Locus 1342

Sequence ID 2L_DroMel_CAF1
Location 3,555,728 – 3,555,831
Length 103
Max. P 0.883004
window2192

overview

Window 2

Location 3,555,728 – 3,555,831
Length 103
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 76.32
Mean single sequence MFE -27.30
Consensus MFE -19.38
Energy contribution -20.78
Covariance contribution 1.40
Combinations/Pair 1.16
Mean z-score -1.66
Structure conservation index 0.71
SVM decision value 0.92
SVM RNA-class probability 0.883004
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3555728 103 + 22407834
GUGAAAGACUGCGCUCGUCUUCCGAUAAAUUGGAGAUGGGCGCGUGA---GGGGUCAACCUGGAUCUGGAACUAUUAAAAAAAGAAAAUUCAUGAAAA--AGUAAAGU
(((((.....((((((((((.((((....))))))))))))))((..---.(((((......)))))...))................))))).....--........ ( -28.90)
>DroSec_CAF1 24728 98 + 1
GUGAAAGACUGCGCUCGUCUUCCGAUAAAUUCGAGAUGGGCGCGUGA---GGGGUCAACCUGGACCUGGAACUAUCUAAU-----AAAAUCGUGAAAA--AGUAAAGC
.......(((((((((((((..(((.....)))))))))))))((..---.(((((......)))))...))........-----.............--)))..... ( -27.00)
>DroSim_CAF1 24999 99 + 1
GUGAAAGACUGCGCUCGUCUUCCGAUAAAUUCGAGAUGGGCGCGUGA---GGGGUCAACCUGGACCUGGAACUAUCUAAAA----AAAAUCGUGAAAA--AGUAAAGC
.......(((((((((((((..(((.....)))))))))))))((..---.(((((......)))))...)).........----.............--)))..... ( -27.00)
>DroEre_CAF1 24998 102 + 1
GUGAAGCACUGCGCUCGUCUUCGGAUGAAUUCGAGAUGGGCGCGUGAGGAGGGGUCAC-UUCGGCCUGCAACUAUCUAAA-----GAAAUCUUGAAAAACUCUAAAAC
......(((.((((((((((.((((....))))))))))))))))).(((((((((..-...)))))...........((-----(....)))......))))..... ( -33.00)
>DroYak_CAF1 25825 79 + 1
GUGAAGCACUGCGCUCGUCUGCGCAUGAGUUCGAGAUGGUCGCGUGA---GGGGUCAA-U---------------AU--------AAAAUCUGGAAAA--UGUAAUGC
.....(((.(((((......)))))....(((.(((((..(.(....---).)..)).-.---------------..--------....))).)))..--.....))) ( -20.60)
>consensus
GUGAAAGACUGCGCUCGUCUUCCGAUAAAUUCGAGAUGGGCGCGUGA___GGGGUCAACCUGGACCUGGAACUAUCUAAA_____AAAAUCGUGAAAA__AGUAAAGC
..........((((((((((.((((....))))))))))))))........(((((......)))))......................................... (-19.38 = -20.78 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:07 2006