Locus 5426

Sequence ID 3R_DroMel_CAF1
Location 14,315,657 – 14,315,765
Length 108
Max. P 0.745856
window8831

overview

Window 1

Location 14,315,657 – 14,315,765
Length 108
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 66.47
Mean single sequence MFE -36.68
Consensus MFE -10.76
Energy contribution -12.48
Covariance contribution 1.73
Combinations/Pair 1.35
Mean z-score -2.05
Structure conservation index 0.29
SVM decision value 0.46
SVM RNA-class probability 0.745856
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14315657 108 - 27905053
CCAAUCCCAUUCCAUGGAGCACAGGGCUCCGUUUGCCGCAACCUGAUGCGGCGAGUUUCAACCU-------CAUAUGGUUAAGAAUGAUAUGGGGAACAGUUCGACAGAGUAGGA----
....(((.((((.(((((((.....)))))))((((((((......)))))))).......(((-------(((((.((.....)).))))))))............)))).)))---- ( -37.80)
>DroSec_CAF1 94805 108 - 1
CCAAUCCCAUUCCAUGGAACGCAGGGCUCCGUUUGCCGCAACCUGAUGCGGCGAGUUUCAACCU-------CAUAUGGUGAAGAAUGAUAUGGGGAACAGUUCGAUAGAGUAGGA----
....(((.((((.((.((((...(..((((((((((((((......)))))))).(((((.((.-------.....)))))))......))))))..).)))).)).)))).)))---- ( -38.00)
>DroSim_CAF1 88896 91 - 1
CCAAUCCCAUUCCAUGGAGCGCAGGGCUCCGUUCGCCACAACUUGAUGCGGCGAGUUUCAACCU-------CAUAGGGAGAGGAA-----------------CGCUAGAGUGGGA----
....((((((((.(((((((.....)))))))(((((.((......)).)))))(((((..(((-------....)))...))))-----------------)....))))))))---- ( -36.10)
>DroEre_CAF1 97682 96 - 1
CCAAUUCCGUUGCAUGGAGCGCAGGGUUGCGAUCGCCGCAACCUGAUGCUGCGAGUUGCAACCU-------------------AAAGAUAUGGGGAGUGCUGCGACAGAGUUCAA----
..(((((.((((((((.((((..((((((((.....))))))))..)))).))....(((.(((-------------------(......))))...))))))))).)))))...---- ( -38.30)
>DroYak_CAF1 95316 108 - 1
CCAAUCCCACUGCAUGGAGCGCAGGGCUGCGAUCGCCGCAACCUGAUGCUGCGAGUUCCAACCU-------CAUAUGGUGAGGAAAGUUAUGGGGAAUACUACGACAGAGUUGAA----
....(((((..((.(((((((((....)))..((((.(((......))).)))))))))).(((-------(((...))))))...))..))))).......((((...))))..---- ( -37.10)
>DroPer_CAF1 104860 101 - 1
CCAGUCCCAUUCCGUG--------GGCUCUGAUCGGGGCAACCCGAUUUCAAAAGGUUCAACUUGCAUCGACAUAUG----------AAGUGGGGAUAUUUUCGGGGGACCAGCAGUAU
...(((((...(((((--------((((..(((((((....)))))))......)))))).((..(.(((.....))----------).)..))........))))))))......... ( -32.80)
>consensus
CCAAUCCCAUUCCAUGGAGCGCAGGGCUCCGAUCGCCGCAACCUGAUGCGGCGAGUUUCAACCU_______CAUAUGGUGA_GAA_GAUAUGGGGAACACUUCGACAGAGUAGGA____
....((((......((.(((.....))).)).((((((((......))))))))......................................))))....................... (-10.76 = -12.48 +   1.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:24 2006