Locus 518

Sequence ID 3L_DroMel_CAF1
Location 1,529,521 – 1,529,638
Length 117
Max. P 0.697221
window776

overview

Window 6

Location 1,529,521 – 1,529,638
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.80
Mean single sequence MFE -33.82
Consensus MFE -17.28
Energy contribution -18.40
Covariance contribution 1.12
Combinations/Pair 1.07
Mean z-score -1.92
Structure conservation index 0.51
SVM decision value 0.34
SVM RNA-class probability 0.697221
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1529521 117 - 23771897
AGUGAACAAAAGUUGUUAGAGGUGGAAGCGCA-UCAGUUCCAUUUCGAUACCAUCGAUGACGC--AUGGGGAGACCGAUAUCUUAUCGAAUACUUUCACUGUUUUGGGUCGUGGAAUGAA
((((((.....(.((((.(((((((((.(...-...)))))))))))))).).(((((((.(.--((.((....)).)).).))))))).....)))))).................... ( -29.40)
>DroSec_CAF1 8408 120 - 1
AGGGAACAAAAGUUCUUAGAGGUGGAAGCGCACUCAGUUCCAUUUCGAUACCAUCGAUGAUGGAGAUGGGGAGACCGAUAUCUUAUCGAAUACUGUCACGGUUUUGGGUCGUGGAAUGAA
.((((((....)))))).((((((....))).))).((((((...((((.(((((((((..(((.((.((....)).)).)))))))))..((((...))))..)))))))))))))... ( -37.40)
>DroSim_CAF1 8466 120 - 1
AGGGAACAAAAGUUCUUAGAGGUGGAAGCGCACUCAGUUCCAUUUCGAUACCAUCGAUGAUGGAGAUGGGGAGACCGAUAUCUUAUCGAAUACUGUCACGGUUUUGGGUCGUGGAAUGAA
.((((((....)))))).((((((....))).))).((((((...((((.(((((((((..(((.((.((....)).)).)))))))))..((((...))))..)))))))))))))... ( -37.40)
>DroEre_CAF1 8545 92 - 1
AGGGAACAAAAGUUCUUAGAGGUGGUA-----------UUCCUUUCGAUAGCAUCGAUGACGC--CUAGGGA-ACCGAUAAGUUAUCGAGUAC----UCUGUC----------GAAUACU
.((((((....)))))).((((.....-----------..))))(((((((..((((((((..--...((..-.)).....))))))))....----.)))))----------))..... ( -25.70)
>DroYak_CAF1 8582 106 - 1
AGGGAACAAAAGUUCUUAGAGGUGGUA-----------UCCGUUUCGAUACCACCGAUGACGC--CUAGGGUUUCCGAUAAGUUAUCGAAUACAUUCUCUGUU-UGGGUCGGGGAAUGAA
.((((((....))))))...(((((((-----------((......)))))))))((((((..--...((....)).....)))))).....(((((((((..-.....))))))))).. ( -39.20)
>consensus
AGGGAACAAAAGUUCUUAGAGGUGGAAGCGCA_UCAGUUCCAUUUCGAUACCAUCGAUGACGC__AUGGGGAGACCGAUAUCUUAUCGAAUACUGUCACUGUUUUGGGUCGUGGAAUGAA
.((((((....)))))).(((((((.(((.......)))))))))).......(((((((.....((.((....)).))...)))))))............................... (-17.28 = -18.40 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:03 2006