Locus 8131

Sequence ID X_DroMel_CAF1
Location 20,224,916 – 20,225,007
Length 91
Max. P 0.992594
window13362 window13363

overview

Window 2

Location 20,224,916 – 20,225,007
Length 91
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 66.48
Mean single sequence MFE -21.70
Consensus MFE -13.26
Energy contribution -13.56
Covariance contribution 0.30
Combinations/Pair 1.36
Mean z-score -2.18
Structure conservation index 0.61
SVM decision value 2.34
SVM RNA-class probability 0.992594
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20224916 91 + 22224390
CGGGUUUCCCAACUAGAGAGAAUGCUGAA-------GUCUAGUACCGACUAAUGGGAUACCCAUUAAUUACUGCUUAAAUACUGUGAUGAAAAUUGAG
.((((.(((((..(((........))).(-------(((.......))))..))))).))))....(((((............))))).......... ( -19.70)
>DroSec_CAF1 11755 75 + 1
CGGGUAUUCCAACUAG---------UCUA-------GUCUAGUGCCGACUAAUGGGAUACCCAUUAAUU-------AAGCAAUACGACGAAAAUUGAG
.((((((((((..(((---------((..-------..........))))).)))))))))).......-------...................... ( -20.40)
>DroSim_CAF1 10991 75 + 1
CGGGUAUCCCAACUAG---------UAUA-------GUCUAGUGCCGACUAAUGGGAUACCCAUUAACU-------AAGCAAUACGACGAAAAUUGAG
.(((((((((((((((---------....-------..))))).........)))))))))).......-------...................... ( -22.30)
>DroEre_CAF1 11859 70 + 1
CGGGUAUCCCAAAUGGAGUGAACGCUGUA-------GUCUCGUAUCGGCUG-CGGGAUACCUAUUAAU--------------------GGAAAUUGAG
.(((((((((......(((....)))(((-------(((.......)))))-)))))))))).(((((--------------------....))))). ( -26.70)
>DroYak_CAF1 11437 95 + 1
CGGGUAUUUCAACUGUGGAGAACGCUAUAGUCUAUAGUCUAGUAUCGACUA-CAGGACACCCACUAAUAA--GCUUAAGCAAUACAACGAAAAUUGAG
.((((......(((((((......))))))).....((((.(((.....))-).))))))))........--((....)).................. ( -19.40)
>consensus
CGGGUAUCCCAACUAG_G_GAA_GCUAUA_______GUCUAGUACCGACUAAUGGGAUACCCAUUAAUU_______AAGCAAUACGACGAAAAUUGAG
.(((((((((......((......))..........(((.......)))....))))))))).................................... (-13.26 = -13.56 +   0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 20,224,916 – 20,225,007
Length 91
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 66.48
Mean single sequence MFE -18.94
Consensus MFE -11.55
Energy contribution -12.23
Covariance contribution 0.68
Combinations/Pair 1.23
Mean z-score -1.47
Structure conservation index 0.61
SVM decision value 0.65
SVM RNA-class probability 0.810840
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20224916 91 - 22224390
CUCAAUUUUCAUCACAGUAUUUAAGCAGUAAUUAAUGGGUAUCCCAUUAGUCGGUACUAGAC-------UUCAGCAUUCUCUCUAGUUGGGAAACCCG
....................................((((.(((((.........((((((.-------............))))))))))).)))). ( -17.62)
>DroSec_CAF1 11755 75 - 1
CUCAAUUUUCGUCGUAUUGCUU-------AAUUAAUGGGUAUCCCAUUAGUCGGCACUAGAC-------UAGA---------CUAGUUGGAAUACCCG
......................-------.......((((((((.(((((((..........-------..))---------))))).)).)))))). ( -19.20)
>DroSim_CAF1 10991 75 - 1
CUCAAUUUUCGUCGUAUUGCUU-------AGUUAAUGGGUAUCCCAUUAGUCGGCACUAGAC-------UAUA---------CUAGUUGGGAUACCCG
......................-------.......((((((((((.(((((.......)))-------))..---------.....)))))))))). ( -23.00)
>DroEre_CAF1 11859 70 - 1
CUCAAUUUCC--------------------AUUAAUAGGUAUCCCG-CAGCCGAUACGAGAC-------UACAGCGUUCACUCCAUUUGGGAUACCCG
..........--------------------.......(((((((((-........(((....-------.....)))..........))))))))).. ( -13.97)
>DroYak_CAF1 11437 95 - 1
CUCAAUUUUCGUUGUAUUGCUUAAGC--UUAUUAGUGGGUGUCCUG-UAGUCGAUACUAGACUAUAGACUAUAGCGUUCUCCACAGUUGAAAUACCCG
.((((((...........((....))--......(((((...((((-(((((.(((......))).)))))))).)...)))))))))))........ ( -20.90)
>consensus
CUCAAUUUUCGUCGUAUUGCUU_______AAUUAAUGGGUAUCCCAUUAGUCGGUACUAGAC_______UACAGC_UUC_C_CUAGUUGGGAUACCCG
....................................((((((((((...(((.......))).........................)))))))))). (-11.55 = -12.23 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:32 2006