Locus 5938

Sequence ID 3L_DroMel_CAF1
Location 15,917,912 – 15,918,028
Length 116
Max. P 0.500000
window9484

overview

Window 4

Location 15,917,912 – 15,918,028
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.46
Mean single sequence MFE -20.86
Consensus MFE -15.48
Energy contribution -15.52
Covariance contribution 0.04
Combinations/Pair 1.12
Mean z-score -1.51
Structure conservation index 0.74
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15917912 116 - 23771897
-A---AAACCGAAGAAAAACUGCAAGUUGCGCUGUAAAAACCGGAAAUUCUAGAUCUCUCGGAUCUCACGAUCCCAGCGUAUAUAAACAAAACAAAGCGGCACCUUUAGACACACAACAA
-.---...(..(((.....((((..(((((((((......(..(.....)..).......(((((....))))))))))))..........))...))))...)))..)........... ( -18.60)
>DroSec_CAF1 19626 116 - 1
-A---AAACAGAAGAAAAACUGCAAGCUGCGCUGUAAAAACCGGAAAUUCUAGAUCUCUCGGAUCUCACGAUCCCAGCGUAUAUAAACAAAACAAAGCGGCACCUUUAGCAACAAAACAA
-.---...(((........)))...(((((((((......(..(.....)..).......(((((....)))))))))((......))........)))))................... ( -21.00)
>DroSim_CAF1 19906 112 - 1
AA---AAACAGAAGAAAAACUGCAAGCUGCGCUGUAA-AACCGGAAAUUCUAGAUCUCUCGGAUCUCACGAUCCCAGCGUAUAUAAACAAAC--AAGCG-CA-CUUUAGCAGCAACAAAA
..---..............(((((((.((((((((..-..(..(.....)..)..(.((.(((((....))))).)).)...........))--.))))-))-.))).))))........ ( -22.70)
>DroEre_CAF1 17227 115 - 1
AACGAAAAACGAAGA-AAACUGCAAGCUGCGUUGUAAAAACCGGAAAUUCUAGAUCUCUCGGAUCUCACGAUCCCAGCGCAUAUAAACAAAACAAAGCGGCACUUUGUGCCACACA----
...............-...........(((((((......(..(.....)..).......(((((....))))))))))))...............(.(((((...))))).)...---- ( -22.90)
>DroYak_CAF1 17592 109 - 1
------AAACGAAGA-AAAUUGCAAGCUGCAUUGUAAAAACCGGAAAUUCUAGAUCUCUCGGAUCUCACGAUCCCAGCGCAUAUAAACAAAACAAAGCGGCACAUUUUGCCACACA----
------.........-.....(((((((((.((((.....(..(.....)..)....((.(((((....))))).))..............)))).))))).....))))......---- ( -19.10)
>consensus
_A___AAACCGAAGAAAAACUGCAAGCUGCGCUGUAAAAACCGGAAAUUCUAGAUCUCUCGGAUCUCACGAUCCCAGCGUAUAUAAACAAAACAAAGCGGCACCUUUAGCCACACAA_AA
.........................(((((((((......(..(.....)..).......(((((....)))))))))(........)........)))))................... (-15.48 = -15.52 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:36 2006