Locus 6260

Sequence ID 3L_DroMel_CAF1
Location 16,680,138 – 16,680,247
Length 109
Max. P 0.505038
window10044

overview

Window 4

Location 16,680,138 – 16,680,247
Length 109
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 85.28
Mean single sequence MFE -21.00
Consensus MFE -13.10
Energy contribution -12.58
Covariance contribution -0.52
Combinations/Pair 1.23
Mean z-score -1.93
Structure conservation index 0.62
SVM decision value -0.06
SVM RNA-class probability 0.505038
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16680138 109 + 23771897
UUCCAUCAAAGCAUCAUUUUAAAUAUUGGAUGAUCCAACGAGGAACACA-AGUGUUCAUUCAAGCACAUAAUUACUCGAAA--AAUUUGAAAAAUGAAUCAUUCAAAAUAUU
.........................(((((((((.((..((((((((..-..))))).)))..............((((..--...))))....)).)))))))))...... ( -17.10)
>DroSec_CAF1 1843 109 + 1
UUCCAUGGAAGCAUCAUUUUAAAUAUUGAAUGAUCCAACGCGGAACACA-AGUGUUCAUUCGAGCAAAUAAUUAUUCGAAA--AAUUUGAAAAAUGAAUCAUUCAAAAGAUU
(((....)))...............(((((((((.((.....(((((..-..))))).((((((.((....)).)))))).--...........)).)))))))))...... ( -19.90)
>DroSim_CAF1 1630 109 + 1
UUCCAUGGAAGCAUCAUUUUAAAUAUUGGAUGAUCCAACGCGGAACACA-AGUGUUCAUUCAAGCAAAUAAUUAUUCGAAA--AAUUUGAAAAAUGAAUCAUUCAAAAGAUU
(((....)))...............(((((((((.((..((.(((((..-..)))))......)).........(((((..--...)))))...)).)))))))))...... ( -18.70)
>DroEre_CAF1 2118 108 + 1
UU-CAUCGAAAAAUCAUUUUUAAUAUUGGAUGAUCCAGAGGGGCAAACAAAGUGUUCAUUCAAGAACAUAAUUAUUUGGA--CA-UUUGAAAAAUGAAUCAUUUGAAAUGUU
..-..(((((...(((((((.....(..((((.((((((.(......)...((((((......)))))).....))))))--))-))..))))))))....)))))...... ( -21.60)
>DroYak_CAF1 1408 111 + 1
UU-UAUCGAAGAAUCAUUUUGAGUAUUGGAUGAUCCAAUGCGGAACACAAAAUGUUCAGUCAAGCACAUAAUUAGUUGGAAGCAUUUUGAAAAAUGAAUCAUUUGAAAUGUU
..-..(((((((.(((((((..(((((((.....)))))))......((((((((((((..((........))..))))..)))))))).))))))).)).)))))...... ( -27.70)
>consensus
UUCCAUCGAAGCAUCAUUUUAAAUAUUGGAUGAUCCAACGCGGAACACA_AGUGUUCAUUCAAGCACAUAAUUAUUCGAAA__AAUUUGAAAAAUGAAUCAUUCAAAAUAUU
.........................(((((((((.((.....((((((...))))))..................(((((.....)))))....)).)))))))))...... (-13.10 = -12.58 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:06 2006