Locus 8227

Sequence ID 3L_DroMel_CAF1
Location 21,627,147 – 21,627,253
Length 106
Max. P 0.885933
window13454

overview

Window 4

Location 21,627,147 – 21,627,253
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.19
Mean single sequence MFE -30.93
Consensus MFE -11.44
Energy contribution -12.30
Covariance contribution 0.86
Combinations/Pair 1.25
Mean z-score -2.19
Structure conservation index 0.37
SVM decision value 0.94
SVM RNA-class probability 0.885933
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21627147 106 + 23771897
UUGCUAAACUAUAUGUAGGUCUUGCUUUCUGCAGAUCCACG----AA---CUUCCACGAA----CCCUCUGACCGACCGAUAGGAAUAUAUCAAAAUUCCCAGGGUCAGGUGGGGC---C
..((.........(((.(((((.((.....))))))).)))----..---..........----((((((((((...(....(((((........)))))..)))))))).)))))---. ( -27.20)
>DroSec_CAF1 3587 105 + 1
UUGCUAAACUAUAUGUAGGAC-UGCACUCCGCAGAUCCACG----AA---CUUCCACAAA----CCCUCUGACCGACCGAUAGGAAUAUAUCAAAAUUCCCGGGGUCAGGUGGGGU---C
.............(((.((((-(((.....)))).))))))----..---..........----((((((((((..(((...(((((........))))))))))))))).)))..---. ( -32.70)
>DroSim_CAF1 3608 105 + 1
UUGCUAAACUAUAUGUAGGAC-UGCACUCCGCAGAUCCACG----AA---CUUCCACGAA----CCCUCUGACCGACCGAUGGGAAUAUAUCAAAAUUCCCGGGGUCAGGUGGGGU---C
.............(((.((((-(((.....)))).))))))----..---.........(----((((...(((((((..(((((((........))))))).)))).))))))))---. ( -34.40)
>DroEre_CAF1 2696 96 + 1
UUGCUAAACUAGA-GUAA-GC-UGCACUCUGCAGAUCCGUG----GA---CCUCU---UG----CCCGCUGAC----CGAGAGGAAUAUAUCAAAAUUCCUGGGGUCAGGUCGGGU---C
..........(((-(...-.(-(((.....)))).((....----))---.))))---.(----(((((((((----(...((((((........))))))..))))))..)))))---. ( -30.10)
>DroYak_CAF1 13426 95 + 1
UUGCUAAAAUAGG------AC-UGCACUCUGCAGAUCCAUG----AA---CUUCU---UA----CCCCCUGAC----CGUUGGGAAUAUAUCAAAAUUCCUGGGGUCAGGUCGGGUUCCC
...........((------((-(((.....)))).)))...----..---.....---.(----(((((((((----(.(..(((((........)))))..))))))))..)))).... ( -35.40)
>DroAna_CAF1 2539 110 + 1
UAUCUUAACUA------GGAC-UACACACUGCAGUUCCCUAUUGCAACGCCUUGGGAGAAUUCUUCCUCCAACCGAUCCCUCGGAAUAUAUCAAAAUUCCUCGCUUCGUCUUGGAU---C
........(((------((((-.......((((((.....))))))..((...(((((....))))).....((((....))))..................))...)))))))..---. ( -25.80)
>consensus
UUGCUAAACUAUA_GUAGGAC_UGCACUCUGCAGAUCCACG____AA___CUUCCACGAA____CCCUCUGACCGACCGAUAGGAAUAUAUCAAAAUUCCCGGGGUCAGGUGGGGU___C
......................(((.....)))...............................(((((((((...(((...(((((........)))))))).)))))..))))..... (-11.44 = -12.30 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:51 2006