Locus 5069

Sequence ID 3R_DroMel_CAF1
Location 13,360,698 – 13,360,814
Length 116
Max. P 0.737693
window8266

overview

Window 6

Location 13,360,698 – 13,360,814
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.48
Mean single sequence MFE -25.22
Consensus MFE -21.84
Energy contribution -21.56
Covariance contribution -0.28
Combinations/Pair 1.07
Mean z-score -1.48
Structure conservation index 0.87
SVM decision value 0.44
SVM RNA-class probability 0.737693
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13360698 116 + 27905053
AUCGCCUCUACUGUUAUCACGCUCACAUUGAUAACGAUUGUUAUCUCUUAAAGUGCGGAAUGUUUUUGAAACUUGGUAAGUAAGGAUUGCCAAAGAGUAC----AGCUAUAUAGAAAUUU
......((((((((..((.(((.......((((((....)))))).........)))...............(((((((.......))))))).))..))----)).....))))..... ( -19.99)
>DroSec_CAF1 105741 111 + 1
UUCGCCUCUACUGUUAUCACGCUCUCAUUGAUAACGAUCGUUAUCUUUUAAAGUGCGGAAUGUUUUUGAAACUUGGUAAGUAAACAUUGCCAAACAGUAC----AGCUUGUU-----UUU
...((...(((((((.((.(((.((....((((((....))))))......)).)))))..............((((((.......))))))))))))).----.)).....-----... ( -25.60)
>DroSim_CAF1 111360 111 + 1
UUCGCCUCUACUGUUAUCACGCUCUCAUUGAUAACGAUCGUUAUCUUUUAAAGUGCGGAAUGUUUUUGAAACUUGGUAAGUAAACAUUGCCAAACAGUAC----AGCUUGUU-----UUU
...((...(((((((.((.(((.((....((((((....))))))......)).)))))..............((((((.......))))))))))))).----.)).....-----... ( -25.60)
>DroEre_CAF1 113468 115 + 1
UUCGCCUCUGCUGUUAUCGCACUCACAUUGAUAACGAUCGUUAUCUUUUAAAGUGCGGAAUGUUUUUGCAGCUUGGUAAGCAAGCAUUGCCAAACAGUAAAACAAGCUUGUU-----UUU
...(((...(((((..(((((((......((((((....))))))......))))))).........)))))..)))((((((((.(((.............))))))))))-----).. ( -32.42)
>DroYak_CAF1 130422 110 + 1
UUCGCCUCUGCUGUUAUCACACUCACAUUGAUAACG-UCGUUAUCUUUUAAAGUGCGGAAUAUUUUUAAAACUUGGUAAGCAAGCAUUGCCAAACAGUAA----CGCUUGUU-----UUU
...((...(((((((.((.((((......((((((.-..))))))......)))).))...............((((((.......))))))))))))).----.)).....-----... ( -22.50)
>consensus
UUCGCCUCUACUGUUAUCACGCUCACAUUGAUAACGAUCGUUAUCUUUUAAAGUGCGGAAUGUUUUUGAAACUUGGUAAGUAAGCAUUGCCAAACAGUAC____AGCUUGUU_____UUU
...((...(((((((.((.((((......((((((....))))))......)))).))...............((((((.......)))))))))))))......))............. (-21.84 = -21.56 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:26 2006