Locus 4335

Sequence ID 2L_DroMel_CAF1
Location 12,412,384 – 12,412,498
Length 114
Max. P 0.500000
window6830

overview

Window 0

Location 12,412,384 – 12,412,498
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.70
Mean single sequence MFE -28.15
Consensus MFE -19.63
Energy contribution -20.78
Covariance contribution 1.15
Combinations/Pair 1.32
Mean z-score -1.45
Structure conservation index 0.70
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12412384 114 - 22407834
AAGUAAUUGAAAACGCACGCAUCGAUGAUGGCCAAAAAGCGAAUUGCAAUUUUGUAUGUUGGCCAAA-AC----CAUACUGGGGCCACUCAUCUAUGUUAUCC-UGGACAGACGCAAUAU
..................((.((((((((((((.....((.(((((((....)))).))).))....-.(----(.....))))))).)))))..((((....-..)))))).))..... ( -27.50)
>DroPse_CAF1 324671 111 - 1
AAGUAAUUGAAAACGCAUGCAUCGAUGAUGGCCAAAAAGCGAAUUGCAAUUUUGU---UUGGCCAAAAAC----CAUAUUGAGGCCACUCAAAAAUUCUG-CCC-GGACAGCCGCAAUAU
..............((..(((.......(((((((...(((((.......)))))---))))))).....----....(((((....)))))......))-)..-((....))))..... ( -23.40)
>DroEre_CAF1 234922 114 - 1
AAGUAAUUGAAAACGCAUGCAUCGAUGAUGGCCAAAAAGCGAAUUGCAAUUUUGUAUGUUGGCCAAA-AC----CAUUUUGGGGCCACUCAUCUAUGUUGGCCC-GGCCAGCCGCAAUAU
.................(((...((((((((((.....((.(((((((....)))).))).))....-.(----(.....))))))).)))))...((((((..-.)))))).))).... ( -32.60)
>DroYak_CAF1 245122 118 - 1
AAGUAAUUGAAAACUCAUGCAUCGAUGAUGGCCAAAAAGCGAAUUGCAAUUUUGUAUGUUGGCUAAA-ACCAACCAUAUUGGGGCCACUCAUCUAUGUUGGCCC-GAACGGCCGCAAAAU
.................(((...((((((((((....(((.(((((((....)))).))).)))...-.((((.....))))))))).)))))......((((.-....))))))).... ( -35.50)
>DroAna_CAF1 223431 99 - 1
AAGUAAUUGAAAACGCAUGCAUCGAUGAUGGCG-GAAAGCGUAUUGCAAUUUUGUCUGCUGGCCAAA-AG----CAUUUC-----C---------AGUUGCCAC-GGGCACUCGCAAUAU
.............(((...((....))...)))-......(((((((.....((((((.((((....-((----(.....-----.---------.))))))))-)))))...))))))) ( -22.00)
>DroPer_CAF1 327324 111 - 1
AAGUAAUUGAAAACGCAUGCAUCGAUGAUGGCCAAAAAGCGAAUUGCAAUUUUGU---UUGGCCAAAAAC----CAUAUUGAGGCCACUCAAAAAUGCUG-CCC-GGACAGCCGCAAUAU
.....((((.....(((.((((......(((((((...(((((.......)))))---))))))).....----....(((((....)))))..))))))-).(-((....))))))).. ( -27.90)
>consensus
AAGUAAUUGAAAACGCAUGCAUCGAUGAUGGCCAAAAAGCGAAUUGCAAUUUUGUAUGUUGGCCAAA_AC____CAUAUUGGGGCCACUCAUCUAUGUUG_CCC_GGACAGCCGCAAUAU
.................(((........(((((((...(((((.......)))))...)))))))..............((((....)))).....((((((....)))))).))).... (-19.63 = -20.78 +   1.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:19 2006