Locus 3521

Sequence ID 2R_DroMel_CAF1
Location 11,793,744 – 11,793,834
Length 90
Max. P 0.999210
window5733 window5734

overview

Window 3

Location 11,793,744 – 11,793,834
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 77.99
Mean single sequence MFE -27.20
Consensus MFE -21.88
Energy contribution -22.63
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.80
SVM decision value 2.06
SVM RNA-class probability 0.986882
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11793744 90 + 20766785
AGUGACCAUAUGCUGUACUCUGCUGUGCCGUGCUGAGCUGCACCGACCCGACUUUGACUUCGGUUAGGAACCAACAUAUGGUCGAUGCCC
..((((((((((.(((((((.((........)).))).))))((...((((........))))...))......))))))))))...... ( -28.50)
>DroSim_CAF1 15106 84 + 1
AGUGACCAUAUGCUGUACUCUGCUCUGCUGUGCCGUGCUGCACCGACCCGAC------UUCGGUUAGGAACCAACAUAUGGUCGAUGCCC
..(((((((((((.((((...((.(....).)).)))).)).....((..((------....))..)).......)))))))))...... ( -26.30)
>DroEre_CAF1 14202 68 + 1
AGUGACCAUAUGUUGUA--------------------CUGCACCGACCCGAC--CGACUUCGGUUAGGAACCAACAUAUGGUCGAUGCCC
..(((((((((((((..--------------------(......).((..((--((....))))..))...)))))))))))))...... ( -26.80)
>consensus
AGUGACCAUAUGCUGUACUCUGCU_UGC_GUGC_G_GCUGCACCGACCCGAC___GACUUCGGUUAGGAACCAACAUAUGGUCGAUGCCC
..((((((((((.(((((((.((........)).))).))))((...((((........))))...))......))))))))))...... (-21.88 = -22.63 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 11,793,744 – 11,793,834
Length 90
Sequences 3
Columns 90
Reading direction reverse
Mean pairwise identity 77.99
Mean single sequence MFE -30.48
Consensus MFE -28.04
Energy contribution -28.57
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -2.44
Structure conservation index 0.92
SVM decision value 3.44
SVM RNA-class probability 0.999210
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11793744 90 - 20766785
GGGCAUCGACCAUAUGUUGGUUCCUAACCGAAGUCAAAGUCGGGUCGGUGCAGCUCAGCACGGCACAGCAGAGUACAGCAUAUGGUCACU
.......((((((((((((((.((...((((........))))...)).)).((((.((........)).)))).))))))))))))... ( -34.00)
>DroSim_CAF1 15106 84 - 1
GGGCAUCGACCAUAUGUUGGUUCCUAACCGAA------GUCGGGUCGGUGCAGCACGGCACAGCAGAGCAGAGUACAGCAUAUGGUCACU
.......((((((((((((((.((...(((..------..)))...)).)).((.(.((...)).).))......))))))))))))... ( -29.90)
>DroEre_CAF1 14202 68 - 1
GGGCAUCGACCAUAUGUUGGUUCCUAACCGAAGUCG--GUCGGGUCGGUGCAG--------------------UACAACAUAUGGUCACU
.......((((((((((((...((..((((....))--))..)).........--------------------..))))))))))))... ( -27.54)
>consensus
GGGCAUCGACCAUAUGUUGGUUCCUAACCGAAGUC___GUCGGGUCGGUGCAGC_C_GCAC_GCA_AGCAGAGUACAGCAUAUGGUCACU
.......((((((((((((((.((...((((........))))...)).)).((((.((........)).)))).))))))))))))... (-28.04 = -28.57 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:32 2006