Locus 701

Sequence ID 3L_DroMel_CAF1
Location 2,098,480 – 2,098,575
Length 95
Max. P 0.869895
window1071 window1072

overview

Window 1

Location 2,098,480 – 2,098,575
Length 95
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 83.01
Mean single sequence MFE -26.45
Consensus MFE -19.39
Energy contribution -20.03
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -2.25
Structure conservation index 0.73
SVM decision value 0.55
SVM RNA-class probability 0.778671
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2098480 95 + 23771897
UUAAGAAUGUUCACAAUUUUUCAGACACUAUCUUGGCUGCUCCAGCGUAUAAUCCUUGCCGGGAUCAGCCAGGAUAAUGCAUAUC-GCACACAUGG
......((((..................(((((((((((.(((.(((.........)))..))).))))))))))).(((.....-))).)))).. ( -26.30)
>DroGri_CAF1 145790 93 + 1
AUAUAGUUAUUCACAAUU--CUGUACAUUAUCGCAGCUAUCUUUGCCUGUAAUCCUGGGCAGGAUAAGCCAGGAUAAUGCACUUGAUCACAUUUG-
.................(--(.((.(((((((...((((((((.((((........))))))))).)))...))))))).))..)).........- ( -20.90)
>DroSec_CAF1 150000 95 + 1
UUGAGAAUGUUCACGAUUUUUCAGACACUAUCUUGGCUGCUCCAGCGUAUAAUCCUUGCCAGGAUCAGCCAGGAUAAUGCACAUC-GCACACAUGG
(((((((..........)))))))....(((((((((((.(((.(((.........)))..))).))))))))))).(((.....-)))....... ( -27.40)
>DroSim_CAF1 153169 95 + 1
UUGAGAAUGUUCACGAUUUUUCAGACACUAUCUUGGCUGCUCCAGCGUAUAAUCCUUGCCAGGAUCAGCCAGGAUAAUGCACAUC-GCACACAUGG
(((((((..........)))))))....(((((((((((.(((.(((.........)))..))).))))))))))).(((.....-)))....... ( -27.40)
>DroEre_CAF1 154411 95 + 1
UUGAGAGUGUCCACAAAUUUUCAGACACUAUCUUGGCUGCUCCAGCGUAUAAUCCUUGCCAGGAUCAGCCAGGAUAAUGCACAUG-ACACACAUGG
.(((((((........)))))))(.((.(((((((((((.(((.(((.........)))..))).))))))))))).))).((((-.....)))). ( -31.70)
>DroYak_CAF1 148149 94 + 1
UUGAGAAUG-CCACUAUUUUUUAGACACUAUCUUAGCUGCUCCAGCGUAAAAUCCUUGCCAGGAUCAGCCAGGAUAAUGCAUAUG-GCACACAUGG
.......((-((((((.....))).((.((((((.((((.(((.(.((((.....))))).))).)))).)))))).))....))-)))....... ( -25.00)
>consensus
UUGAGAAUGUUCACAAUUUUUCAGACACUAUCUUGGCUGCUCCAGCGUAUAAUCCUUGCCAGGAUCAGCCAGGAUAAUGCACAUC_GCACACAUGG
(((((((..........))))))).((.(((((((((((.(((.(((.........)))..))).))))))))))).))................. (-19.39 = -20.03 +   0.64) 

alignment

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secondary structure

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dotplot

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Window 2

Location 2,098,480 – 2,098,575
Length 95
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 83.01
Mean single sequence MFE -30.30
Consensus MFE -22.65
Energy contribution -22.90
Covariance contribution 0.25
Combinations/Pair 1.25
Mean z-score -2.70
Structure conservation index 0.75
SVM decision value 0.87
SVM RNA-class probability 0.869895
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2098480 95 - 23771897
CCAUGUGUGC-GAUAUGCAUUAUCCUGGCUGAUCCCGGCAAGGAUUAUACGCUGGAGCAGCCAAGAUAGUGUCUGAAAAAUUGUGAACAUUCUUAA
..((((.(((-(((..((((((((.((((((...(((((...........)))))..)))))).)))))))).......)))))).))))...... ( -30.50)
>DroGri_CAF1 145790 93 - 1
-CAAAUGUGAUCAAGUGCAUUAUCCUGGCUUAUCCUGCCCAGGAUUACAGGCAAAGAUAGCUGCGAUAAUGUACAG--AAUUGUGAAUAACUAUAU
-.............((((((((((.(((((.(((.((((..(.....).))))..)))))))).))))))))))..--.................. ( -24.10)
>DroSec_CAF1 150000 95 - 1
CCAUGUGUGC-GAUGUGCAUUAUCCUGGCUGAUCCUGGCAAGGAUUAUACGCUGGAGCAGCCAAGAUAGUGUCUGAAAAAUCGUGAACAUUCUCAA
..((((.(((-(((..((((((((.((((((.(((.(((...........)))))).)))))).)))))))).......)))))).))))...... ( -32.40)
>DroSim_CAF1 153169 95 - 1
CCAUGUGUGC-GAUGUGCAUUAUCCUGGCUGAUCCUGGCAAGGAUUAUACGCUGGAGCAGCCAAGAUAGUGUCUGAAAAAUCGUGAACAUUCUCAA
..((((.(((-(((..((((((((.((((((.(((.(((...........)))))).)))))).)))))))).......)))))).))))...... ( -32.40)
>DroEre_CAF1 154411 95 - 1
CCAUGUGUGU-CAUGUGCAUUAUCCUGGCUGAUCCUGGCAAGGAUUAUACGCUGGAGCAGCCAAGAUAGUGUCUGAAAAUUUGUGGACACUCUCAA
(((((....(-((.(.((((((((.((((((.(((.(((...........)))))).)))))).)))))))))))).....))))).......... ( -31.50)
>DroYak_CAF1 148149 94 - 1
CCAUGUGUGC-CAUAUGCAUUAUCCUGGCUGAUCCUGGCAAGGAUUUUACGCUGGAGCAGCUAAGAUAGUGUCUAAAAAAUAGUGG-CAUUCUCAA
...((.((((-(((..((((((((.((((((.(((.(((...........)))))).)))))).))))))))..........))))-)))...)). ( -30.90)
>consensus
CCAUGUGUGC_CAUGUGCAUUAUCCUGGCUGAUCCUGGCAAGGAUUAUACGCUGGAGCAGCCAAGAUAGUGUCUGAAAAAUUGUGAACAUUCUCAA
.((((...........((((((((.((((((.(((.(((...........)))))).)))))).)))))))).........))))........... (-22.65 = -22.90 +   0.25) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:53 2006