Locus 2207

Sequence ID X_DroMel_CAF1
Location 5,966,849 – 5,967,049
Length 200
Max. P 0.910339
window3581 window3582

overview

Window 1

Location 5,966,849 – 5,966,969
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.64
Mean single sequence MFE -15.60
Consensus MFE -14.39
Energy contribution -14.17
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.51
Structure conservation index 0.92
SVM decision value 0.03
SVM RNA-class probability 0.550185
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5966849 120 - 22224390
UAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUAAAUAAGUGUGUAUCCUAGCUUCUUUUAGCGUUAACCGACACUGCAACACACACUUAUACUCGUACACACUACCAAACACU
..(.((((.(((.......)))...................((((((((((......(((......)))(((....)))........))))))))))..........)))).)....... ( -17.60)
>DroSim_CAF1 942 113 - 1
UAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUAAAUAAGUGUGUAUCCUAGCUUCUUUUAGCGUUAACCGACACUGCAACACACAUUUAU------ACACACUACCAAA-ACU
..(.((((.(((.......)))...................((((((((((......(((......)))(((....)))........))))))))))------....)))).)...-... ( -15.30)
>DroYak_CAF1 911 117 - 1
UAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUAAAUAAGUGUGUAUCCUAGCUUCUUUUAGCGUUAACCAACAAUGCAACACACAU--AUACU-ACACACACUCCCAAACACA
..(((.((((((.....((((((((((..((.....))..)))))).))))......(((......))))))))).)))..............--.....-................... ( -13.90)
>consensus
UAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUAAAUAAGUGUGUAUCCUAGCUUCUUUUAGCGUUAACCGACACUGCAACACACAUUUAUACU___ACACACUACCAAACACU
..(((.((((((.....((((((((((..((.....))..)))))).))))......(((......))))))))).)))......................................... (-14.39 = -14.17 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,966,929 – 5,967,049
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -19.92
Consensus MFE -18.82
Energy contribution -18.93
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.26
Structure conservation index 0.94
SVM decision value 1.07
SVM RNA-class probability 0.910339
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5966929 120 - 22224390
AACAUCCAAUCAUGUGAAGCUCUUUUGGUUAAACACACUACAACUACAGCAAUAACAGCCACAGAAACAAUUAGUUAGCUUAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUA
.............(((((((..(((((((((.....((((..((((.(((..((((.................))))))))))))))))))))))))..))))))).............. ( -21.03)
>DroSim_CAF1 1015 120 - 1
AACAUCCAAUCAUUUGAAGCUCUUUUGGUUAAACACACUACAACUACAGCAAUAACAGCCACAGAAACAAUUAGUUAGCUUAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUA
..............((((((..(((((((((.....((((..((((.(((..((((.................))))))))))))))))))))))))..))))))............... ( -20.13)
>DroYak_CAF1 988 120 - 1
GACAUCCAAUCAUUUGAAGCUCUUUUGGUUAAAUACACUACAAUUACAGCAAUAACAGCCACAGAAACAAUUAGUUCGCUUAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUA
..............((((((..((((((((((....((((........((.......))....(((........)))...))))...))))))))))..))))))............... ( -18.60)
>consensus
AACAUCCAAUCAUUUGAAGCUCUUUUGGUUAAACACACUACAACUACAGCAAUAACAGCCACAGAAACAAUUAGUUAGCUUAGUUAGUUAGCCAAAAACGCUUUAUUCCAUUUCAAAUUA
..............((((((..(((((((((.....((((..((((.(((..((((.................))))))))))))))))))))))))..))))))............... (-18.82 = -18.93 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:49 2006