Locus 1564

Sequence ID 3R_DroMel_CAF1
Location 4,492,390 – 4,492,491
Length 101
Max. P 0.888936
window2581

overview

Window 1

Location 4,492,390 – 4,492,491
Length 101
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 77.41
Mean single sequence MFE -19.57
Consensus MFE -11.31
Energy contribution -11.12
Covariance contribution -0.19
Combinations/Pair 1.22
Mean z-score -2.00
Structure conservation index 0.58
SVM decision value 0.95
SVM RNA-class probability 0.888936
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4492390 101 - 27905053
CGCCACCGGUGAAGUCCUGCGACUUCCAACUGGUACUACAAAUAGAUUUUUCUUUAAUAUACAACAUUCUUAACCAAAUAAUGUUUCUUUGCCUUACCAAA
.((.((((((((((((....))))))..))))))............................((((((.((.....)).)))))).....))......... ( -15.60)
>DroSec_CAF1 2189 101 - 1
CCCCACCGGUGAAGUCUUGCGACUUCCAACUGGUGCUACAAACAGAUCUUUUGUUAAUAUACAACAUUCUGAACCAAAUAAUGUUUAUUGGCCUUACCAAA
...(((((((((((((....))))))..))))))).......((((....((((......))))...))))................((((.....)))). ( -24.30)
>DroSim_CAF1 2190 101 - 1
CUCCACCGGUGAAGUCUUGCGACUUCCAACUGGUGCUACAAACAGAUCUUUUGUUAAUAUAAAACAUUCUGAACCAAAUAAUGUUUAUUGGCCUUACCAAA
...(((((((((((((....))))))..))))))).......((((..((((((....))))))...))))................((((.....)))). ( -24.40)
>DroEre_CAF1 2239 100 - 1
CCCCGCCGGUAAAAUCCUGCGACUUCCAACUGGUGCUACAACGAGAUUUUCCAUUAAUAUAAAACAUUUUAAA-CGAACAAUGUUUCGUUGCCUUACCAAA
...(((.((......)).))).........(((((...(((((((((.(((..((((...........)))).-.)))....)))))))))...))))).. ( -19.90)
>DroYak_CAF1 2233 96 - 1
CCCCUCCGGUAAAGUCCUGCGACUUCCAACUGGUGCUAGAAUGAGUUUUUCCGUUAAUAGACAACAUUUUUA-----ACAAUGUUUCGUUGCCUUACCAAA
.......(((((.(....(((((....((((.((......)).))))............((.((((((....-----..)))))))))))))))))))... ( -15.80)
>DroAna_CAF1 2250 95 - 1
CUCCGCCCGUAAAGUCCUGCGACUUCCAACUGGUGCUAAAAUU------GUAAUAAGUAAUUAAUUUUUGUAAAUAGAUGAAAUUUAUAUUACUUACCACA
...((((.((.(((((....)))))...)).)))).......(------((..(((((((((((.(((..(......)..))).))).))))))))..))) ( -17.40)
>consensus
CCCCACCGGUAAAGUCCUGCGACUUCCAACUGGUGCUACAAACAGAUUUUUCGUUAAUAUACAACAUUCUUAACCAAAUAAUGUUUAUUUGCCUUACCAAA
...(((((((.(((((....)))))...)))))))...........................((((((...........))))))................ (-11.31 = -11.12 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:37 2006