Locus 6022

Sequence ID 3R_DroMel_CAF1
Location 15,866,575 – 15,866,668
Length 93
Max. P 0.868193
window9824

overview

Window 4

Location 15,866,575 – 15,866,668
Length 93
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 77.79
Mean single sequence MFE -29.68
Consensus MFE -10.70
Energy contribution -11.45
Covariance contribution 0.75
Combinations/Pair 1.18
Mean z-score -2.83
Structure conservation index 0.36
SVM decision value 0.86
SVM RNA-class probability 0.868193
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15866575 93 + 27905053
CAGAGAUUUGUUAAUUAGUGGGCUCGUAUUACG---AGAUCUCAGAGCCCA-AUGGCCCGUGGC-------ACAAAGCUAUGGUACUACAUAAAUCUCAUAUUC
..(((((((((.......((((((((.....)(---(....)).)))))))-..(..(((((((-------.....)))))))..)...)))))))))...... ( -32.60)
>DroSec_CAF1 29257 100 + 1
CAGAGAUUUGUUAAUUAGUGGGCUCGUAUUACG---AGUUCUCAGAGCCGA-AUGGCCCGUGGCCCAUGGCCCAAAGCUAUGGUACUACAUAAAUCUCAUAUUC
..(((((((((......(.(((((((.....))---))))).).(.(((..-..))).)((((.(((((((.....)))))))..)))))))))))))...... ( -35.90)
>DroSim_CAF1 32503 100 + 1
CAGAGAUUUGUUAAUUAGUGGGCUCGUAUUACG---AGUUCUCAGAGCCCA-AUGGCCCGUGGCCCAUAGCCCAAAGCUAUGGUACUACAUAAAUCUCAUAUUC
..(((((((((......(.(((((((.....))---))))).).(.(((..-..))).)((((.(((((((.....)))))))..)))))))))))))...... ( -35.90)
>DroEre_CAF1 29604 93 + 1
CAGAGAUUUGUUAAUUAGAGGGCUCGCAUUACG---AGGGCUCAAAGCCCA-AUGGCCCA-------UGGCCCUAAGCUAAGGCACCACAUAAGCCUCAUGUUC
..(((..((((........(((((((.....))---)((((.....)))).-...)))).-------(((.(((......)))..))).))))..)))...... ( -25.80)
>DroYak_CAF1 40514 100 + 1
CAGAGAUUUGUUAAUUAAAAGGCUCGUGUUACG---AGGUCUCAAAGCCCA-AUGGCCCAAGAGCCGUGGCCCAAAACUAUGGUACUACAUAAAUCUCAUAUUC
..(((((((((.........(((((.((....(---(....))...(((..-..))).)).)))))((((.(((......)))..)))))))))))))...... ( -27.80)
>DroPer_CAF1 123533 98 + 1
UACAGAUUUGUUAAUUAGACUUCUCGUAUGACAAAGACGUCUCAAAGCCGAAAUGUCCUACGGCCACUAGC------CAAUGGCUGACCAUAAAUCUCAUAUGC
...(((...(((.....))).)))(((((((....(((((.((......)).)))))...((((((.....------...))))))..........))))))). ( -20.10)
>consensus
CAGAGAUUUGUUAAUUAGAGGGCUCGUAUUACG___AGGUCUCAAAGCCCA_AUGGCCCAUGGCCC_UGGCCCAAAGCUAUGGUACUACAUAAAUCUCAUAUUC
..(((((((((........(((((.....................))))).....(((.......................))).....)))))))))...... (-10.70 = -11.45 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:38 2006