Locus 1680

Sequence ID 3L_DroMel_CAF1
Location 4,908,266 – 4,908,366
Length 100
Max. P 0.500000
window2591

overview

Window 1

Location 4,908,266 – 4,908,366
Length 100
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 81.74
Mean single sequence MFE -24.40
Consensus MFE -17.41
Energy contribution -18.38
Covariance contribution 0.98
Combinations/Pair 1.13
Mean z-score -1.25
Structure conservation index 0.71
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4908266 100 - 23771897
CUCAGUUUAUUAGUCCACAGACAGGCGGCUAAUGAUGCCUGGCCAGGGU-UGGCCAGCACUCA--AAAAAUUACGUAA-AAAAGCGUUAGGAAUGAGGGCUUAU
......((((((((((........).))))))))).((((((((.....-.)))))...((((--.......((((..-....))))......))))))).... ( -27.32)
>DroSec_CAF1 129435 101 - 1
CUCAGUUUAUUAGUCCACAGACAGGCGGCUAAUGAUGCCUGGCUAGGGUUUGGCCAGCACUCA--AAAAAUUACAUAA-AAAAGCGUUAGGAAUGAGAGUUUAU
((((..((((((((((........).)))))))))(((.(((((((...))))))))))....--.............-..............))))....... ( -21.40)
>DroSim_CAF1 139444 101 - 1
CUCAGUUUAUUAGUCCACAGACAGGCGGCUAAUGAUGCCUGGCCAGGGUUUGGCCAGCACUCA--AAAAAUUACAUAA-AAAAGCGUUAGGAAUGAGAGUUUAU
((((..((((((((((........).)))))))))(((.(((((((...))))))))))....--.............-..............))))....... ( -23.70)
>DroEre_CAF1 130907 99 - 1
CUCAGUUUAUUAGUCCACAGACAGGUGGCUAAUGAUGCCUGGCCAGGGC-UGGUCAGCACUCG--AAAAAUGGAAAACA--AAAGAACGGGAGUGGGAGUUUAU
((((..(((((((.((((......)))))))))))(((.((((((....-)))))))))((((--.....((.....))--......))))..))))....... ( -27.40)
>DroYak_CAF1 133618 101 - 1
CUCAGUUUAUUAGUCCACAGACAGGUGGCUAAUGAUGCCUGGCCAGGGU-UGGCCAGCACUCA--AAAAAUUACACACCAAAAACAUUAGGAGUGAGAGUUUAU
(((...(((((((.((((......)))))))))))(((.(((((.....-.))))))))....--........(((.((..........)).))).)))..... ( -29.60)
>DroAna_CAF1 137756 99 - 1
CUCAGUUUAUUAGUCCACAGACAGGCGGCUAAUGAUGCCUGGCCAAGGA-UAUGAUGCACUUACAAAAAA-UAUACCA-AAAA-UAC-AAAACAAAAAAUAUUC
...(((.(((((((((.....((((((........)))))).....)))-).))))).))).........-.......-....-...-................ ( -17.00)
>consensus
CUCAGUUUAUUAGUCCACAGACAGGCGGCUAAUGAUGCCUGGCCAGGGU_UGGCCAGCACUCA__AAAAAUUACAUAA_AAAAGCAUUAGGAAUGAGAGUUUAU
((((..((((((((((........).)))))))))(((.((((((.....)))))))))..................................))))....... (-17.41 = -18.38 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:29 2006