Locus 2242

Sequence ID 3L_DroMel_CAF1
Location 6,225,911 – 6,226,020
Length 109
Max. P 0.816632
window3468

overview

Window 8

Location 6,225,911 – 6,226,020
Length 109
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 73.81
Mean single sequence MFE -25.15
Consensus MFE -19.74
Energy contribution -19.55
Covariance contribution -0.19
Combinations/Pair 1.24
Mean z-score -0.86
Structure conservation index 0.78
SVM decision value 0.67
SVM RNA-class probability 0.816632
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6225911 109 - 23771897
CCCUGGCCAGAUACGUUGGCCCUGUUCAUAAGCGCGGCUAUUCCCAACUCAAAUGGCGGUGUAAAUGUAAGAAA--AUAAUUUUUUUCAAAUAACCCAACAAUA---AUCUAU---A
....((((((.....)))))).(((((((..((((.((((((.........)))))).))))..)))...((((--(......))))).........))))...---......---. ( -23.00)
>DroVir_CAF1 16479 107 - 1
CCCUGGCCCGAUACGCUGGCCCUGUUCAUCAGCGCCGCCAUACCCAACUCCUCGGGAGUCGUUAAUGUAAGUGGGCAUGCUCUAAU-----UG-CCCGAUAAGAUGCCUCU-A---A
....(((.((((..((.(((.(((.....))).)))))....(((........))).))))..........((((((.........-----))-)))).......)))...-.---. ( -29.30)
>DroSec_CAF1 16149 107 - 1
CCCUGGCCAGAUACGUUGGCCUUGUUCAUAAGCGCGGCUAUUCCCAACUCAAAUGGCGGUGUAAAUGUAAGAAU--AUAAUUUUAUAUCCUUAACUACAUAGU-----UCUAC---A
....((((((.....)))))).....(((..((((.((((((.........)))))).))))..)))((((.((--(((....))))).))))..........-----.....---. ( -23.00)
>DroSim_CAF1 16685 109 - 1
CCCUGGCCAGACACGUUGGCCUUGUUCAUAAGCGCGGCUAUUCCCAACUCAAAUGGCGGUGUAAAUGUAAGAAU--AUAAUUUUAUAACCUUAACAACCUAAUA---AUCUAU---A
....((((((.....))))))(((((.....((((.((((((.........)))))).))))...(((((((..--....))))))).....))))).......---......---. ( -22.60)
>DroEre_CAF1 17639 112 - 1
CCCUGGCCAGAUACGUUGGCCCUGUUCAUAAGCGCGGCCAUUCCCAACUCAAAUGGCGGUGUGAAUGUAAGAAU--ACGCUCUUAAACGUUUAAGCCAAGAUAA---GUCCGUUGUA
....((((((.....))))))..........(((((((((((.........))))))(((.(((((((((((..--....))))..))))))).))).......---...)).))). ( -28.00)
>DroYak_CAF1 16301 98 - 1
CCCUGGCCAGAUACGUUGGCCCUGUUCAUAAGCGCGGCCAUUCCCAACUCCAAUGGCGGUGUGAAUGUAAGAA----------------UUUAACCCUAGAUAA---AUCCUUGAUA
....((((((.....)))))).....(((..((((.((((((.........)))))).))))..)))((((.(----------------((((........)))---)).))))... ( -25.00)
>consensus
CCCUGGCCAGAUACGUUGGCCCUGUUCAUAAGCGCGGCCAUUCCCAACUCAAAUGGCGGUGUAAAUGUAAGAAU__AUAAUUUUAUA__CUUAACCCAAUAAUA___AUCUAU___A
....((((((.....))))))((...(((..((((.((((((.........)))))).))))..)))..)).............................................. (-19.74 = -19.55 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:38 2006