Locus 9604

Sequence ID 3R_DroMel_CAF1
Location 25,363,732 – 25,363,841
Length 109
Max. P 0.970645
window15354

overview

Window 4

Location 25,363,732 – 25,363,841
Length 109
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 78.32
Mean single sequence MFE -32.30
Consensus MFE -25.52
Energy contribution -26.42
Covariance contribution 0.90
Combinations/Pair 1.12
Mean z-score -2.04
Structure conservation index 0.79
SVM decision value 1.66
SVM RNA-class probability 0.970645
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25363732 109 + 27905053
UCAGCUCUGAGAUGUGUACAAAUCUCAGGGCCAACAGGCCAGCUGCACUGCUCACUUACACUGGCCAACAUGGAAAUGGAACAUGUUAUAGCAGC---------CCAGCAAAUAGAAG
......(((((((........)))))))((((....)))).((((..(((((.....(((.((.....(((....)))...)))))...))))).---------.))))......... ( -34.30)
>DroSec_CAF1 48389 108 + 1
UCAGCUCUGAGAUGUGUACAAAUCUCAGGGCCAACAGACCAGCUGCACUGCUCACUUACACUGGGCAACAUGGAAAUGGAAC----------UACGAGGAAUAGCCAUCAAGUAAAAG
...((((((((((........)))))))))).......(((..(.((.((((((.......))))))...)).)..)))...----------...((((.....)).))......... ( -27.80)
>DroSim_CAF1 48607 118 + 1
UCAGCUCUGAGAUGUGUACAAAUCUCAGGGCCAACAGGCCAGCUGCACUGCUCACUUACACUGGGCAACAUGGAAAUGGAACAUGUUAUAGAUACGAGGAAUAGCCAUCAAGUAAAAG
.((((((((((((........)))))))((((....))))))))).((((((((.......)))))((((((.........))))))........((((.....)).)).)))..... ( -34.50)
>DroEre_CAF1 49256 104 + 1
UCAGCUCUGAGAUGUGUACAAGUCUCAGGGCCAACAGGCCAGCUGCACUGCUCACUUACACUGGGCAACAUGGGAAUGGAACAUAUUU-GGGUACUGGGAAGAG-------------G
((((..((.((((((((.(...(((((.((((....))))........((((((.......))))))...)))))...).))))))))-.))..))))......-------------. ( -34.00)
>DroYak_CAF1 52045 106 + 1
UCAGCUCUGAGAUGUGUACAAAUCGCAGGGCCAACAGGCCAGCUGCACUACUCACUUACACUGGCUAACACGAAAGUGGAACACAUUU-GGGUA---GGAAGAA-------AAAUA-A
.((((((((.(((........))).)))((((....)))))))))..(((((((((......))....(((....))).........)-)))))---)......-------.....-. ( -30.90)
>consensus
UCAGCUCUGAGAUGUGUACAAAUCUCAGGGCCAACAGGCCAGCUGCACUGCUCACUUACACUGGGCAACAUGGAAAUGGAACAUAUUA_AGGUAC__GGAAGAGCCA_CAAAUAAAAG
.((((((((((((........)))))))((((....)))))))))...((((((.......)))))).(((....)))........................................ (-25.52 = -26.42 +   0.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:06 2006