Locus 5561

Sequence ID X_DroMel_CAF1
Location 14,375,643 – 14,375,742
Length 99
Max. P 0.935530
window9023 window9024

overview

Window 3

Location 14,375,643 – 14,375,742
Length 99
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 74.01
Mean single sequence MFE -25.10
Consensus MFE -13.12
Energy contribution -13.65
Covariance contribution 0.53
Combinations/Pair 1.33
Mean z-score -2.03
Structure conservation index 0.52
SVM decision value 1.25
SVM RNA-class probability 0.935530
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14375643 99 + 22224390
A-AACCCUCCCACUUGGCAUCUCGACAUUGUUGACUUGUCCCCACUUGUCGUCACUCAAAGUGGCUUCCACUCCGCUGUGCAUCAGAAUUUUGCAGAC---UU---------------
.-.............((((..(((((...)))))..)))).......((((((((.....))))).............((((.........)))))))---..--------------- ( -18.90)
>DroSec_CAF1 91818 100 + 1
AAAACCCUCCCACUUGGCAUCUCGACAUUGUUGACUUGUCCUCACUUGUCGUCACUCAGAGUGGCUUCCACUCCGCUGUGCAUCAGAAUUUUGCCGGC---UU---------------
.........((((((.......(((((.((..((....))..))..))))).......))))))..........((((.(((.........)))))))---..--------------- ( -24.54)
>DroSim_CAF1 85961 100 + 1
AAAACCCUCCCACUUGGCAUCUCGACAUUGUUGACUUGUCCCCACUUGUCGUCACUCAGAGUGGCUUCCACUCCGCUGUGCAUCAGAAUUUUGCCGGC---UU---------------
.........((((((.......(((((.((..((....))..))..))))).......))))))..........((((.(((.........)))))))---..--------------- ( -23.04)
>DroEre_CAF1 82613 99 + 1
-AAACCCGCCCACUCGGCUUCUCGACAUUGUUGACUUGUCCCCACUUGUCGUCACUCGGAGUGGCUUCCACUCCGCUGUGCAUCGGGAUUUCGCCGGC---UU---------------
-......(((....(((..((((((.......(((..((....))..)))(.(((.((((((((...))))))))..)))).))))))..)))..)))---..--------------- ( -34.10)
>DroYak_CAF1 93807 99 + 1
-GGAAUCUCCCACUCGGCAUCUCGACAUUGUUGACUUGUCCCCACUUGUCGUCACUCCGAGUGGCUUUCACUUCGCUGUGCAUCAGAAUUUUGUCGGC---UU---------------
-.(((....((((((((.....(((((.((..((....))..))..))))).....))))))))..))).....((((.(((.........)))))))---..--------------- ( -28.40)
>DroPer_CAF1 101094 118 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCUAUCUCUCUCAACAUGUCGUCACUUUGAGUGGCUUCCACUUCGCUGUGCAUCAGGAUUUUUUUGCCACUUUCCCUGUGACCUUAUU
..................................................(((((...(((((((.......((.(((.....))))).......))))))).....)))))...... ( -21.64)
>consensus
_AAACCCUCCCACUUGGCAUCUCGACAUUGUUGACUUGUCCCCACUUGUCGUCACUCAGAGUGGCUUCCACUCCGCUGUGCAUCAGAAUUUUGCCGGC___UU_______________
.............(((((..............(((..((....))..)))(.(((.(.((((((...)))))).)..))))...........)))))..................... (-13.12 = -13.65 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 14,375,643 – 14,375,742
Length 99
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 74.01
Mean single sequence MFE -27.65
Consensus MFE -15.55
Energy contribution -18.00
Covariance contribution 2.45
Combinations/Pair 1.17
Mean z-score -1.41
Structure conservation index 0.56
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14375643 99 - 22224390
---------------AA---GUCUGCAAAAUUCUGAUGCACAGCGGAGUGGAAGCCACUUUGAGUGACGACAAGUGGGGACAAGUCAACAAUGUCGAGAUGCCAAGUGGGAGGGUU-U
---------------..---.......(((((((..(((.((.((((((((...))))))))..)).(((((..((..((....))..)).))))).........)))..))))))-) ( -24.60)
>DroSec_CAF1 91818 100 - 1
---------------AA---GCCGGCAAAAUUCUGAUGCACAGCGGAGUGGAAGCCACUCUGAGUGACGACAAGUGAGGACAAGUCAACAAUGUCGAGAUGCCAAGUGGGAGGGUUUU
---------------((---(((((((...........(((..((((((((...)))))))).))).(((((..((..((....))..)).)))))...)))).........))))). ( -28.30)
>DroSim_CAF1 85961 100 - 1
---------------AA---GCCGGCAAAAUUCUGAUGCACAGCGGAGUGGAAGCCACUCUGAGUGACGACAAGUGGGGACAAGUCAACAAUGUCGAGAUGCCAAGUGGGAGGGUUUU
---------------((---(((((((...........(((..((((((((...)))))))).))).(((((..((..((....))..)).)))))...)))).........))))). ( -29.90)
>DroEre_CAF1 82613 99 - 1
---------------AA---GCCGGCGAAAUCCCGAUGCACAGCGGAGUGGAAGCCACUCCGAGUGACGACAAGUGGGGACAAGUCAACAAUGUCGAGAAGCCGAGUGGGCGGGUUU-
---------------((---(((.((....((.((((.(((..((((((((...)))))))).)))..(((...((....)).)))......)))).))..((....)))).)))))- ( -35.50)
>DroYak_CAF1 93807 99 - 1
---------------AA---GCCGACAAAAUUCUGAUGCACAGCGAAGUGAAAGCCACUCGGAGUGACGACAAGUGGGGACAAGUCAACAAUGUCGAGAUGCCGAGUGGGAGAUUCC-
---------------..---...........(((....(((......)))....((((((((.((..(((((..((..((....))..)).)))))..)).)))))))).)))....- ( -28.60)
>DroPer_CAF1 101094 118 - 1
AAUAAGGUCACAGGGAAAGUGGCAAAAAAAUCCUGAUGCACAGCGAAGUGGAAGCCACUCAAAGUGACGACAUGUUGAGAGAGAUAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
......(((((...((..(((((....(..(((((.....))).))..)....)))))))...)))))...((.((....)).))................................. ( -19.00)
>consensus
_______________AA___GCCGGCAAAAUUCUGAUGCACAGCGGAGUGGAAGCCACUCUGAGUGACGACAAGUGGGGACAAGUCAACAAUGUCGAGAUGCCAAGUGGGAGGGUUU_
.....................((.((............(((..(((((((.....))))))).))).(((((..((..((....))..)).))))).........)).))........ (-15.55 = -18.00 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:56 2006