Locus 2754

Sequence ID 2R_DroMel_CAF1
Location 9,639,223 – 9,639,317
Length 94
Max. P 0.845389
window4564

overview

Window 4

Location 9,639,223 – 9,639,317
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 68.75
Mean single sequence MFE -17.80
Consensus MFE -10.30
Energy contribution -10.75
Covariance contribution 0.45
Combinations/Pair 1.50
Mean z-score -1.49
Structure conservation index 0.58
SVM decision value 0.77
SVM RNA-class probability 0.845389
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9639223 94 + 20766785
GGAGUUAACUAAGCGAUCGUUGA-ACGCUCCAAGUUAAGAAAAAAAAAAAACAAAGAAAAAA--UGUAGCUUAAGUAGCUGCUCGG---UUGACAUCGGC
.(((((((((.((((.((...))-.)))).................................--.((((((.....))))))..))---))))).))... ( -18.90)
>DroSec_CAF1 37997 91 + 1
GGAGUUAACUAAGCGAUCGUUGA-ACGCUCCGAUUCAUAAAAAAAAAAAAGGAA---AAAAA--AGCAGCUUAAGUAGCUGCUCGG---UUGACAUCAGC
.(((((((((..(((.((...))-.)))(((...................))).---.....--(((((((.....))))))).))---))))).))... ( -21.81)
>DroSim_CAF1 59185 84 + 1
GGAGUUAACUAAGCGAUCGUUGA-ACGCUCCGAUUCAUAAAAAAAAA----------AAAAA--AGUAGCUUAAGUAGCUGCUCGG---UUGACAUCAAC
.(((((((((.((((.((...))-.))))..................----------.....--(((((((.....))))))).))---))))).))... ( -19.70)
>DroEre_CAF1 38077 73 + 1
---------UAAGCGAUCGUUGAAACGAUUCGAGUAAAC---AAA-----GA-----AAAAA--AGUAGCUUAAGUAGCUGCUCUG---UUGACAUCAGC
---------((..(((((((....)))).)))..))...---...-----..-----.....--(((((((.....)))))))..(---(((....)))) ( -15.90)
>DroYak_CAF1 47711 83 + 1
GGAGUUAACUAAGCGAUCGUUGA-AUGCUCCGAGUGAAU---AAA-----GC-----AAAAAAUAGUAGCAUAAGUAGCUGUUUUG---UUGACAUCAGC
(((((......(((....)))..-..)))))((((.(((---(((-----((-----(.......((.((....)).)))))))))---)).)).))... ( -18.11)
>DroAna_CAF1 35081 78 + 1
GGAAUUAACUAAGCGAUCGCUUU-AAGCUUCUUUUCAAC-------------------AGAA--ACUGGCUCAAGUGGCUACAAAAGACGAGAUGUCAGC
...........(((...(((((.-.((((...((((...-------------------.)))--)..)))).))))))))......(((.....)))... ( -12.40)
>consensus
GGAGUUAACUAAGCGAUCGUUGA_ACGCUCCGAGUCAAA___AAA_____G______AAAAA__AGUAGCUUAAGUAGCUGCUCGG___UUGACAUCAGC
(((((......(((....))).....)))))..................................((((((.....)))))).................. (-10.30 = -10.75 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:39 2006