Locus 1274

Sequence ID 3L_DroMel_CAF1
Location 3,680,820 – 3,680,920
Length 100
Max. P 0.808992
window1990

overview

Window 0

Location 3,680,820 – 3,680,920
Length 100
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 80.61
Mean single sequence MFE -17.48
Consensus MFE -12.10
Energy contribution -12.63
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -1.81
Structure conservation index 0.69
SVM decision value 0.64
SVM RNA-class probability 0.808992
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3680820 100 + 23771897
AACUAGCAGCCAA-CAAACA---UAGCAACAACAUGGCCGAGAAACGCUUGUCACGCUUGGCUAAAAAUGGUAAAAAUGACAAAUGUUUCACAGCGACCAAAAA
.....((.((((.-......---...........))))...((((((.((((((......((((....)))).....)))))).))))))...))......... ( -20.17)
>DroGri_CAF1 56491 87 + 1
AACC-------AG-CAAAAACUACUACAACA---------ACAAGCGCCUGUCACGCUUGGCUAAAAAUGGUAAAAAUGACAAAUGUUUCACAGCGACAAAAAA
....-------.(-(......(((((.....---------.((((((.......))))))........))))).....(((....))).....))......... ( -11.74)
>DroSec_CAF1 76207 100 + 1
AACUAGCAGCCAA-CAAACA---UAGCAGCAACAUGGCCGAGAAACGCUUGUCACGCUUGGCUUGUCAUGGUAAAAAUGACAAAUGUUUCACAGCGACCAAAAA
.....((.((...-......---..)).))....(((.((.((((((.((((((......(((......))).....)))))).))))))....)).))).... ( -20.20)
>DroSim_CAF1 71184 100 + 1
AACUAGCAGCCAA-CAAACA---UAGCAGCAACAUGGCCGAGAAACGCUUGUCACGCUUGGCUAAAAAUGGUAAAAAUGACAAAUGUUUCACAGCGACCAAAAA
.....((.((...-......---..)).))....(((.((.((((((.((((((......((((....)))).....)))))).))))))....)).))).... ( -20.50)
>DroWil_CAF1 99978 101 + 1
AACUAACAGCCAAACUACAA---CAACAACAACAAGUACAACAAACGCUUGUCACGCUUGGCUAAAAAUGGUAAAAAUGACAAAUGUUUCACAGCGGCCAAAAA
........(((.........---.....((.....)).....(((((.((((((......((((....)))).....)))))).)))))......)))...... ( -13.90)
>DroAna_CAF1 74222 85 + 1
AACUAGCAGGCAA-CAA------------------CGGCAAGAAACGCUUGUCACGCUUGGCUAAAAAUGGUAAAAAUGACAAAUGUUUCACAGCGACCAAAAA
.....((.(....-)..------------------......((((((.((((((......((((....)))).....)))))).))))))...))......... ( -18.40)
>consensus
AACUAGCAGCCAA_CAAACA___UAGCAACAACAUGGCCGAGAAACGCUUGUCACGCUUGGCUAAAAAUGGUAAAAAUGACAAAUGUUUCACAGCGACCAAAAA
.........................................((((((.((((((......((((....)))).....)))))).)))))).............. (-12.10 = -12.63 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:34 2006