Locus 3646

Sequence ID 2R_DroMel_CAF1
Location 12,095,325 – 12,095,415
Length 90
Max. P 0.980968
window5934 window5935

overview

Window 4

Location 12,095,325 – 12,095,415
Length 90
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 80.10
Mean single sequence MFE -20.55
Consensus MFE -13.38
Energy contribution -16.62
Covariance contribution 3.25
Combinations/Pair 1.00
Mean z-score -2.52
Structure conservation index 0.65
SVM decision value 1.88
SVM RNA-class probability 0.980968
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12095325 90 + 20766785
ACAUAAAAACGGAGUAUGUACGA---------AAACAUUAAACGCGGUUCAACGACCGCCGCCAUCUACAUACAUACAUACAUAUGUAGUUGUCCAUGU
..........((((((((((.(.---------...).......((((((....)))))).......))))))).(((((....)))))....))).... ( -19.10)
>DroSec_CAF1 8593 97 + 1
ACAUAAAAACGGAGUAUGUACGAAAUGAAAGAAAAUAUUAAACGCGGUUCAACGACCGCCGCCAUCUACAUACAUG--UAUGUAUGUAGUUGUCCAUGU
..........(((..............................((((((....))))))...((.(((((((((..--..))))))))).))))).... ( -22.90)
>DroSim_CAF1 10126 96 + 1
ACAUAAAAACGGAGUAUGUACGAAAUGAAAGAAAAUAUUAAACGCGGUUCAACGACCGCCGCCAUCUACAUACAUACAUAUGUAUGUAG---UCCAUGU
..........(((..............................((((((....))))))......((((((((((....))))))))))---))).... ( -22.90)
>DroEre_CAF1 8579 90 + 1
ACAUUAAACUACAGUGUGUAC-AAAUGAACAAAAACAUACAACGCGGUUCAACGACCGCCUCCAUCUACAUUCACAC--------AUAGUUGUCCAUGU
((((..(((((..(((((...-..(((........))).....((((((....)))))).............)))))--------.)))))....)))) ( -17.30)
>consensus
ACAUAAAAACGGAGUAUGUACGAAAUGAAAGAAAACAUUAAACGCGGUUCAACGACCGCCGCCAUCUACAUACAUAC_UAUGUAUGUAGUUGUCCAUGU
..........(((..............................((((((....))))))...((.((((((((((....)))))))))).))))).... (-13.38 = -16.62 +   3.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 12,095,325 – 12,095,415
Length 90
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 80.10
Mean single sequence MFE -23.54
Consensus MFE -17.59
Energy contribution -18.90
Covariance contribution 1.31
Combinations/Pair 1.14
Mean z-score -1.72
Structure conservation index 0.75
SVM decision value 0.52
SVM RNA-class probability 0.768880
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12095325 90 - 20766785
ACAUGGACAACUACAUAUGUAUGUAUGUAUGUAGAUGGCGGCGGUCGUUGAACCGCGUUUAAUGUUU---------UCGUACAUACUCCGUUUUUAUGU
(((((((...((((((((((....))))))))))((((.((((((......))))).....((((..---------....)))).).)))).))))))) ( -24.80)
>DroSec_CAF1 8593 97 - 1
ACAUGGACAACUACAUACAUA--CAUGUAUGUAGAUGGCGGCGGUCGUUGAACCGCGUUUAAUAUUUUCUUUCAUUUCGUACAUACUCCGUUUUUAUGU
..(((((((.(((((((((..--..))))))))).))...(((((......)))))..............................)))))........ ( -23.60)
>DroSim_CAF1 10126 96 - 1
ACAUGGA---CUACAUACAUAUGUAUGUAUGUAGAUGGCGGCGGUCGUUGAACCGCGUUUAAUAUUUUCUUUCAUUUCGUACAUACUCCGUUUUUAUGU
(((((((---((((((((((....))))))))))((((.((((((......)))))((......................))...).)))).))))))) ( -24.05)
>DroEre_CAF1 8579 90 - 1
ACAUGGACAACUAU--------GUGUGAAUGUAGAUGGAGGCGGUCGUUGAACCGCGUUGUAUGUUUUUGUUCAUUU-GUACACACUGUAGUUUAAUGU
((((....((((((--------(((((..((((((((((.(((((......)))))....((......)))))))))-)))))))).))))))..)))) ( -21.70)
>consensus
ACAUGGACAACUACAUACAUA_GUAUGUAUGUAGAUGGCGGCGGUCGUUGAACCGCGUUUAAUAUUUUCUUUCAUUUCGUACAUACUCCGUUUUUAUGU
(((((((...((((((((((....))))))))))......(((((......)))))....................................))))))) (-17.59 = -18.90 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:44 2006