Locus 6532

Sequence ID 3R_DroMel_CAF1
Location 17,238,983 – 17,239,076
Length 93
Max. P 0.635917
window10630

overview

Window 0

Location 17,238,983 – 17,239,076
Length 93
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.77
Mean single sequence MFE -29.91
Consensus MFE -19.11
Energy contribution -20.00
Covariance contribution 0.89
Combinations/Pair 1.24
Mean z-score -1.24
Structure conservation index 0.64
SVM decision value 0.21
SVM RNA-class probability 0.635917
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17238983 93 + 27905053
GAGUCACCG---GUGACACCUAA--------CC--------ACCGGGCGACAUCCAGCACAAUGGGUACAAGGAGCUGCUCCUG-UUGUCUGGA-------AAGUACGCAUAACUUAUGC
..(((.(((---(((........--------.)--------)))))..))).(((((.((((((((..((......))..))))-)))))))))-------......(((((...))))) ( -34.10)
>DroSec_CAF1 35461 101 + 1
GAGUCACCG---GUGACACCUAA--------CCACCGAACCACCGGGCGACAUCCAGCACAAUGGGUCCAGGGAGCUGCUCCUG-UUGUCUGGA-------AAGUACGAAUAACUUAUGU
..(((.(((---(((........--------.........))))))..))).(((((.((((((((..(((....)))..))))-)))))))))-------((((.......)))).... ( -36.03)
>DroSim_CAF1 35965 101 + 1
GAGUCACCG---GCGACACCUAA--------CCACCGAACCACCGGGCGACAUCCAGCACAAUGGGUCCAAGGAGCUGCUCCUG-UUGUCUGGA-------AAGUACGCAUAACUUAUGC
..(((.(((---(.(........--------.........).))))..))).(((((.((((((((..((......))..))))-)))))))))-------......(((((...))))) ( -29.53)
>DroEre_CAF1 36441 108 + 1
GAGUCACCG---GUGACACCUAGCCAACGAACCAACGAACCACCGGGCAACAUCCAGCACAAUGGGUCCAAGGAGCUGCUCCUG-UUGUCUG--------GAAAUAUGCAUAACUUAUGC
((((..(((---(((.........................))))))(((...(((((.((((((((..((......))..))))-)))))))--------))....)))...)))).... ( -30.51)
>DroYak_CAF1 55569 100 + 1
GAGUUACCG---GUGACACCUA----------------ACCACCCGGCGACAUCCAGCACAAUGGGUCCAAGGAGCUGCUCCUG-UUGUCUGAAAGUAUGGAAGUAUGCAUAACUUAUGC
((((((..(---(((.......----------------..)))).(((((((((((......)))))...(((((...))))))-))))).....(((((....))))).)))))).... ( -25.40)
>DroAna_CAF1 27889 89 + 1
GAGUUGAAGUUGCUGGCACCA----------------AACCACCAGGCAACAGUCG----------CUAAAGGAGCAGCUCCUGGUUGCCCGGGA-----AAAGUAAGCAUAACUUAUGC
((((((...(((((((.....----------------..)).((.((((((((..(----------((........)))..)).)))))).))..-----..)))))...)))))).... ( -23.90)
>consensus
GAGUCACCG___GUGACACCUAA________CC____AACCACCGGGCGACAUCCAGCACAAUGGGUCCAAGGAGCUGCUCCUG_UUGUCUGGA_______AAGUACGCAUAACUUAUGC
..(((((.....))))).........................((((((((((((((......)))))...(((((...)))))).))))))))..............(((((...))))) (-19.11 = -20.00 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:43 2006