Locus 2782

Sequence ID 3R_DroMel_CAF1
Location 7,442,306 – 7,442,422
Length 116
Max. P 0.612106
window4509

overview

Window 9

Location 7,442,306 – 7,442,422
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.66
Mean single sequence MFE -36.43
Consensus MFE -29.35
Energy contribution -29.93
Covariance contribution 0.58
Combinations/Pair 1.14
Mean z-score -2.16
Structure conservation index 0.81
SVM decision value 0.16
SVM RNA-class probability 0.612106
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7442306 116 + 27905053
UGGCCGCCUCUGUAUAGA-CAAGCAGAGGGCGUAUAUCUAAC-CAUAAUGGUAAUCGCCCAUGUA--CGACAACCGCCAGAAGGCAGAUACGACGCAAACAGAUCGUUCUGCAAAUGGCA
..(((((((((((.....-...)))))))((((.(((((...-......(((..(((........--)))..)))(((....))))))))..))))...((((....))))....)))). ( -38.00)
>DroSec_CAF1 25001 116 + 1
UGGCCGCCUCUGUGUAGA-CAAGCAGAGGGCGUAGAUCUAAC-CAUAAUGGUAAUCGCCCAUGUA--CAACAACCGCCAGAAGGCAGAUACGACGCAAACAGAUCGUUCUGCAAAUGGCA
.((((((((((((.....-...))))).))))..(((...((-(.....))).))))))......--........((((....(((((.(((((.......).)))))))))...)))). ( -38.00)
>DroSim_CAF1 23647 116 + 1
UGGCCGCCUCUGUGUAGA-CAAGCAGAGGGCGUAGAUCUAAC-CAUAAUGGUAAUCGCCCAUGUA--CAACAACCGCCAGAAGGCAGAUACGACGCAAACGGAUCGUUCUGCAAAUGGCA
.((((((((((((.....-...))))).))))..(((...((-(.....))).))))))......--........((((....(((((.((((((....))..)))))))))...)))). ( -37.90)
>DroEre_CAF1 25119 116 + 1
UGGCCGCCUCUGUAAAGA-CAUGCAGAGGGCGUAGAGCUAAC-CAUAAUGGUAAUCGCCCAUGUA--CAACAACCGCCAGAAGGCAGAUACGACGCAAACAGAUCGUUCUGCAAAUGGCA
.(((((((((((((....-..)))))).))))..((....((-(.....)))..)))))......--........((((....(((((.(((((.......).)))))))))...)))). ( -38.40)
>DroYak_CAF1 25762 116 + 1
UGGCCGCCUCUGUACAGA-CAAGCAGAGGGCGUAGAGCUAAC-CAUAAUGGUAAUCGCCCAUGUA--CAACAAACGCCAGAAGGCAGAUACGACGCAAACAGAUCGUUCUGCAAAUGGCA
.((((((((((((.....-...))))).))))..((....((-(.....)))..)))))......--........((((....(((((.(((((.......).)))))))))...)))). ( -37.40)
>DroAna_CAF1 23177 120 + 1
CAACCUCGAUUGUCUAUAAGUAACAGAGGGCGUACAGCAAGCCCAUAAUGGUAAUCGCCCAUGUACACAACAAGAGCCAGAAGGCAGCCUCGACGCGGACAGAUCGUUCUGGAAAUGGCA
...((.(((((((((....((....(((((.(((((((..(((......)))....))...))))).).......(((....)))..)))).))..))))).))))....))........ ( -28.90)
>consensus
UGGCCGCCUCUGUAUAGA_CAAGCAGAGGGCGUAGAGCUAAC_CAUAAUGGUAAUCGCCCAUGUA__CAACAACCGCCAGAAGGCAGAUACGACGCAAACAGAUCGUUCUGCAAAUGGCA
..(((.(((((((.........)))))))((((..((((........((((.......)))).............(((....)))))))...))))...((((....)))).....))). (-29.35 = -29.93 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:37 2006