Locus 3279

Sequence ID 2R_DroMel_CAF1
Location 11,202,593 – 11,202,706
Length 113
Max. P 0.707852
window5375

overview

Window 5

Location 11,202,593 – 11,202,706
Length 113
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.11
Mean single sequence MFE -47.22
Consensus MFE -28.51
Energy contribution -29.93
Covariance contribution 1.42
Combinations/Pair 1.27
Mean z-score -1.63
Structure conservation index 0.60
SVM decision value 0.37
SVM RNA-class probability 0.707852
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11202593 113 + 20766785
AAGCUGCCCGUGCGGUGGUGGCUUGCAGCUGUUCCUGGAGGCAAGUUCGCUCUCUCGCAUGCUCCUGCCGCAAUUGCUCAAGCAGGGCUUUGCACUGAUGCAGUGCCUCGGAU
.....((((.(((((..(..((.(((((......))((((((......)).)))).))).))..)..)))))..(((....)))))))...((((((...))))))....... ( -43.80)
>DroVir_CAF1 174562 113 + 1
AGCUGGCGCGUGUGUUGCAUGCCUGGAGCUGCUCCUCCAGCGCGGCGCGCUCCCUGGCAUGCUCCUGCUUCAGCUGCUCCAGCAGCGUUUUGCAUUGUUGCACAGCCGCCGCU
(((.((((..(((((.(((((((.(((((.((.((........)).)))))))..)))))))...(((....(((((....))))).....))).....)))))..))))))) ( -54.30)
>DroGri_CAF1 173851 113 + 1
ACGCCGCCCGAUUGUUGCUCGCCAGGAGCUGUUCCUCAAGUGCGCCACGCUCCCGAGCAUGCUCCUGUUUGAGUUGCUCGAGCAGCGUUUUACACUGCUGCACUGCAUCCGCU
((((.((.(((..((.(((((.((((((((((((....((((.....))))...))))).)))))))..))))).))))).)).)))).......(((......)))...... ( -39.70)
>DroSim_CAF1 117173 113 + 1
AAGCUGCCCGUGCGGUGGUGGCUUGCAGCUGUUCCUGGAGGGCAGUUCGCUCUCUCGCAUGCUCCUGCCGCAAUUGCUCCAGCAGGGCUUUGCACUGAUGCAGUGCAUCGGAU
..((.((((.(((((..(..((.(((((......))(((((((.....))))))).))).))..)..)))))..(((....)))))))...)).(((((((...))))))).. ( -51.90)
>DroEre_CAF1 118536 113 + 1
ACGCAGCCCGUGCGGUAGCGGCUUGAAGCUGUUCCUGGAGGGCAGCUCGCUCUGUCGCGUGCUCCUGCCGCAAUUGCUCCAGCAGCGCUUUGCACUGGUGUAGUGCUUCGGAU
.((.(((...((((((((.(((....((((((((.....))))))))(((......))).))).))))))))(((((.((((..((.....)).)))).)))))))).))... ( -45.70)
>DroYak_CAF1 116692 113 + 1
ACGCGGCCCGUGCGGUAGUGGCUUGCAGCUGUUCCUGGAGGGCAGUUCGCUCUCUCGCGUGCUCCUGCCGCAAUUGCUCCAGCAGGGCUUUGCACUGAUGUAGUGCUUCGGAU
.((.(((((.((((((((..((.(((((......))(((((((.....))))))).))).))..))))))))..(((....))))))))..((((((...))))))..))... ( -47.90)
>consensus
ACGCGGCCCGUGCGGUGGUGGCUUGCAGCUGUUCCUGGAGGGCAGCUCGCUCUCUCGCAUGCUCCUGCCGCAAUUGCUCCAGCAGCGCUUUGCACUGAUGCAGUGCAUCGGAU
.....((((.((((((((.(((.....(((((((.....)))))))..((......))..))).))))))))..(((....)))))))...((((((...))))))....... (-28.51 = -29.93 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:43 2006