Locus 4232

Sequence ID 2R_DroMel_CAF1
Location 13,922,717 – 13,922,872
Length 155
Max. P 0.768694
window6793 window6794

overview

Window 3

Location 13,922,717 – 13,922,834
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.17
Mean single sequence MFE -42.46
Consensus MFE -28.75
Energy contribution -30.37
Covariance contribution 1.61
Combinations/Pair 1.21
Mean z-score -2.18
Structure conservation index 0.68
SVM decision value 0.52
SVM RNA-class probability 0.768694
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13922717 117 - 20766785
CCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAAUUUGGCGGCCCGAACUGGAGGACUAGCCUCUGUCCCGUACAAAAUCAGCUUGGACAU---GCCGU
(((((.((...(((((((((....))).((((.......((((.((((((.....)))))).)))).....(((((.....))))).))))...)))))))).)))))....---..... ( -44.30)
>DroSec_CAF1 210379 120 - 1
CCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAGUUUGGCGGCCCGAACUGGAGGACUAGCCUCAGUUCCGUACAAAAUCAAUUUGGACAUUUUGCCCU
.(((((((((((..((((.((((((.....))))))...((((.((((((.....)))))).))))((((((.(((.....))))))))).........))))..))))))))))).... ( -46.80)
>DroSim_CAF1 212838 120 - 1
CCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAGUUUGGCGGCCCGAACUGGAGGACUAGCCUCUGUUCCGUACAAAAUCAACUUGGACAUUUUGCCUU
.(((((((((((..((((.((((((.....))))))...((((.((((((.....)))))).))))((((.(((((.....))))))))).........))))..))))))))))).... ( -45.30)
>DroEre_CAF1 210712 120 - 1
CCCGGGUAUUUAUUUUGACGUAUUCGUAGGGAAUACCGAGGGCGCCCAAGGUCAAUUUGGCGGCCCGAACUGGAGGACUAGCCUCUGUUCCGUACAAAAUCAACUUGGACAUAUUGCCUC
.((((((....((((((((((((((.....))))))...((((.((((((.....))))).)))))((((.(((((.....))))))))).)).))))))..))))))............ ( -38.10)
>DroYak_CAF1 222654 120 - 1
CCAGGGUAUUUAUUUUGACAUAUUCGUAGGGAAUACCAAGGGCGGCCAAGGUCAAUUUGGCGGCCCGCACCGGAGGACUAGCUUCUGUUCCGUACAAAAUCAACUUGGACAUUAUGCCCC
...((((((....((..(.......(((.((((......((((.((((((.....)))))).))))....((((((.....)))))))))).))).........)..))....)))))). ( -39.59)
>DroAna_CAF1 222363 120 - 1
UCCUGGUGUUGACUUCUACGAUUUCGUAGGGAACUCCGAGGGCUGCCAGCGUAAGCUUUACGGCCCUAAAAGGAGGACUGUCAUCAAAACCAUAUAGUACUAGUUUUCCCAUGUUAGCUC
.......((((((...((((....))))(((((((((.(((((((..(((....)))...)))))))....)))).(((((............))))).......)))))..)))))).. ( -40.70)
>consensus
CCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAAUUUGGCGGCCCGAACUGGAGGACUAGCCUCUGUUCCGUACAAAAUCAACUUGGACAUUUUGCCUC
.....(((((((..((((.......(((.((((((....((((.((((((.....)))))).))))......((((.....)))))))))).)))....))))..)))))))........ (-28.75 = -30.37 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 13,922,754 – 13,922,872
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.66
Mean single sequence MFE -44.68
Consensus MFE -33.44
Energy contribution -33.28
Covariance contribution -0.16
Combinations/Pair 1.32
Mean z-score -2.12
Structure conservation index 0.75
SVM decision value 0.18
SVM RNA-class probability 0.622381
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13922754 118 - 20766785
AUUCUUCCGCAAGAACUCGGGCGA--AAGGGUCUCCUUGGCCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAAUUUGGCGGCCCGAACUGGAGGACUA
..((((((......((((.(((..--((((....)))).))).))))((((........((((((.....))))))...((((.((((((.....)))))).)))))))).))))))... ( -46.40)
>DroSec_CAF1 210419 118 - 1
AUUCUUUCGCAAGAACUCGGGCGA--AAGGGUCUCCUUGGCCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAGUUUGGCGGCCCGAACUGGAGGACUA
...(((((((..(....)..))))--)))(((((((((((((..(((((((......(((....)))...)))))))......))))))))(((((((((....))))))))).))))). ( -48.20)
>DroSim_CAF1 212878 118 - 1
AUUCUUCCGCACGAACUCGGGCGA--AAGGGUCUCCUUGGCCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAGUUUGGCGGCCCGAACUGGAGGACUA
..((((((......((((.(((..--((((....)))).))).))))((((........((((((.....))))))...((((.((((((.....)))))).)))))))).))))))... ( -45.80)
>DroEre_CAF1 210752 118 - 1
AUUCUUUCGCAAGAACUCAGGCGA--AAGGGUCUCCUUGGCCCGGGUAUUUAUUUUGACGUAUUCGUAGGGAAUACCGAGGGCGCCCAAGGUCAAUUUGGCGGCCCGAACUGGAGGACUA
...(((((((..(....)..))))--)))((((((((((((((.(((((((......(((....)))...)))))))..))))...)))))(((.(((((....))))).))).))))). ( -41.40)
>DroYak_CAF1 222694 118 - 1
AUUCUUGCGCAGGAACUCAGGCGA--AAGGGUCUCCUUUGCCAGGGUAUUUAUUUUGACAUAUUCGUAGGGAAUACCAAGGGCGGCCAAGGUCAAUUUGGCGGCCCGCACCGGAGGACUA
...(((.(((..(....)..))).--)))(((((((..(((...(((((((....(((.....)))....)))))))..((((.((((((.....)))))).)))))))..))).)))). ( -45.00)
>DroAna_CAF1 222403 118 - 1
AUUUCUCUUCAGGUAUUCGGGUUUAUAAUGG--UCCUUGUUCCUGGUGUUGACUUCUACGAUUUCGUAGGGAACUCCGAGGGCUGCCAGCGUAAGCUUUACGGCCCUAAAAGGAGGACUG
........(((((.((..((..(......).--.))..)).))))).(((...(((((((....)))))))..((((.(((((((..(((....)))...)))))))....))))))).. ( -41.30)
>consensus
AUUCUUCCGCAAGAACUCGGGCGA__AAGGGUCUCCUUGGCCAGGGUGUUUAUUUUGACGUAUUCGUAGGGAAUGCCAAGGGCGGCCAAGGUCAAUUUGGCGGCCCGAACUGGAGGACUA
..(((((((.....((((.(((....((((....)))).))).))))............((((((.....))))))...((((.((((((.....)))))).))))....)))))))... (-33.44 = -33.28 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:50 2006