Locus 4899

Sequence ID 3R_DroMel_CAF1
Location 12,878,918 – 12,879,028
Length 110
Max. P 0.921507
window8021

overview

Window 1

Location 12,878,918 – 12,879,028
Length 110
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 92.57
Mean single sequence MFE -33.90
Consensus MFE -28.00
Energy contribution -28.04
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.77
Structure conservation index 0.83
SVM decision value 1.14
SVM RNA-class probability 0.921507
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12878918 110 + 27905053
CAACCAUUCAUCACAUUUUGCGGCAACCAAGACCGCGCUAAAUGUCGAUGUUGCUUCCUCAGGUUCUCCGCUCUCGACAGCAUCGAGGGAGUUGAGU-----UU-UUUGGCAACUU
...(((..((((((((((((((((......).)))))..)))))).))))..((((((((.((....))(((......)))...)))))))).....-----..-..)))...... ( -31.90)
>DroSec_CAF1 9365 111 + 1
CAACCAUUCAUCACAUUUUGCGGCAACCAAGACCGCGCUAAAUGUCGAUGUUGCUUCCUCAGGUUCUCCGCUCUCGAUAGGAUCAAGGGAGUUACGU-----UUUUUUGGCAACUU
...................(((((......).))))((((((....(((((.(((((((..((((((.((....))..)))))).))))))).))))-----)..))))))..... ( -29.70)
>DroSim_CAF1 9690 111 + 1
CAACCAUUCAUCACAUUUUGCGGCAACCAAGACCGCGCUAAAUGUCGAUGUUGCUUCCUCAGGUUCUCCGCUCUCGAUAGGAUCGAGGGAGUUACGU-----UUUUUUGGCAACUU
...................(((((......).))))((((((....(((((.((((((((.((((((.((....))..)))))))))))))).))))-----)..))))))..... ( -33.60)
>DroEre_CAF1 9693 110 + 1
CAGCCAUUCAUCACAUUUUGCGGCAACGAAGACCGCGCUAAAUGUCGAUGUUGCUUCCUCAGGUUCUCCGCUCUCGAUUGCAUCGAGGGAGUUGAGU------UUUUUGGCAACAU
..((((..((((((((((((((((......).)))))..)))))).))))..((((((((.((....))((........))...)))))))).....------....))))..... ( -35.90)
>DroYak_CAF1 9608 116 + 1
CAACCAUUCAUCACAUUUUGCGGCAACGAAGACCGCGCUAAAUGUCGGUGUUGCUUCCUCGGGUUCUCCGCUCUCGAUUGCAUCGAGGGAGUUGAGUGGAGUUUUUUUGGCAACAU
...(((((((((((((((((((((......).)))))..)))))).)))...(((((((((((....))((........))..))))))))).))))))........((....)). ( -38.40)
>consensus
CAACCAUUCAUCACAUUUUGCGGCAACCAAGACCGCGCUAAAUGUCGAUGUUGCUUCCUCAGGUUCUCCGCUCUCGAUAGCAUCGAGGGAGUUGAGU_____UUUUUUGGCAACUU
.........(((((((((((((((......).)))))..)))))).)))((((((......((....)).(((((((.....)))))))...................)))))).. (-28.00 = -28.04 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:34 2006