Locus 4390

Sequence ID 2L_DroMel_CAF1
Location 12,633,992 – 12,634,096
Length 104
Max. P 0.921737
window6917

overview

Window 7

Location 12,633,992 – 12,634,096
Length 104
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 88.92
Mean single sequence MFE -22.33
Consensus MFE -19.70
Energy contribution -19.03
Covariance contribution -0.67
Combinations/Pair 1.12
Mean z-score -1.97
Structure conservation index 0.88
SVM decision value 1.14
SVM RNA-class probability 0.921737
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12633992 104 - 22407834
AACAACAAUAA--GAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCAGAAAAAUGGGCGUCGGUGUGUG---AAGUCAAAAAA------AAAAGCU
...........--.......(((((..(((((((..(((..((((......((((((...))))))....))))..))).))))).))---..)))))....------....... ( -22.30)
>DroPse_CAF1 16669 110 - 1
AACCACAAUGAGAGAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCACAAAAGUGGGCGUCAGUGUGUGAAGAAGUCGAAAAAA-----GGUAGCG
.(((.((((..(....)..)))).((((.(((((....(..((((....))))...)(..((.((((....))))))..))))))........))))......-----))).... ( -22.40)
>DroSec_CAF1 15003 110 - 1
AACAACAAUAA--GAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCAGAAAAAUGGGCGUCGGUGUGUG---AAGUCAAAAAAAAAAAAAAAAACU
...........--.......(((((..(((((((..(((..((((......((((((...))))))....))))..))).))))).))---..)))))................. ( -22.30)
>DroSim_CAF1 15428 106 - 1
AACAACAAUAA--GAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCAGAAAAAUGGGCGUCGGUGUGUG---AAGUCAAAAAAA----AAAAAACU
...........--.......(((((..(((((((..(((..((((......((((((...))))))....))))..))).))))).))---..))))).....----........ ( -22.30)
>DroYak_CAF1 15553 105 - 1
AAC---AAUAA--GAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCAGAAAAAUGGGCGUCGGUGUGUG---AAGUCAAAAAAAAAA--AAAAACU
...---.....--.......(((((..(((((((..(((..((((......((((((...))))))....))))..))).))))).))---..)))))........--....... ( -22.30)
>DroPer_CAF1 16692 110 - 1
AACCACAAUGAGAGAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCACAAAAGUGGGCGUCAGUGUGUGAAGAAGUCGAAAAAA-----GGUAGCG
.(((.((((..(....)..)))).((((.(((((....(..((((....))))...)(..((.((((....))))))..))))))........))))......-----))).... ( -22.40)
>consensus
AACAACAAUAA__GAACAAGUUGACGACGACACUAAAUGAAUAUUGAUAAAUGGGGCGGUGCUCCAGAAAAAUGGGCGUCGGUGUGUG___AAGUCAAAAAAA_____AAAAACU
....................(((((..(((((((..(((..((((......((((((...))))))....))))..))).))))).)).....)))))................. (-19.70 = -19.03 +  -0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:42 2006