Locus 1159

Sequence ID 3R_DroMel_CAF1
Location 3,508,070 – 3,508,162
Length 92
Max. P 0.974117
window1905

overview

Window 5

Location 3,508,070 – 3,508,162
Length 92
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 71.14
Mean single sequence MFE -26.26
Consensus MFE -12.18
Energy contribution -11.76
Covariance contribution -0.41
Combinations/Pair 1.20
Mean z-score -2.21
Structure conservation index 0.46
SVM decision value 1.72
SVM RNA-class probability 0.974117
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3508070 92 + 27905053
CAGUGGUA--GAGAACUUAAUGGGC-GAACCUCUCCCCCACACC----------AACUCAACCCCUUUGCACCCACAUCCACGUUAAGUGGGGUUCAUGAACCCG
.((.(((.--(((.......((((.-((.....)).))))....----------..))).))).)).............(((.....)))(((((....))))). ( -21.42)
>DroVir_CAF1 130627 80 + 1
CAUCGC--AU-CUCGCUUAAUGGGGGCAACGGCUCGUGCUGGC-----------CCUG-----------CAAUGCGAGUCGUGUUAAGUGGGGUUCACGAACCCC
...(((--..-(((((......(((((..((((....))))))-----------))).-----------....)))))..)))......((((((....)))))) ( -33.00)
>DroSec_CAF1 105493 81 + 1
CAGUGGUU--GAGAACUUAAUGGGC-GAACCUCGCCCCCUCACU----------UCCU-----------CACCCACAUCCACGUUAAGUGGGGUUCAUGAACCCG
..((((.(--(((........((((-(.....))))).......----------..))-----------)).))))...(((.....)))(((((....))))). ( -29.83)
>DroSim_CAF1 130277 81 + 1
CAGUGGUU--GAGAACUUAAUGGGC-GAACCUCGCCCCCUCACU----------UCCU-----------CACCCACAUCCACGUUAAGUGGGGUUCAUGAACCCG
..((((.(--(((........((((-(.....))))).......----------..))-----------)).))))...(((.....)))(((((....))))). ( -29.83)
>DroEre_CAF1 115374 80 + 1
CAGCGGUU--CAACACUUAAUGGGC-GAACCGCUCCACCUGCC-----------CCCU-----------CACACACAUCCACGUUAAGUGGGGUUCAUGAACCCG
.(((((((--(..(.(.....))..-)))))))).........-----------....-----------..........(((.....)))(((((....))))). ( -21.90)
>DroYak_CAF1 171553 91 + 1
CGGCAGUU--GAACACUUAAUGGGC-GAACCUCCCCACCUUCCCACCACUCGUCCUCU-----------CACCCACAUCCACGUUAAGUGGGGUUCAUGAACCCG
(((....(--((((.......((((-((.....................))))))...-----------..(((((...........)))))))))).....))) ( -21.60)
>consensus
CAGCGGUU__GAGAACUUAAUGGGC_GAACCUCUCCCCCUCAC___________CCCU___________CACCCACAUCCACGUUAAGUGGGGUUCAUGAACCCG
..............((((((((((......................................................)).)))))))).(((((....))))). (-12.18 = -11.76 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:31 2006