Locus 3996

Sequence ID 3R_DroMel_CAF1
Location 10,872,557 – 10,872,654
Length 97
Max. P 0.544041
window6408

overview

Window 8

Location 10,872,557 – 10,872,654
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 80.39
Mean single sequence MFE -15.40
Consensus MFE -9.90
Energy contribution -12.10
Covariance contribution 2.20
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.64
SVM decision value 0.02
SVM RNA-class probability 0.544041
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10872557 97 - 27905053
ACUAGUUGAAAAUGCUUGGAAGGCAACAUCAACUAACUAACUAACUGUUUUGUCACACACACUCAUACGAGUGUAAGACCAACCACCCACACACAUG
..(((((((...((((.....))))...)))))))...........(((..(((....((((((....))))))..))).))).............. ( -19.30)
>DroSec_CAF1 138091 97 - 1
ACUAGUUGAAAAUGCUUGGAAGGCAACAUCAACUAACUAACUAACUGUUUUGUCACACACACUCAUAGGAGUGUAAGGCCAACCACCCACACACAUG
..(((((((...((((.....))))...)))))))..........(((..(((.....((((((....))))))..((....))....))).))).. ( -19.00)
>DroSim_CAF1 144980 97 - 1
ACUAGUUGAAAAUGCUUGGAAGGCAACAUCAACUAACUAACUAACUGUUUUGUCACACACACUCAUAGGAGUGUAAGGCCAACCACCCACACACAUG
..(((((((...((((.....))))...)))))))..........(((..(((.....((((((....))))))..((....))....))).))).. ( -19.00)
>DroEre_CAF1 140971 87 - 1
ACUAGUUGAAAAUGCUUGGAAGGCAACAUCAACUAA----CUAACUGUUUUGUCACACAC------ACUCCCAUAAAGCCCACCACCCACACACAUG
..(((((((...((((.....))))...))))))).----......(((((((.......------......))))))).................. ( -12.02)
>DroAna_CAF1 142242 84 - 1
ACUAGUCGAAAAUGCUUAGAAGGCAUCAUAAACUAACUA--------UUUUUC--CACACACCCAUACAC-UG--GCACCCACAGCACACACACACU
..((((..(..(((((.....)))))..)..))))....--------......--..............(-((--.......)))............ (  -7.70)
>consensus
ACUAGUUGAAAAUGCUUGGAAGGCAACAUCAACUAACUAACUAACUGUUUUGUCACACACACUCAUACGAGUGUAAGGCCAACCACCCACACACAUG
..(((((((...((((.....))))...))))))).......................((((((....))))))....................... ( -9.90 = -12.10 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:30 2006