Locus 5611

Sequence ID 3R_DroMel_CAF1
Location 14,796,622 – 14,796,714
Length 92
Max. P 0.999841
window9141 window9142

overview

Window 1

Location 14,796,622 – 14,796,714
Length 92
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 68.21
Mean single sequence MFE -37.21
Consensus MFE -24.96
Energy contribution -24.60
Covariance contribution -0.36
Combinations/Pair 1.35
Mean z-score -5.80
Structure conservation index 0.67
SVM decision value 2.07
SVM RNA-class probability 0.987212
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14796622 92 + 27905053
UCU-GCCCA-------CCC----UGGCAGCCAUUUUGUGAUGCUCUUCGGAGC---AUCAUGCUCACCGAAAAGUGUAGCCUACUUAUUAGGGCAUCACAAAAUGGC
..(-(((..-------...----.))))(((((((((((((((((((((((((---.....)))..)))))(((((.....)))))....))))))))))))))))) ( -42.40)
>DroSec_CAF1 5114 85 + 1
UCU-GCCCA-------CCC----CGGCAGCCAUUUUGUGAUGCUC-------C---AAAAUGCUCACCAAAAAGUGUAGCAUACAUAUUGGGGCAUCACAAAAUGGC
..(-(((..-------...----.))))(((((((((((((((((-------(---((.((((((((......))).))))).....)))))))))))))))))))) ( -44.60)
>DroEre_CAF1 12210 85 + 1
UCU-GCCCA-------UUC----GGGCAACCAUUUUGUGGUGCUC-------U---UAAAUGCUUACCGAAAAGUGUUGCCUACUUAUUAGGGCAUCGCACAAUGGU
..(-((((.-------...----)))))((((((.((((((((((-------(---..(((((((......)))))))...........))))))))))).)))))) ( -33.42)
>DroYak_CAF1 12458 85 + 1
UCU-GCCCA-------UUC----CGGCAACUAUUUUGUGGUGCUC-------C---AAAAUGCUUACUGAAAAGUGUGGCCUACUUAUUGGGGCAUCACAAAGUGGU
..(-(((..-------...----.))))(((((((((((((((((-------(---((...(((((((....)))).))).......)))))))))))))))))))) ( -37.90)
>DroAna_CAF1 2191 102 + 1
UGUUGACUAUGUUACAUUUGCAAAAGCAAGCAUUUUGUGGCACCU--CCAACCGUGAAGAGGUUUGCC-AAAAAUAUUGCCUACCUU--UGAGCGCCACAAAAUGGU
................(((((....)))))(((((((((((((((--(..........)))))..(((-(((.............))--)).))))))))))))).. ( -27.72)
>consensus
UCU_GCCCA_______UUC____CGGCAACCAUUUUGUGGUGCUC_______C___AAAAUGCUUACCGAAAAGUGUAGCCUACUUAUUAGGGCAUCACAAAAUGGU
....(((.................))).(((((((((((((((((..............((((((......)))))).............))))))))))))))))) (-24.96 = -24.60 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,796,622 – 14,796,714
Length 92
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 68.21
Mean single sequence MFE -33.80
Consensus MFE -17.19
Energy contribution -16.79
Covariance contribution -0.40
Combinations/Pair 1.35
Mean z-score -4.08
Structure conservation index 0.51
SVM decision value 4.22
SVM RNA-class probability 0.999841
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14796622 92 - 27905053
GCCAUUUUGUGAUGCCCUAAUAAGUAGGCUACACUUUUCGGUGAGCAUGAU---GCUCCGAAGAGCAUCACAAAAUGGCUGCCA----GGG-------UGGGC-AGA
(((((((((((((((((((.....))))......(((((((..(((.....---)))))))))))))))))))))))))((((.----...-------..)))-).. ( -42.60)
>DroSec_CAF1 5114 85 - 1
GCCAUUUUGUGAUGCCCCAAUAUGUAUGCUACACUUUUUGGUGAGCAUUUU---G-------GAGCAUCACAAAAUGGCUGCCG----GGG-------UGGGC-AGA
(((((((((((((((.((((.....(((((.((((....))))))))).))---)-------).)))))))))))))))((((.----...-------..)))-).. ( -45.50)
>DroEre_CAF1 12210 85 - 1
ACCAUUGUGCGAUGCCCUAAUAAGUAGGCAACACUUUUCGGUAAGCAUUUA---A-------GAGCACCACAAAAUGGUUGCCC----GAA-------UGGGC-AGA
(((((((((((((((((....((((.(....)))))...))...)))))..---.-------..)))).....))))))(((((----...-------.))))-).. ( -24.10)
>DroYak_CAF1 12458 85 - 1
ACCACUUUGUGAUGCCCCAAUAAGUAGGCCACACUUUUCAGUAAGCAUUUU---G-------GAGCACCACAAAAUAGUUGCCG----GAA-------UGGGC-AGA
.....((((((.(((.((((.......((...(((....)))..))...))---)-------).))).))))))....(((((.----...-------..)))-)). ( -20.90)
>DroAna_CAF1 2191 102 - 1
ACCAUUUUGUGGCGCUCA--AAGGUAGGCAAUAUUUUU-GGCAAACCUCUUCACGGUUGG--AGGUGCCACAAAAUGCUUGCUUUUGCAAAUGUAACAUAGUCAACA
..(((((((((((((.((--((((((.....)))))))-)))..((((((........))--))))))))))))))).((((....))))................. ( -35.90)
>consensus
ACCAUUUUGUGAUGCCCCAAUAAGUAGGCAACACUUUUCGGUAAGCAUUUU___G_______GAGCACCACAAAAUGGUUGCCG____GAA_______UGGGC_AGA
(((((((((((((((........((.....)).(((......)))...................))))))))))))))).(((.................))).... (-17.19 = -16.79 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:19 2006