Locus 4443

Sequence ID 2L_DroMel_CAF1
Location 12,767,330 – 12,767,432
Length 102
Max. P 0.722015
window6988

overview

Window 8

Location 12,767,330 – 12,767,432
Length 102
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 84.77
Mean single sequence MFE -34.58
Consensus MFE -26.01
Energy contribution -26.61
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -2.46
Structure conservation index 0.75
SVM decision value 0.40
SVM RNA-class probability 0.722015
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12767330 102 + 22407834
AAAA-AAAAAGCCGAGCCAAAGAAA---GAACACAUUUUAUUUGGCUUGUUGUGGUUUUGGUUGCGAGCGGAGUCGAAG-------UUCAGUUCCAUGGCUUUAGUGAGCCGA
....-.......(((((((((((((---.......)))).)))))))))..((((..((((...(((......)))...-------.))))..))))(((((....))))).. ( -27.80)
>DroSec_CAF1 44303 113 + 1
AAAAAAAAAAGCCGAGCCAAAGAAAGAAGAACACAUUUUAUUUGGCUUGUUGUGGUUUUGGCUGCGAGCGGAGUCGAAGCGAAGGCUUCAGUUCCAUGGCUUUAGUGAGCCGA
..........(((((((((((..((((........)))).)))))))))(((..((....))..)))))((((..(((((....)))))..)))).((((((....)))))). ( -41.00)
>DroSim_CAF1 44587 113 + 1
AAAAAAAAAAGCCGAGCCAAAGAAAGAAGAACACAUUUUAUUUGGCUUGUUGUGGUUUUGGCUGCGAGCGGAGUCGAAGCGAAGGCUUCAGUUCCAUGGCUUUAGUGAGCCGA
..........(((((((((((..((((........)))).)))))))))(((..((....))..)))))((((..(((((....)))))..)))).((((((....)))))). ( -41.00)
>DroEre_CAF1 46301 106 + 1
A-----AAAAGCCGAACCAAAGAAAGAAGAAC--AUUUUAUUUGGCUUGUUGUGGUUUUGGCUGCGAGCGGAUGCGAAGCGAAGGCUUCAGUUCCAUGGCUCUAGUUAGCCGA
.-----...((((((((((....(((..(((.--......)))..)))....))).)))))))......(((...(((((....)))))...))).(((((......))))). ( -33.30)
>DroYak_CAF1 45490 108 + 1
A-----AAAAGCCGAGCCAAAGAAAGAAGAACACAUUUUAUUUGGCUUGUUGUGGUUUUGGCUGCGAGCGGAUACGAAGCGAAGGCUUCAGUUCCAUGGCUCUAGUUAGCCGA
.-----....(((((((((((..((((........)))).)))))))))(((..((....))..)))))(((...(((((....)))))...))).(((((......))))). ( -36.50)
>DroAna_CAF1 44278 113 + 1
UAUAAAGAGAGUCCUGCCAAAGUAAGGCGAACACAUUUUAUUUGGCUUGUUGUGGUUUUGGUUGCGAACGAAGUCGAAGCUGAGGAUUCAGAUCCAUGCUGCUUGUUGGUCAA
........(((((((((((((.(((((........))))))))))).......(((((((..(........)..))))))).))))))).((.(((.((.....))))))).. ( -27.90)
>consensus
AAAA_AAAAAGCCGAGCCAAAGAAAGAAGAACACAUUUUAUUUGGCUUGUUGUGGUUUUGGCUGCGAGCGGAGUCGAAGCGAAGGCUUCAGUUCCAUGGCUCUAGUGAGCCGA
..........(((((((((((...................)))))))))(((..((....))..)))))(((...(((((....)))))...))).(((((......))))). (-26.01 = -26.61 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:51 2006