Locus 7362

Sequence ID 3L_DroMel_CAF1
Location 19,734,941 – 19,735,052
Length 111
Max. P 0.688110
window11962

overview

Window 2

Location 19,734,941 – 19,735,052
Length 111
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 82.82
Mean single sequence MFE -33.82
Consensus MFE -23.85
Energy contribution -22.88
Covariance contribution -0.96
Combinations/Pair 1.47
Mean z-score -1.98
Structure conservation index 0.71
SVM decision value 0.32
SVM RNA-class probability 0.688110
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19734941 111 + 23771897
GUCCUCCAGCACAUUUAUAUAUGAAAAUAUCUGAUGGUAGCAGUCGUAGUUGAGAUCCAGGAAACCGGGUCCCCCACUCAUACUCUGCGGUCUUCCGACCAGGAAGGAGAA
.((((((....((((...((((....))))..))))((((.(((...(((.(.(((((.(....).)))))..).)))...)))))))((((....)))).)).))))... ( -33.20)
>DroSec_CAF1 6213 111 + 1
AUCCUCCAGCACAUUCAGAUAUGAAAAUAUCUGAAGGUAGCAGUCGUAGUUGAGAUCCAGGAAACCGGGUCCCCCACUCAUACUCUGCGGUUUUCCGACCAGGAAGGAGAA
...((((.((((.(((((((((....))))))))).)).))(..(((((.((((((((.(....).)))))......)))....)))))..)((((.....)))))))).. ( -40.20)
>DroSim_CAF1 6214 111 + 1
AUCCUCCAGCACAUUCAGAUAUGAAAAUAUCUGAAGGUAGCAGUCGUAGUUGAGAUCCAGGAAACCGGGUCCCCCACUCAUACUCUGCGGUUUUCCGACCAGGAAGGAGAA
...((((.((((.(((((((((....))))))))).)).))(..(((((.((((((((.(....).)))))......)))....)))))..)((((.....)))))))).. ( -40.20)
>DroEre_CAF1 6324 111 + 1
AUCCUCCAGCGCAUUCAGAUAUGAAAAUAUCUCAAGGUAGCAGUCGUAGUUGAGGUCCAGGAAACCGGGUCCACCACUCAUAUUCUGCGGCUUUCCGGCCAGGAAGGAGAA
...((((.((((.((.((((((....)))))).)).)).))((((((((.((((.....(....).((.....)).))))....))))))))((((.....)))))))).. ( -36.70)
>DroYak_CAF1 5901 111 + 1
AUCCUCCAGUGCAUUCAGAUAUGAAAAUAUCUCAAGGUAGCAGUCGUAGUUGAGAUCUAGGAAACCGGGUCCACCACUCGUACUCCGCGUUUUUCCGGCCAAGAAGGAGAA
...(((((((((..((((.(((((...((((....))))....))))).))))((((..(....)..))))........)))))(((.(.....)))).......)))).. ( -29.60)
>DroMoj_CAF1 6715 105 + 1
GUCCUCGAGCGCGGUUAGAUACGAGAAUAUAUGCACAUAGCAGUCGUAAUUUAAAUCCAAUAUAUUUGUUC------UAAUUCGCUGCGGCUUGCUGGCUAGAAAUGCCAA
.....(((((((((((((((((((.......(((.....))).))))).........(((.....))).))------))....))))).))))).((((.......)))). ( -23.00)
>consensus
AUCCUCCAGCACAUUCAGAUAUGAAAAUAUCUGAAGGUAGCAGUCGUAGUUGAGAUCCAGGAAACCGGGUCCCCCACUCAUACUCUGCGGUUUUCCGACCAGGAAGGAGAA
...((((.(((...((((.(((((...((((....))))....))))).))))(((((.(....).)))))..............)))((((....)))).....)))).. (-23.85 = -22.88 +  -0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:04 2006