Locus 4815

Sequence ID 3R_DroMel_CAF1
Location 12,580,032 – 12,580,138
Length 106
Max. P 0.813168
window7894

overview

Window 4

Location 12,580,032 – 12,580,138
Length 106
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 80.18
Mean single sequence MFE -32.53
Consensus MFE -20.58
Energy contribution -20.17
Covariance contribution -0.42
Combinations/Pair 1.29
Mean z-score -1.97
Structure conservation index 0.63
SVM decision value 0.66
SVM RNA-class probability 0.813168
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12580032 106 - 27905053
AAUGGCUUUUAUGGCUGACUUCAUGGCUAAUAAAAAUUUGCAUUGUUCGGCCGGGUAGUAUAUUUUCGAUUCUGUUGGUCGAAACCAGAUCGGUUGUG------GCCAUGCC
.((((((...(..(((((((...((((((((((.........))))).)))))...)))....((((((((.....))))))))......))))..))------)))))... ( -27.70)
>DroPse_CAF1 70188 108 - 1
GAUGGCAUUUAUGGCCGACUUCAUGGCUAAUAAAAAUUAGCAUUGUCUGGCCACAA-AUAUUAUUUC---UCAGUUGGCCGAAAACAGAUCGGCUUUGAGCCGGGCCAGGUC
..((((((((.((((((((......((((((....))))))...))).))))).))-)).......(---((((..((((((.......)))))))))))....)))).... ( -37.00)
>DroEre_CAF1 67541 106 - 1
AAUGGCUUUUAUGGCCGACUUCAUGGCUAAUAAAAAUUUGCAUUGUUCGGCCAGGGAGUAUUUUUUCGAUUCUGUUGGUCGAAACCAGAUCGGUUGUG------GCCAUGUC
.((((((...(..(((((((((.((((((((((.........))))).))))).)))))....((((((((.....))))))))......))))..))------)))))... ( -33.90)
>DroYak_CAF1 67928 106 - 1
AAUGGCUUUUAUGGCCGACUUCAUGGCUAAUAAAAAUUUGCAUUGUUCGGUCGGGGAGUAUUUUUUCGAUUCUGUUGCUCGAAACCAGAUCGGUUGUG------GCCACGUC
..(((((...(..(((((((((.((((((((((.........))))).))))).)))))....((((((.........))))))......))))..))------)))).... ( -26.80)
>DroAna_CAF1 66766 104 - 1
AAUGGCUUUAACGGCCGACUUCAUGGCUAAUAAAAAUUUGCAUUGGUUGGCCGCAAAGUAGUUGU--AUUUCAGCUGGCCGAAACCAGAUCGACUUUG------GCCCAGAC
....(((((..(((((((((.....((.(((....))).))...))))))))).)))))(((((.--....)))))(((((((..(.....)..))))------)))..... ( -32.50)
>DroPer_CAF1 75535 108 - 1
GAUGGCAUUUAUGGCCGACUUCAUGGCUAAUAAAAAUUAGCAUUGUCUGGCCACAA-AUAUUAUUUC---UCAACUGGCCGAAAACAGAUCGGCUUUGAGCCGGGCCAGGUC
..((((((((.((((((((......((((((....))))))...))).))))).))-)).......(---((((..((((((.......)))))))))))....)))).... ( -37.30)
>consensus
AAUGGCUUUUAUGGCCGACUUCAUGGCUAAUAAAAAUUUGCAUUGUUCGGCCACAAAGUAUUUUUUCGAUUCAGUUGGCCGAAACCAGAUCGGCUGUG______GCCAGGUC
..((((.....(((((((...((..((.(((....))).))..)).))))))).......................((((((.......)))))).........)))).... (-20.58 = -20.17 +  -0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:32 2006