Locus 7624

Sequence ID 3R_DroMel_CAF1
Location 20,427,950 – 20,428,052
Length 102
Max. P 0.500000
window12305

overview

Window 5

Location 20,427,950 – 20,428,052
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.03
Mean single sequence MFE -27.50
Consensus MFE -18.64
Energy contribution -18.84
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.70
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20427950 102 - 27905053
-----------GUGGAUUAACUUAAAA-----AAUUAGAUUGUAUUGAUUUGGCCAAUUAAUGUCAGUCAACCCCUGGGGCCAAAUGAAGCGCAACUAAUUGCC-C-CAGGCCAGCUAUG
-----------.(((............-----.....(((((((((((((.....)))))))).)))))....((((((((..(((..((.....)).))))))-)-)))))))...... ( -26.80)
>DroSec_CAF1 10913 103 - 1
-----------GUGGAUUAACUUAAAA-----AAUUAGAUUGUAUUGAUUUGGCCAAUUAAUGUCAGUCAACCCCUGGGGCCAAAUGAAGCGCAACUAAUUGCCCC-CAGGCCAGCUAUG
-----------.(((............-----.....(((((((((((((.....)))))))).)))))....((((((((........))((((....)))).))-)))))))...... ( -25.80)
>DroSim_CAF1 10521 103 - 1
-----------GUGGAUUAACUUAAAA-----AAUUAGAUUGCAUUGAUUUGGCCAAUUAAUGUCAGUCAACCCCUGGGGCCAAAUGAAGCGCAACUAAUUGCCCC-CAGGCCAGCUAUG
-----------.(((............-----.....(((((((((((((.....)))))))).)))))....((((((((........))((((....)))).))-)))))))...... ( -27.80)
>DroEre_CAF1 10357 100 - 1
---------GUCUGGUUCAACUUAAAA-----AAUUAGAUUGUGUUGAUUUGGCCAAUUAAUGUCAGUCAACCCCUGG-GCUAAAUGAAGCGCAACUAAUUGCCCCACAGGCCA-----G
---------..((((((..........-----((((((.(((((((.((((((((......((.....)).......)-)))))))..)))))))))))))........)))))-----) ( -26.39)
>DroYak_CAF1 10960 115 - 1
UGUUGUCUGGUCUGAUUCAACUUAAAAAAUAAAAUUAGAUUGUGUUGAUUUGGCCAAUUAAUGUCAGUCAACCCCUGG-GCUAAAAGAAGCGCAACUAAUUGCCCCACAGGCCAG----G
......((((((((.......(((.....)))((((((.(((((((..(((((((......((.....)).......)-))))))...)))))))))))))......))))))))----. ( -30.72)
>consensus
___________GUGGAUUAACUUAAAA_____AAUUAGAUUGUAUUGAUUUGGCCAAUUAAUGUCAGUCAACCCCUGGGGCCAAAUGAAGCGCAACUAAUUGCCCC_CAGGCCAGCUAUG
................................((((((.((((.((.((((((((........((((.......)))))))))))).))..))))))))))(((.....)))........ (-18.64 = -18.84 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:30 2006