Locus 1122

Sequence ID 2L_DroMel_CAF1
Location 3,044,185 – 3,044,282
Length 97
Max. P 0.680274
window1826 window1827

overview

Window 6

Location 3,044,185 – 3,044,282
Length 97
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 89.61
Mean single sequence MFE -21.98
Consensus MFE -17.59
Energy contribution -17.10
Covariance contribution -0.50
Combinations/Pair 1.14
Mean z-score -1.62
Structure conservation index 0.80
SVM decision value 0.30
SVM RNA-class probability 0.680274
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3044185 97 + 22407834
AAAUGGCGUGUUCUAAAAUGCGAACUAGAUUUA-UUUUCCGAGAAAAGCGAAUUGUUAAAACCAAGACGUAUUUGACACAGCCAGGAUAACACGCCAU
..((((((((((.......((......(((((.-(((((...)))))..)))))((((((((......)).))))))...))......)))))))))) ( -21.42)
>DroSec_CAF1 3913 98 + 1
AAGUGGCGUGUUCUAAAAUGCGAGCUAGAUUUUUUUUCCCGAGAAAAGCAAAUUGUUAAAACCAAGACGUAAUUCCCCCAGCCAGGAUAACACGCCAU
..((((((((((.....((.(..(((.(((((((((((....)))))).)))))(((........)))...........)))..).)))))))))))) ( -21.50)
>DroSim_CAF1 3920 97 + 1
AAGUGGCGUGUUCUAAAAUGCGAGCUAUAUUUU-UUUCCCGAGAAAAGCGAAUUGUUAAAACCAAGACGUAAUUCCCCCAGCCAGGAUAACACGCCAU
..((((((((((.....((.(..(((......(-((((....)))))(((..(((.......)))..))).........)))..).)))))))))))) ( -21.70)
>DroYak_CAF1 4013 96 + 1
AAGUGGCGUGUUCUGAAAUGCGAACUAU--UUUUUUUCACAAGAAAAGCGAAUUAUUAAAACUAAGACGUAUUUUACCCAGCCAGGAUAACACGCCAU
..((((((((((.(((((((((......--..((((((....)))))).......(((....)))..))))))))).((.....))..)))))))))) ( -23.30)
>consensus
AAGUGGCGUGUUCUAAAAUGCGAACUAGAUUUU_UUUCCCGAGAAAAGCGAAUUGUUAAAACCAAGACGUAAUUCACCCAGCCAGGAUAACACGCCAU
..((((((((((.......((.............((((....)))).(((..(((.......)))..)))..........))......)))))))))) (-17.59 = -17.10 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 3,044,185 – 3,044,282
Length 97
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 89.61
Mean single sequence MFE -23.80
Consensus MFE -19.33
Energy contribution -19.27
Covariance contribution -0.06
Combinations/Pair 1.23
Mean z-score -1.38
Structure conservation index 0.81
SVM decision value -0.04
SVM RNA-class probability 0.514701
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3044185 97 - 22407834
AUGGCGUGUUAUCCUGGCUGUGUCAAAUACGUCUUGGUUUUAACAAUUCGCUUUUCUCGGAAAA-UAAAUCUAGUUCGCAUUUUAGAACACGCCAUUU
(((((((((..(((((((...))))....((..(((.......)))..))........)))...-....(((((........)))))))))))))).. ( -22.20)
>DroSec_CAF1 3913 98 - 1
AUGGCGUGUUAUCCUGGCUGGGGGAAUUACGUCUUGGUUUUAACAAUUUGCUUUUCUCGGGAAAAAAAAUCUAGCUCGCAUUUUAGAACACGCCACUU
.((((((((..((((((..(((.(((((................))))).)))...)))))).......(((((........)))))))))))))... ( -24.29)
>DroSim_CAF1 3920 97 - 1
AUGGCGUGUUAUCCUGGCUGGGGGAAUUACGUCUUGGUUUUAACAAUUCGCUUUUCUCGGGAAA-AAAAUAUAGCUCGCAUUUUAGAACACGCCACUU
.(((((((((......((..((((((...((..(((.......)))..))..))))))(((...-.........))))).......)))))))))... ( -25.42)
>DroYak_CAF1 4013 96 - 1
AUGGCGUGUUAUCCUGGCUGGGUAAAAUACGUCUUAGUUUUAAUAAUUCGCUUUUCUUGUGAAAAAAA--AUAGUUCGCAUUUCAGAACACGCCACUU
.(((((((((...(((((((((..........))))))........(((((.......))))).....--.............))))))))))))... ( -23.30)
>consensus
AUGGCGUGUUAUCCUGGCUGGGGGAAAUACGUCUUGGUUUUAACAAUUCGCUUUUCUCGGGAAA_AAAAUAUAGCUCGCAUUUUAGAACACGCCACUU
.(((((((((......((.(((((((...((..(((.......)))..)).)))))))(((.............))))).......)))))))))... (-19.33 = -19.27 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:15 2006