Locus 4334

Sequence ID 3R_DroMel_CAF1
Location 11,456,835 – 11,456,952
Length 117
Max. P 0.547250
window7085

overview

Window 5

Location 11,456,835 – 11,456,952
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.23
Mean single sequence MFE -27.50
Consensus MFE -14.29
Energy contribution -14.01
Covariance contribution -0.28
Combinations/Pair 1.38
Mean z-score -1.65
Structure conservation index 0.52
SVM decision value 0.03
SVM RNA-class probability 0.547250
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11456835 117 - 27905053
CAGAAACGA---AGAGUUCCGACUGCAGGCCCUGUAAGUAUUCAUGCACUGAGAAAAUAUGUGUGUUUAAAGCAUAUAUAUAUCGUAGUAAGACCCCAUGGAGAACUCUUCCUCUAUCAC
.(((...((---(((((((..(((((((...)))).))).((((((.((((.((..((((((((((.....)))))))))).)).)))).......))))))))))))))).)))..... ( -29.80)
>DroSec_CAF1 189364 114 - 1
CAGAAACGA---AGAGUUCCGACUGCAGGCCCAGUACGUAUUCAUGCACUGAGAAAAUAUGUGUGCUAAAAGCAGAUAUAAA---UAGCAAGACCCUAUGGAGAACUCUUCCUCUAUCAC
.(((...((---(((((((...((..(((..((((.(((....))).))))......(((((.(((.....))).)))))..---.........)))..)).))))))))).)))..... ( -28.30)
>DroSim_CAF1 184448 114 - 1
CAGAAACGA---AGAGUUCCGACUGCAGGCCCAGUACGUAUUCAUGCACUGAGAAAAUAUGUGUGCUAAAAGCAGAUAUAAA---UAGAAAGACCCUAUGGAGAACUCUUCCUCUAUCGC
.(((...((---(((((((...((..(((..((((.(((....))).))))......(((((.(((.....))).)))))..---.........)))..)).))))))))).)))..... ( -28.30)
>DroEre_CAF1 178579 93 - 1
CAGAAACGG---CGAGUUCCCACUGCAGGUCCAGUACGUACGCCUGCACUCAGAAAAUAAGUGUGCUAGAAGCAGACUUAUU--------------------UCGCCAGGCCCCAA----
.......((---(((.(((....(((((((...........)))))))....)))(((((((.(((.....))).)))))))--------------------))))).........---- ( -29.60)
>DroYak_CAF1 182449 100 - 1
CAGAAACGGAGACGAGUUCCGACUGCAGGUCCAGUACGUAUUCCUGCACUCAGAAAAUAAGUGUGAUAAAAUCUGAUAUGAU--------------------GAACACUUUCCCAAUCAG
......((....))..(((.((.((((((.............)))))).)).)))...((((((......(((......)))--------------------..)))))).......... ( -21.52)
>consensus
CAGAAACGA___AGAGUUCCGACUGCAGGCCCAGUACGUAUUCAUGCACUGAGAAAAUAUGUGUGCUAAAAGCAGAUAUAAA___UAG_AAGACCC_AUGGAGAACUCUUCCUCUAUCAC
.......((...(((((((....((((.................)))).........(((((.(((.....))).)))))......................)))))))...))...... (-14.29 = -14.01 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:32 2006