conservation index 0.64
SVM decision value 1.39
SVM RNA-class probability 0.949181
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13311537 92 - 27905053
CUAUUUAAUUAUGAAUAUUGCAAUUUAUGCAACGCAUUCACCCAUGCAACGAGUUGCAUUAGCAGCACUAAAAAU-GCACAGGCACACACAC------A
.((((((....)))))).(((......((((..((((......)))).....(((((....)))))........)-)))...))).......------. ( -16.00)
>DroVir_CAF1 62706 80 - 1
CCUUUUAAUUAUGAAUAUUGCAAUUUAUGCAACGUAUUUGCGGACGCAACGUGCUGCAUUAGCGGCCCUACAAAUUGCAC-------------------
..................((((((((.....((((...(((....)))))))(((((....))))).....)))))))).------------------- ( -19.50)
>DroGri_CAF1 63244 72 - 1
CUGUUUAAUUAUGCAUUUUGCAAUUUAUGCAACGCAU--------GCAACGUGCUGCAUUAGCGCCAUUGCAAAUUGCAU-------------------
..........(((((.((((((((...((((.....)--------)))..((((((...)))))).)))))))).)))))------------------- ( -22.10)
>DroEre_CAF1 65647 94 - 1
CUGUUUAAUUAUGAAUAUUGCAAUUUAUGCAACGCAUUCACCCGUGCAACGAGUUGCAUUAGCAGCACUAAAAAU-GCACAGGCACACACACACG----
...........(((((.(((((.....)))))...)))))((.(((((..(.(((((....))))).)......)-)))).))............---- ( -18.60)
>DroYak_CAF1 77096 98 - 1
CUGUUUAAUUAUGAAUAUUGCAAUUUAUGCAACGCAUUCACCCAUGCAACGAGUUGCAUUAGCAGCACUAAAAAU-GCACAGGCUCACACACACGCACA
((((......((((((......))))))(((..((((......)))).....(((((....)))))........)-))))))................. ( -16.80)
>DroAna_CAF1 84739 92 - 1
CUGUUUAAUUAUGAAUAUUGCAAUUUAUGCAACGCAUUUAUCCAUGCAACGAGCUGCAUUAGCAGCACUAAAAAU-GCACACACACGCACACA------
.((((((....)))))).(((......((((..((((......)))).....(((((....)))))........)-))).......)))....------ ( -17.92)
>consensus
CUGUUUAAUUAUGAAUAUUGCAAUUUAUGCAACGCAUUCACCCAUGCAACGAGCUGCAUUAGCAGCACUAAAAAU_GCACAGGCACACACAC_______
.................(((((.....))))).((((......)))).....(((((....)))))................................. (-11.87 = -11.90 +   0.03)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:10 2006