Locus 2739

Sequence ID 2R_DroMel_CAF1
Location 9,584,558 – 9,584,710
Length 152
Max. P 0.942994
window4540 window4541

overview

Window 0

Location 9,584,558 – 9,584,673
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.99
Mean single sequence MFE -17.53
Consensus MFE -15.83
Energy contribution -15.17
Covariance contribution -0.66
Combinations/Pair 1.20
Mean z-score -2.53
Structure conservation index 0.90
SVM decision value 1.33
SVM RNA-class probability 0.942994
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9584558 115 - 20766785
AACUUCAUACUCAUCAAAACUCAAAUCAAAAAUCCCAUUUACACGGAAUGUGUUUCGAACACCUUGAAAUAUCAUUCUGAUUUA-----UACUUUCUUAAGUUUCUGUUUCAAUAUUCGU
................((((.......................(((((((((((((((.....)))))))).))))))).....-----.((((....))))....)))).......... ( -14.90)
>DroSim_CAF1 8023 115 - 1
AACUUCAUACUCAUUAAAACUCAAACCAAAAAUCCCAUUUACACGGAAUGUGUUUCGAAUACCUUGAAACGUCAUUCUGAUUUA-----UACUUUCUUAAGUUUCUGUUUCAAUAUUCGU
............(((.((((..((((.................(((((((((((((((.....)))))))).)))))))..(((-----........)))))))..)))).)))...... ( -17.90)
>DroYak_CAF1 9173 119 - 1
AACUUCAUACUCAUCAAAUCUCAAACCAA-AAUCCCAUUUACACGGAAUGUGUUUCGAACACCUUGGAACACCAUUCUGAUUUCUUAAGUUCUUUCUUAAGUUUCUGUUUCAAUAUUCGU
......................((((...-.............(((((((((((((((.....)))))))).)))))))....((((((......)))))).....)))).......... ( -19.80)
>consensus
AACUUCAUACUCAUCAAAACUCAAACCAAAAAUCCCAUUUACACGGAAUGUGUUUCGAACACCUUGAAACAUCAUUCUGAUUUA_____UACUUUCUUAAGUUUCUGUUUCAAUAUUCGU
...........................................(((((((((((((((.....)))))))).)))))))......................................... (-15.83 = -15.17 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 9,584,593 – 9,584,710
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.16
Mean single sequence MFE -16.83
Consensus MFE -16.83
Energy contribution -16.17
Covariance contribution -0.66
Combinations/Pair 1.15
Mean z-score -1.65
Structure conservation index 1.00
SVM decision value 0.96
SVM RNA-class probability 0.889534
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9584593 117 - 20766785
ACCCGAAAAGCAAUCGACUCGUACUCGCAACCGAAC---UAACUUCAUACUCAUCAAAACUCAAAUCAAAAAUCCCAUUUACACGGAAUGUGUUUCGAACACCUUGAAAUAUCAUUCUGA
....(((......(((...((....))....)))..---....))).....................................(((((((((((((((.....)))))))).))))))). ( -15.80)
>DroSim_CAF1 8058 120 - 1
AUCCGAAAAGCAAUCGACUCGUACUCGCAACCGAACUACUAACUUCAUACUCAUUAAAACUCAAACCAAAAAUCCCAUUUACACGGAAUGUGUUUCGAAUACCUUGAAACGUCAUUCUGA
...(((.......)))....(((.(((....)))..)))............................................(((((((((((((((.....)))))))).))))))). ( -17.50)
>DroYak_CAF1 9213 115 - 1
-CCCGAAAAGCAAUCGACUCGUACUCGCAACCGAAC---UAACUUCAUACUCAUCAAAUCUCAAACCAA-AAUCCCAUUUACACGGAAUGUGUUUCGAACACCUUGGAACACCAUUCUGA
-...(((......(((...((....))....)))..---....))).......................-.............(((((((((((((((.....)))))))).))))))). ( -17.20)
>consensus
ACCCGAAAAGCAAUCGACUCGUACUCGCAACCGAAC___UAACUUCAUACUCAUCAAAACUCAAACCAAAAAUCCCAUUUACACGGAAUGUGUUUCGAACACCUUGAAACAUCAUUCUGA
.............(((...((....))....))).................................................(((((((((((((((.....)))))))).))))))). (-16.83 = -16.17 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:17 2006