Locus 4155

Sequence ID	X_DroMel_CAF1
Location	10,896,163 – 10,896,263
Length	100
Max. P	0.997757

overview

Window 5

Location	10,896,163 – 10,896,263
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	88.32
Mean single sequence MFE	-40.94
Consensus MFE	-31.86
Energy contribution	-34.90
Covariance contribution	3.04
Combinations/Pair	1.14
Mean z-score	-3.58
Structure conservation index	0.78
SVM decision value	2.92
SVM RNA-class probability	0.997757
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10896163 100 + 22224390
AUGGUCCAGGGGGAUUAUCAGGACCCAGGACUCUGGAUGCUGGAUUCUGGAUUCUGGAUGCCAGAUUUGGGUCUUGGUCUGGGUCUGGACUGGAUCUGGG
..(((((((..((((((((((((((((((..(((((...(..((........))..)...))))))))))))))))))...)))))...))))))).... ( -44.80)
>DroSec_CAF1 50243 100 + 1
AUGGUCCAGGGGGAUUAUCAGGACCCAGGACUCUGAAUGCUGGAUGCUGGAUUCUGGAUGCCAGAUUUGGGUCUUGGUCUGGGUCUGGACUGGAUCUGGG
..(((((((..(((((....(((((.(((((.(..(((.((((...(..(...)..)...)))))))..))))))))))).)))))...))))))).... ( -41.40)
>DroSim_CAF1 53375 100 + 1
AUGGUCCAGGGGGAUUAUCAGGACCCAGGACUCUGGAUGCUGGAUGCUGGAUUCUGGAUGCCAGAUUUGGGUCUUGGUCUGGGUCUGGACUGGAUCUGGG
..(((((((..((((((((((((((((((..(((((...(..((........))..)...))))))))))))))))))...)))))...))))))).... ( -44.80)
>DroEre_CAF1 26937 87 + 1
AUGGUCCAGGGAGAUUAUCAGCGCCCAGGACGCUGCAUG-------CAGGAUUCUGGAUGCCAGAUUUGGGUCUGGGU------CUGGACUGGAUUUGGG
..(((((((..((((..((((.(((((((...((((((.-------(((....))).))).))).)))))))))))))------))...))))))).... ( -33.00)
>DroYak_CAF1 50708 93 + 1
AUGGUCCAGGGGGAUUAUCAAGACCCAGGACUCUGGAUG-------CUGGAUUCUAGAUGCCAGAUUUGGGUCUGGGUCUGAGUCUGGACUGGAUCUGGG
..(((((((..(((((....((((((((.((.(..(((.-------((((..........)))))))..))))))))))).)))))...))))))).... ( -40.70)
>consensus
AUGGUCCAGGGGGAUUAUCAGGACCCAGGACUCUGGAUGCUGGAU_CUGGAUUCUGGAUGCCAGAUUUGGGUCUUGGUCUGGGUCUGGACUGGAUCUGGG
..(((((((..((((((((((((((((((..(((((...(((((........)))))...))))))))))))))))))...)))))...))))))).... (-31.86 = -34.90 +   3.04)

alignment

secondary structure

dotplot

Window 6

Location	10,896,163 – 10,896,263
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	88.32
Mean single sequence MFE	-26.46
Consensus MFE	-19.37
Energy contribution	-20.31
Covariance contribution	0.94
Combinations/Pair	1.05
Mean z-score	-3.03
Structure conservation index	0.73
SVM decision value	1.75
SVM RNA-class probability	0.975562
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10896163 100 - 22224390
CCCAGAUCCAGUCCAGACCCAGACCAAGACCCAAAUCUGGCAUCCAGAAUCCAGAAUCCAGCAUCCAGAGUCCUGGGUCCUGAUAAUCCCCCUGGACCAU
..........((((((...................(((((...)))))..........(((.((((((....)))))).))).........))))))... ( -25.50)
>DroSec_CAF1 50243 100 - 1
CCCAGAUCCAGUCCAGACCCAGACCAAGACCCAAAUCUGGCAUCCAGAAUCCAGCAUCCAGCAUUCAGAGUCCUGGGUCCUGAUAAUCCCCCUGGACCAU
.((((.....(((..((((((((((..........(((((...))))).....((.....)).....).)).)))))))..))).......))))..... ( -26.10)
>DroSim_CAF1 53375 100 - 1
CCCAGAUCCAGUCCAGACCCAGACCAAGACCCAAAUCUGGCAUCCAGAAUCCAGCAUCCAGCAUCCAGAGUCCUGGGUCCUGAUAAUCCCCCUGGACCAU
.((((.....(((..((((((((((..........(((((...))))).....((.....)).....).)).)))))))..))).......))))..... ( -26.10)
>DroEre_CAF1 26937 87 - 1
CCCAAAUCCAGUCCAG------ACCCAGACCCAAAUCUGGCAUCCAGAAUCCUG-------CAUGCAGCGUCCUGGGCGCUGAUAAUCUCCCUGGACCAU
..........((((((------..(((((......)))))(((.(((....)))-------.)))((((((.....)))))).........))))))... ( -27.50)
>DroYak_CAF1 50708 93 - 1
CCCAGAUCCAGUCCAGACUCAGACCCAGACCCAAAUCUGGCAUCUAGAAUCCAG-------CAUCCAGAGUCCUGGGUCUUGAUAAUCCCCCUGGACCAU
..........((((((.((.(((.(((((......)))))..))))).(((.((-------.((((((....)))))))).))).......))))))... ( -27.10)
>consensus
CCCAGAUCCAGUCCAGACCCAGACCAAGACCCAAAUCUGGCAUCCAGAAUCCAG_AUCCAGCAUCCAGAGUCCUGGGUCCUGAUAAUCCCCCUGGACCAU
..........((((((........((.((((((..(((((...))))).....((.....))...........)))))).)).........))))))... (-19.37 = -20.31 +   0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:45 2006