Locus 2409

Sequence ID 3L_DroMel_CAF1
Location 6,775,964 – 6,776,076
Length 112
Max. P 0.541532
window3722

overview

Window 2

Location 6,775,964 – 6,776,076
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.18
Mean single sequence MFE -28.54
Consensus MFE -10.60
Energy contribution -12.08
Covariance contribution 1.48
Combinations/Pair 1.36
Mean z-score -1.73
Structure conservation index 0.37
SVM decision value 0.02
SVM RNA-class probability 0.541532
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6775964 112 - 23771897
---GGCAAAUGGCAAAUGGGUAUAAACCAGGCCGUAAAAGGGCGGCGUUCAUGUAUUU-----AUUGUCUUUUUAAUGAAGGGCAUUUAGAGCUCGCGCUAUAUCCUUGCUCCAUUAAUA
---((((((((((...(((.......))).)))))...((.((((.((((((((.(((-----((((......)))))))..))))...)))))))).))......)))))......... ( -32.00)
>DroSec_CAF1 36793 108 - 1
-------AGAGCCAACUGGGUAUAAACCAGGCCAUUAAAGGGCGGCGUUCAUGUAUUU-----AUUGUCUUUUUAAUGAAGGGCAUUUAGAGCUCGCGCUAUAUCCUUGCUCCAUUAGUA
-------.((((...((((.......)))).......(((((.(((((....((.(((-----(.((((((((....))))))))..))))))..)))))...)))))))))........ ( -28.50)
>DroSim_CAF1 37228 114 - 1
-GCAGCAAGAGCCAACUGGGUAUAAACCAGGCCAUUAAAGGGCGUCGUUCAUGUAUUU-----AUUGUCUUUUUAAUGAAGGGCAUUUAGAGCUCGCGCUAUAUCCUUGCUCCAUUAAUA
-(.((((((.(((...(((.......))))))......((.(((..((((((((.(((-----((((......)))))))..))))...)))).))).)).....)))))).)....... ( -29.80)
>DroEre_CAF1 50024 111 - 1
-GAGGUAAGAGCCCAUUGAGUAUAAACAAGGCCAUUAAAGGGUGGUCUCAAUUUAUUUUUAAUGAAGUGCAUUUA----AGGCUCUAUAAA----GCGGCGUAUCCUUACUCCAUUAAUA
-(..(((((.((((((((((.(((((..((((((((....))))))))...))))).)))))))...........----..(((......)----))))).....)))))..)....... ( -27.70)
>DroYak_CAF1 40320 105 - 1
AGAAGUAAGAGCUAAUUGAGUAUAAACAAGGCCAUUAAAAGGUGGCAUUCCUGUACUU-----AAAGCCUUUUUA----AGGGUAUUUAAA----ACA--UUAUCCUUACUCCAUUAAUA
......(((.(((..(((((((((......((((((....)))))).....)))))))-----))))))))..((----((((((......----...--.))))))))........... ( -24.70)
>consensus
_G_AGCAAGAGCCAACUGGGUAUAAACCAGGCCAUUAAAGGGCGGCGUUCAUGUAUUU_____AUUGUCUUUUUAAUGAAGGGCAUUUAGAGCUCGCGCUAUAUCCUUGCUCCAUUAAUA
...((((((........(((((((......(((((......))))).....)))))))........(((((((....))))))).....................))))))......... (-10.60 = -12.08 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:41 2006