Locus 3678

Sequence ID 2L_DroMel_CAF1
Location 10,705,474 – 10,705,566
Length 92
Max. P 0.652793
window5804

overview

Window 4

Location 10,705,474 – 10,705,566
Length 92
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 75.77
Mean single sequence MFE -22.84
Consensus MFE -14.36
Energy contribution -15.20
Covariance contribution 0.84
Combinations/Pair 1.07
Mean z-score -1.58
Structure conservation index 0.63
SVM decision value 0.25
SVM RNA-class probability 0.652793
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10705474 92 + 22407834
UUCGCGGUGGUGCAGCUGGAAGGCUGUACACCGAAAGAAAAUAUAGGGUUUCAUAUA-------AAGAUAUAUCAAAGUGCAAUUC----AGUAAGGCCACAA
(((.(((((.(((((((....))))))))))))...))).......(((((.(((((-------....))))).....(((.....----.)))))))).... ( -23.30)
>DroSec_CAF1 36644 91 + 1
UUCGCGGUGGUGCAGCUGGAAGGCUGUACACCGAAAGAAAAUAUUGGGUUUCAUAUG-------AAGAUAUAUUAAAGUGCA-UUC----GGUAAGGCUACAA
(((.(((((.(((((((....))))))))))))...))).......(((((....((-------((..(((......)))..-)))----)...))))).... ( -24.10)
>DroSim_CAF1 37482 102 + 1
UUCGCGGUGGUGCAGCUGGAACGCUGUACAUCGAAAGAAAAUAUUGGGUUUCAUAUAUAGAUAUAAGAUAUAUUAAAGUGCA-UUCAGUCAGUAAGGCUAAAA
...(((.(.(((((((......))))))).((....))..(((((..((.((.......)).))..))))).....).))).-...((((.....)))).... ( -21.30)
>DroEre_CAF1 37750 87 + 1
UUCGCGGUGGUGCAGCUGGAAGGCUGUACACGGAAA-AAAAUAUUGGGUUUCCUGCACAGACA-CUCGUACAUCGAAGUGCA-UUC----AAGA---------
...((((((.(((((((....))))))))))(((((-...........))))))))...(.((-((((.....)).))))).-...----....--------- ( -22.90)
>DroYak_CAF1 35706 84 + 1
UUUGCGGUGGUGCAGCUGGAAGGCUGUACACGGAAA-AAAAUAUUGGAUUGGAU---UGGAUA-CAGAUAUAUCAAAGUGCG-UUC----AGUA---------
(((.((...((((((((....)))))))).)).)))-....((((((((.(.((---(.((((-......))))..))).))-)))----))))--------- ( -22.60)
>consensus
UUCGCGGUGGUGCAGCUGGAAGGCUGUACACCGAAAGAAAAUAUUGGGUUUCAUAUA__GA_A_AAGAUAUAUCAAAGUGCA_UUC____AGUAAGGC_A_AA
(((.(((((.(((((((....))))))))))))...)))................................................................ (-14.36 = -15.20 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:29 2006