Locus 3996

Sequence ID 2R_DroMel_CAF1
Location 13,220,352 – 13,220,459
Length 107
Max. P 0.951395
window6451

overview

Window 1

Location 13,220,352 – 13,220,459
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 60.52
Mean single sequence MFE -23.04
Consensus MFE -8.23
Energy contribution -8.11
Covariance contribution -0.12
Combinations/Pair 1.38
Mean z-score -2.35
Structure conservation index 0.36
SVM decision value 1.41
SVM RNA-class probability 0.951395
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13220352 107 + 20766785
GAAACAAGUGCGGAAUAUAU----------CC--GUAUUGUAAACAAAUUAUACAUAUGCA-AUGCCGACAUUACAGUAUAACAAUAAUAUAUGUAUGUAUAUAUGGCCAAGCACUUGGA
....(((((((((.((((((----------.(--((((((((......((((((...((.(-(((....)))).))))))))......)))).))))).))))))..))..))))))).. ( -24.30)
>DroPse_CAF1 953 97 + 1
GAAAUAAGUGUAGAAC-------------------UUUCGUAAACAG-UCGCAAGA--GCA-GAGAAAACAUUGCAUUAUAUGCACAAUAUGCCUCUGUCUGGGCGGAAAGGCACUUUUG
.....((((((.....-------------------((((((...(((-((....))--(((-(((.......(((((...)))))........))))))))).))))))..))))))... ( -25.26)
>DroSec_CAF1 1003 90 + 1
GAAACAAGUGCGGAAUAUAU----------CC--GUAUGGUAAACAAAUUAUACAUA--------------UUACAGUAUAACAAUAAUAUAUG----UACAUAUGGCCAAGCACUUGGA
....((((((((((.....)----------))--...((((.......((((((...--------------.....))))))......(((((.----...))))))))).))))))).. ( -22.50)
>DroSim_CAF1 976 90 + 1
GAAACAAGUGCGGAAUAUAU----------CC--GUAUUGUAAACAAAUUAUACAUA--------------UUACACUAUAACACUAAUAUAUG----UACAUAUGGCCAAGCACUUGGA
....((((((((((.....)----------))--...................((((--------------(((((.((((.......))))))----)).))))).....))))))).. ( -19.80)
>DroAna_CAF1 4863 110 + 1
GACUCAAAUGCGGAAUAUAUAGCCGCCUAGCCGUGUUUUGUAAACAAAUAAUAAGAAUGCAGAAACCAGCAUUACAGUAUAGGAAUAAUAUAUG----U------GUCUUGGCACUUGGA
...((((.(((((((((((((....((((..(.(((((((....)))).......(((((........)))))))))..)))).....))))))----)------.)))..))).)))). ( -21.10)
>DroPer_CAF1 953 97 + 1
GAAAUAAGUGUAGAAC-------------------UUUCGUAAACAG-UCGCAAGA--GCA-GAGAAAACAUUGCAUUAUAUGCACAAUAUGCCUCUGUCUGGGCGGAAAGGCACUUUUG
.....((((((.....-------------------((((((...(((-((....))--(((-(((.......(((((...)))))........))))))))).))))))..))))))... ( -25.26)
>consensus
GAAACAAGUGCGGAAUAUAU__________CC__GUAUUGUAAACAAAUUAUAAAAA_GCA__AG__AACAUUACAGUAUAACAAUAAUAUAUG____UAUAUAUGGCCAAGCACUUGGA
....(((((((............................((((............................))))...............(((((......))))).....))))))).. ( -8.23 =  -8.11 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:16 2006