Locus 192

Sequence ID 4_DroMel_CAF1
Location 1,169,633 – 1,169,753
Length 120
Max. P 0.839861
window310 window311

overview

Window 0

Location 1,169,633 – 1,169,727
Length 94
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 69.10
Mean single sequence MFE -17.93
Consensus MFE -9.21
Energy contribution -9.27
Covariance contribution 0.06
Combinations/Pair 1.35
Mean z-score -1.72
Structure conservation index 0.51
SVM decision value 0.44
SVM RNA-class probability 0.738250
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1169633 94 - 1281640
UAUCGGAAAACGUACAAUCAAUGUAAGUUUUAAAAAUGUUGUAGCACAAAAAGCACAAUAUUUUACCC-------UUUUCGAGCGGCAAGCAUUAUAAAAU-----------------
..(((((((((.((((.....)))).))))).((((((((((.((.......))))))))))))....-------...))))((.....))..........----------------- ( -18.60)
>DroSec_CAF1 4042 101 - 1
UAUGGGAAAACAUACAAUCAAUGUAAGUUUUAAAAAUUUUGUGGCACAAAAAGCACAAAGUUUCACUUGAACUAAUUUCCAAGUGACAAACAUUAUAAAAU-----------------
......(((((.((((.....)))).)))))...(((((((((.(.......))))))))))(((((((..........)))))))...............----------------- ( -17.90)
>DroSim_CAF1 287 101 - 1
UAUGGGAAAACAUACAAUCAAUGUAAGUUUUAAAAAUUUUGUGGCACAAAAAGCACAAAGUUUCACUUGAACUAAUUUCCAAGUGACAAGCAUUAUAAAAU-----------------
......(((((.((((.....)))).)))))...(((((((((.(.......))))))))))(((((((..........)))))))...............----------------- ( -17.90)
>DroEre_CAF1 11931 114 - 1
UAUCGGAAAAUGUAAAAUAAAUGUUAGUUUAGAAAAUAUCACAGAAUAAGGAUC--C--AUGUUACUUGAAUUACUUUCCAAGCUAUAAGCAUGCUAUAUUUCAGUUUGCUUAAGAAU
..(((((((..((((..(((((....))))).......(((.((((((.(....--)--.)))).))))).)))))))))......((((((.(((.......))).)))))).)).. ( -17.30)
>consensus
UAUCGGAAAACAUACAAUCAAUGUAAGUUUUAAAAAUUUUGUAGCACAAAAAGCACAAAAUUUCACUUGAACUAAUUUCCAAGCGACAAGCAUUAUAAAAU_________________
....(((((((((.......))))........((((((((((.((.......))))))))))))...........)))))..((.....))........................... ( -9.21 =  -9.27 +   0.06) 

alignment

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secondary structure

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dotplot

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Window 1

Location 1,169,654 – 1,169,753
Length 99
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 81.92
Mean single sequence MFE -18.70
Consensus MFE -15.21
Energy contribution -13.67
Covariance contribution -1.55
Combinations/Pair 1.18
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.75
SVM RNA-class probability 0.839861
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1169654 99 - 1281640
CCGUA------------AAAUCAGAUGUUUUAAUGUAAUAUCGGAAAACGUACAAUCAAUGUAAGUUUUAAAAAUGUUGUAGCACAAAAAGCACAAUAUUUUACCC-------UUUUC
.....------------......((((((.......))))))(((((((.((((.....)))).))))).((((((((((.((.......))))))))))))..))-------..... ( -19.10)
>DroSec_CAF1 4063 118 - 1
CCGUAUCAUAUAUCUAAUAAUCAUAUAUUUUAAUGUAAUAUGGGAAAACAUACAAUCAAUGUAAGUUUUAAAAAUUUUGUGGCACAAAAAGCACAAAGUUUCACUUGAACUAAUUUCC
((((((.((((....((((......))))...)))).))))))((((...((((.....))))(((((...((((((((((.(.......))))))))))).....)))))..)))). ( -18.50)
>DroSim_CAF1 308 118 - 1
CCGUAUCAUAUAUCUAAUAAUCAUAUAUUUUAAUGUAAUAUGGGAAAACAUACAAUCAAUGUAAGUUUUAAAAAUUUUGUGGCACAAAAAGCACAAAGUUUCACUUGAACUAAUUUCC
((((((.((((....((((......))))...)))).))))))((((...((((.....))))(((((...((((((((((.(.......))))))))))).....)))))..)))). ( -18.50)
>consensus
CCGUAUCAUAUAUCUAAUAAUCAUAUAUUUUAAUGUAAUAUGGGAAAACAUACAAUCAAUGUAAGUUUUAAAAAUUUUGUGGCACAAAAAGCACAAAGUUUCACUUGAACUAAUUUCC
.......................((((((.......))))))(((((((.((((.....)))).)))))..(((((((((.((.......)))))))))))..))............. (-15.21 = -13.67 +  -1.55) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:53 2006