Locus 7794

Sequence ID 3L_DroMel_CAF1
Location 20,810,124 – 20,810,228
Length 104
Max. P 0.897481
window12682

overview

Window 2

Location 20,810,124 – 20,810,228
Length 104
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 89.25
Mean single sequence MFE -42.32
Consensus MFE -31.78
Energy contribution -31.98
Covariance contribution 0.20
Combinations/Pair 1.13
Mean z-score -2.23
Structure conservation index 0.75
SVM decision value 1.00
SVM RNA-class probability 0.897481
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20810124 104 + 23771897
CAGGUGGGCGGCAGUUGUGGGCGUGGCCCUCUGGUACUUGC---GCC---AGU----ACAUGGCACUAGUGCAGUAGUUUGCAGCUGCCGUUGACACAGAUUUAAGCUCGCAAA
...(((((((((((((((((((...))))....(((((.(.---(((---(..----...)))).).)))))........)))))))))((....))........))))))... ( -43.60)
>DroSec_CAF1 66572 104 + 1
CAGGUGGGCGGCAGUUGUGGGCGUGGCCCUCUGGUACUUGC---GCU---AGU----ACAUGGCACUAGUGCAGUAGUUUGCAGCUGCCGUUGACACAGAUUUAAGCUCGCAAA
...((((((((((((((..((((((.((....)))))((((---(((---(((----.......))))))))))..)))..))))))))((....))........))))))... ( -45.10)
>DroSim_CAF1 65207 104 + 1
CAGGUGGGCGGCAGUUGUGGGCGUGGCCCUCUGGUACUUGC---GCU---AGU----ACAUGGCACUAGUGCAGUAGUUUGCAGCUGCCGUUGACACAGAUUUAAGCUCGCAAA
...((((((((((((((..((((((.((....)))))((((---(((---(((----.......))))))))))..)))..))))))))((....))........))))))... ( -45.10)
>DroEre_CAF1 66771 113 + 1
CAGGUGGGCCGCAGCUGUGGGCGUGGCCCUCCGGUACCU-CUACACUAGUAGUAUGUACAAGCUACCAGUACAGUAGUUUGCAGCUGCCGUUGACACAGAUUUAAGCUCGCAAA
..((.(((((((.((.....))))))))).)).((((..-((((....))))...))))(((((((.......)))))))((((((...(((......)))...)))).))... ( -40.20)
>DroYak_CAF1 63769 110 + 1
CAGGUGGGCCGCAGUUGUGGGCGUGGCCCUCUGGUACUUGCUAUACGAGUAGU----ACAUGGUAGCAGUACAGUAGUUUGCAGCUGCCGUUGACACAGAUUUAAGCUCGCAAA
...((((((.(((((((..(((...((...(((.((((((((((....)))))----)...)))).)))....)).)))..))))))).((....))........))))))... ( -37.60)
>consensus
CAGGUGGGCGGCAGUUGUGGGCGUGGCCCUCUGGUACUUGC___GCU___AGU____ACAUGGCACUAGUGCAGUAGUUUGCAGCUGCCGUUGACACAGAUUUAAGCUCGCAAA
...((((((((((((((..(((...((...(((((.((......((.....))........)).)))))....)).)))..))))))))((....))........))))))... (-31.78 = -31.98 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:02 2006