Locus 3450

Sequence ID 2R_DroMel_CAF1
Location 11,605,604 – 11,605,700
Length 96
Max. P 0.764577
window5634

overview

Window 4

Location 11,605,604 – 11,605,700
Length 96
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -16.30
Consensus MFE -10.68
Energy contribution -10.40
Covariance contribution -0.28
Combinations/Pair 1.22
Mean z-score -1.80
Structure conservation index 0.65
SVM decision value 0.51
SVM RNA-class probability 0.764577
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11605604 96 - 20766785
GCAUCGCACAUUUAAUGCCGCAAUUAAGGCAUU-CCCAUGCACUUCACUCCACUUCCCUAUGCAUUU-UU--AUGACAAGUCAC------------AAACAUUAACCCCAUU
.....(((.....((((((........))))))-....)))...................(((((..-..--))).))......------------................ ( -11.30)
>DroSec_CAF1 3679 93 - 1
GCAUCGCACAUUUAAUGCCUCAAUUAAGGCAUU-CCCAUGCAC-----UCCACUUCCCGAUGCGUUC-UUAAAUGGCAAGUCAC------------AAACGUUAACCCCAUU
.....((.((((((((((((......)))))..-...(((((.-----((........)))))))..-))))))))).......------------................ ( -17.00)
>DroSim_CAF1 3710 98 - 1
GCAUCGCACAUUUAAUGCCUCAAUUAAGGCAUU-CCCAUGCACUUUACUCCACUUCCCGAUGCGUUU-UUUAAUGGCAAGUCAC------------AAACGUUAACCCCAUU
((((((((.....(((((((......)))))))-....))).................)))))....-.((((((.........------------...))))))....... ( -15.92)
>DroEre_CAF1 3601 91 - 1
GCAUCCCACAUUUAAUGCCUCAAUUAAGGCAUU-CCCAUGCAC-----UCCACUUCCCGAUGCAUUU-UU--AUGGCAAGUCAC------------AAACGUUAACCCCAUU
((...........(((((((......)))))))-...(((((.-----((........)))))))..-..--...)).......------------................ ( -13.30)
>DroYak_CAF1 4390 91 - 1
GCAUCCCACAUUUAAUGCCUCAAUUAAGGCAUU-CCCAUGCAC-----UUCACUUCGCGAUGCAUUU-UU--AUGGCAAGUCAC------------AAACGUUAACCCCAUU
(((((........(((((((......)))))))-.....((..-----........)))))))....-..--((((......((------------....)).....)))). ( -15.40)
>DroPer_CAF1 5941 112 - 1
GCUUGUCUCGUUUAAUGCCUCAAUUAAGGCAUUUCACACGCAGUUUUUAUGCGUUUUCCAUGCACAUUUUAAAUGGCUUUCCACUGCCCCGAGCUAAAACGUUAACCCCAUU
(((((....((..(((((((......)))))))..))..(((((.....(((((.....)))))..........((....)))))))..))))).................. ( -24.90)
>consensus
GCAUCGCACAUUUAAUGCCUCAAUUAAGGCAUU_CCCAUGCAC_____UCCACUUCCCGAUGCAUUU_UU__AUGGCAAGUCAC____________AAACGUUAACCCCAUU
(((((...(((..(((((((......)))))))....)))..................)))))..........(((....)))............................. (-10.68 = -10.40 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:53 2006