Locus 5027

Sequence ID 2R_DroMel_CAF1
Location 16,329,657 – 16,329,771
Length 114
Max. P 0.899827
window8041 window8042

overview

Window 1

Location 16,329,657 – 16,329,771
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 95.03
Mean single sequence MFE -27.04
Consensus MFE -24.42
Energy contribution -24.20
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.90
SVM decision value 0.05
SVM RNA-class probability 0.558004
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16329657 114 + 20766785
GCAGCUAAUAUUAACAAUAAUAUUAACAGUAUACGUGAGUAAGAUGACAAUGUACAACUUGGUCAUGGAUUUCUCUCUGUGCAGCUCCACUGAGUUCUUGGAGCAUGCCCAUCC
(((((((((((((....))))))))((((....(((((.((((.((........)).)))).))))).........)))))).((((((..(....).)))))).)))...... ( -28.42)
>DroSec_CAF1 32749 114 + 1
AUAGCUAAUAUUAACAAUAAUAUUAACUGUAUACAUGAGUGAGAUGACAAUGUACAACUUGGUCAUAGAUUUCUCUCUGUGCAGCUCCACUGAGUUCUUGGAGCAUGCCCAUCC
((((.((((((((....)))))))).))))..(((.(((.((((((((...(.....)...))))....)))).))))))(((((((((..(....).)))))).)))...... ( -28.80)
>DroSim_CAF1 33795 114 + 1
GUAGCUAAUAUUAACAAUAAUAUUAACCGUAUACAUGAGUGAGAUGACAAUGUACAACUUAGUCAUAGAUUUCUCUCUGUGCAGCUCCACCGAGUUCUUGGAGCAUGCCCAUCC
.....((((((((....)))))))).......(((.(((.((((((((...(.....)...))))....)))).))))))(((((((((.........)))))).)))...... ( -23.90)
>consensus
GUAGCUAAUAUUAACAAUAAUAUUAACAGUAUACAUGAGUGAGAUGACAAUGUACAACUUGGUCAUAGAUUUCUCUCUGUGCAGCUCCACUGAGUUCUUGGAGCAUGCCCAUCC
...((((((((((....))))))))...(((((...(((.((.(((((...(.....)...)))))...)).)))..))))).((((((..(....).))))))..))...... (-24.42 = -24.20 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,329,657 – 16,329,771
Length 114
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 95.03
Mean single sequence MFE -31.10
Consensus MFE -29.03
Energy contribution -29.70
Covariance contribution 0.67
Combinations/Pair 1.05
Mean z-score -2.21
Structure conservation index 0.93
SVM decision value 1.01
SVM RNA-class probability 0.899827
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16329657 114 - 20766785
GGAUGGGCAUGCUCCAAGAACUCAGUGGAGCUGCACAGAGAGAAAUCCAUGACCAAGUUGUACAUUGUCAUCUUACUCACGUAUACUGUUAAUAUUAUUGUUAAUAUUAGCUGC
...((((((.((((((.(....)..))))))))).((..((....))..)).)))(((.((((...((......))....)))))))((((((((((....))))))))))... ( -28.40)
>DroSec_CAF1 32749 114 - 1
GGAUGGGCAUGCUCCAAGAACUCAGUGGAGCUGCACAGAGAGAAAUCUAUGACCAAGUUGUACAUUGUCAUCUCACUCAUGUAUACAGUUAAUAUUAUUGUUAAUAUUAGCUAU
...((((((.((((((.(....)..))))))))).((.(((....))).)).))).((.((((((.((......))..))))))))(((((((((((....))))))))))).. ( -33.00)
>DroSim_CAF1 33795 114 - 1
GGAUGGGCAUGCUCCAAGAACUCGGUGGAGCUGCACAGAGAGAAAUCUAUGACUAAGUUGUACAUUGUCAUCUCACUCAUGUAUACGGUUAAUAUUAUUGUUAAUAUUAGCUAC
(((((((((.((((((.(....)..))))))))).((.(((....))).))................)))))).............(((((((((((....))))))))))).. ( -31.90)
>consensus
GGAUGGGCAUGCUCCAAGAACUCAGUGGAGCUGCACAGAGAGAAAUCUAUGACCAAGUUGUACAUUGUCAUCUCACUCAUGUAUACAGUUAAUAUUAUUGUUAAUAUUAGCUAC
...((((((.((((((.(....)..))))))))).((.(((....))).)).)))...(((((((.((......))..))))))).(((((((((((....))))))))))).. (-29.03 = -29.70 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:45 2006