Locus 4013

Sequence ID 3R_DroMel_CAF1
Location 10,938,417 – 10,938,514
Length 97
Max. P 0.581631
window6431

overview

Window 1

Location 10,938,417 – 10,938,514
Length 97
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 69.24
Mean single sequence MFE -17.36
Consensus MFE -3.71
Energy contribution -2.38
Covariance contribution -1.33
Combinations/Pair 1.36
Mean z-score -2.21
Structure conservation index 0.21
SVM decision value 0.10
SVM RNA-class probability 0.581631
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10938417 97 - 27905053
CCAUUUCCUUAUCGCUGUCAUACUUCACCCAA-----------GAGCUGCAUUUCG-CAAACGAUGCCAACUAUUUGAUCCCAUUUC---GAAACCAGUUCCUCCUCAGCCA---
.............((((...............-----------((((((..(((((-((.....))).........((.......))---)))).)))))).....))))..--- ( -12.05)
>DroPse_CAF1 8770 100 - 1
----------ACCGCACUAAUAUUCCAACAAAUAUUUGCAUCUGUGCCGCAUCUCUCCGAACAAUCCAAAAAAUUUGAUCUAGUUUUUGAGAAACUGGUGCCGCAU--ACCA---
----------...(((..((((((......)))))))))...(((((.(((((((((.((((....(((.....))).....))))..))))....))))).))))--)...--- ( -18.80)
>DroSec_CAF1 7499 97 - 1
CCAUUUCCUUAUCGCUGUGAUCCUUCACCCAA-----------GAGCUGCAUUUCG-CAAACCAUGCCAACUAUUUGAUCCCAUUUC---GAAACCAGUUCCUCCUCAGCCA---
.............(((((((....))))....-----------((((((..(((((-((.....))).........((.......))---)))).))))))......)))..--- ( -15.40)
>DroSim_CAF1 15264 97 - 1
CCAUUUCCUUAUCGCUGUGAUCCUUCACCCAA-----------GAGCUGCAUUUCG-CAAACCAUGCCAACUAUUUGAUCCCAUUUC---GAAACCAGUUCCUCCUCAGCCA---
.............(((((((....))))....-----------((((((..(((((-((.....))).........((.......))---)))).))))))......)))..--- ( -15.40)
>DroYak_CAF1 15686 100 - 1
CCAUUUCCUUAUCGCUGUGAUCCUUCACCCAA-----------GAGCUCCAGUUGG-CAAACCAUGCCAACUAUUUGAUCCCAUUUC---GAAACCAGUUCCUCCGCAGCCAACA
.............(((((((....))......-----------(((((..((((((-((.....)))))))).(((((.......))---)))...)))))....)))))..... ( -23.70)
>DroPer_CAF1 7207 100 - 1
----------ACCGCACUAAUAUUCCAACAAAUAUUUGCAUCUGUGCCGCAUCUCUCCGAACAAUCCAAAAAAUUUGAUCUAGUUUUUGAGAAACUGGUGCCGCAU--ACCA---
----------...(((..((((((......)))))))))...(((((.(((((((((.((((....(((.....))).....))))..))))....))))).))))--)...--- ( -18.80)
>consensus
CCAUUUCCUUAUCGCUGUGAUACUUCACCCAA___________GAGCUGCAUUUCG_CAAACCAUGCCAACUAUUUGAUCCCAUUUC___GAAACCAGUUCCUCCUCAGCCA___
...........................................((((((........((((............))))......((((...)))).)))))).............. ( -3.71 =  -2.38 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:52 2006