Locus 4244

Sequence ID 3L_DroMel_CAF1
Location 12,424,554 – 12,424,648
Length 94
Max. P 0.626953
window6568

overview

Window 8

Location 12,424,554 – 12,424,648
Length 94
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 89.16
Mean single sequence MFE -29.00
Consensus MFE -21.31
Energy contribution -21.37
Covariance contribution 0.06
Combinations/Pair 1.11
Mean z-score -3.29
Structure conservation index 0.73
SVM decision value 0.19
SVM RNA-class probability 0.626953
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12424554 94 + 23771897
UUUUA-UA-UUUUGCCUGGCAAUUUGAGAACCAUUUAUUUAUUUGUUAAGUGGCCGUAAAAGCGGUCACGGC--------AAUACCAAAUGCAAAAGGCAAAAG-----
.....-..-((((((((.(((.(((((((....)))......((((...((((((((....)))))))).))--------))...)))))))...)))))))).----- ( -28.60)
>DroSec_CAF1 27424 93 + 1
UUUU--UA-UUUUGCCUGGCAAUUUGAGGAGCAUUUAUUUAUUUGUUAAGUGGCCAUAAAAGCGGUCACGGC--------AAUACCAAAUGCAAAAGGCAAAAG-----
....--..-((((((((.(((.((((...((((..........))))..((((((........))))))...--------.....)))))))...)))))))).----- ( -26.30)
>DroSim_CAF1 28159 94 + 1
UUUUA-UA-UUUUGCCUGGCAAUUUGAGGAGCAUUUAUUUAUUUGUUAAGUGGCCAUAAAAGCGGUCACGGC--------AAUACCAAAUGCAAAAGGCAAAAG-----
.....-..-((((((((.(((.((((...((((..........))))..((((((........))))))...--------.....)))))))...)))))))).----- ( -26.30)
>DroEre_CAF1 28038 95 + 1
UUGUAUUA-UUUUGCCUGGCAAUUUGAGGCCCAUUUAUUUAUUUGUUAAGUGGCCGUAAAAGCGGUCACGGC--------AAUACGUAAUGCAAAAGGCAAAAG-----
((((((((-(.(((((.(((........)))..................((((((((....)))))))))))--------))...)))))))))..........----- ( -31.30)
>DroYak_CAF1 29202 102 + 1
UUUUA-UA-UUUUGCCUGGCAAUUUGAGGCCCAUUUAUUUAUUUGUUAAGUGGCCGUAAAAGCGGUCACGGCAACGUGGCAAUACCAAAUGCAAAAGGCAAAAG-----
.....-..-((((((((.(((.((((.((((.(((((.........))))))))).........((((((....)))))).....)))))))...)))))))).----- ( -37.30)
>DroAna_CAF1 22305 98 + 1
UUUUA-UAUUUUUGCCUGGUAAUUUGCGGCCCAUUUAUUUAUUUGUUAAGUGGCCAUAAAAGCGGUCACGGC--------ACUACCAACUG--AAAGGCAAAGGCAUUG
.....-..(((((((((((((...(((((((.(((((.........))))))))).......((....))))--------).)))).....--..)))))))))..... ( -24.21)
>consensus
UUUUA_UA_UUUUGCCUGGCAAUUUGAGGACCAUUUAUUUAUUUGUUAAGUGGCCAUAAAAGCGGUCACGGC________AAUACCAAAUGCAAAAGGCAAAAG_____
.........((((((((.(((............................((((((........))))))((.............))...)))...))))))))...... (-21.31 = -21.37 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:38 2006