Locus 6272

Sequence ID 2L_DroMel_CAF1
Location 17,451,066 – 17,451,165
Length 99
Max. P 0.991467
window10022 window10023

overview

Window 2

Location 17,451,066 – 17,451,165
Length 99
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 61.06
Mean single sequence MFE -32.80
Consensus MFE -14.03
Energy contribution -13.37
Covariance contribution -0.66
Combinations/Pair 1.21
Mean z-score -2.39
Structure conservation index 0.43
SVM decision value 1.74
SVM RNA-class probability 0.974759
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17451066 99 + 22407834
AAAGCUCUGAGCUUCCAACAUUGGUAGUCGGGUUCCCUCCGUUGUUUGUUGGAUUUCCAAAAUUGGUAGUCGGGUUCCC---------------------UCCGUUGUUUGUUGGAUUUC
..(((.....)))(((((((......(..(((..(((..(........((((....))))........)..)))..)))---------------------..)......))))))).... ( -27.79)
>DroSec_CAF1 15228 78 + 1
AAGGAUCUAAGCUUCCAACAUUGGUUUUUGGGUGCAUACCAUUGUUUGUUGGAUACCCAAGGU------------------------------------------UGUUUGUUGGACGCC
..........((.(((((((.....(((((((((....(((........))).))))))))).------------------------------------------....))))))).)). ( -24.60)
>DroSim_CAF1 15425 120 + 1
AAGGAUCUAAGCUUCCAACAUUGUUUGUUGGGUGCCUACCGUUGUUGGUUGGAUACCCAAGGUUGUUUGUUGGACGCCCCCCGAAAGACGUUGGAUUCCCUCCGUUGUUUGUUGGGUUCC
..(((.....((.(((((((.....(.(((((((((.((((....)))).)).))))))).).....))))))).))..(((((.(((((.((((.....)))).))))).))))).))) ( -46.00)
>consensus
AAGGAUCUAAGCUUCCAACAUUGGUUGUUGGGUGCCUACCGUUGUUUGUUGGAUACCCAAGGUUG_U_GU_GG___CCC_____________________UCCGUUGUUUGUUGGAUUCC
.............(((((((........(((.......))).......((((....)))).................................................))))))).... (-14.03 = -13.37 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 17,451,066 – 17,451,165
Length 99
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 61.06
Mean single sequence MFE -28.09
Consensus MFE -10.93
Energy contribution -11.27
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.06
Structure conservation index 0.39
SVM decision value 2.27
SVM RNA-class probability 0.991467
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17451066 99 - 22407834
GAAAUCCAACAAACAACGGA---------------------GGGAACCCGACUACCAAUUUUGGAAAUCCAACAAACAACGGAGGGAACCCGACUACCAAUGUUGGAAGCUCAGAGCUUU
....(((((((......(..---------------------(((..(((..(........((((....))))........)..)))..)))..)......)))))))(((.....))).. ( -25.89)
>DroSec_CAF1 15228 78 - 1
GGCGUCCAACAAACA------------------------------------------ACCUUGGGUAUCCAACAAACAAUGGUAUGCACCCAAAAACCAAUGUUGGAAGCUUAGAUCCUU
(((.(((((((....------------------------------------------...((((((..(((........))).....)))))).......))))))).)))......... ( -20.94)
>DroSim_CAF1 15425 120 - 1
GGAACCCAACAAACAACGGAGGGAAUCCAACGUCUUUCGGGGGGCGUCCAACAAACAACCUUGGGUAUCCAACCAACAACGGUAGGCACCCAACAAACAAUGUUGGAAGCUUAGAUCCUU
(((.(((..........(((.....)))..((.....)))))(((.(((((((.......((((((..((.(((......))).)).)))))).......))))))).)))....))).. ( -37.44)
>consensus
GGAAUCCAACAAACAACGGA_____________________GGG___CC_AC_A_CAACCUUGGGUAUCCAACAAACAACGGUAGGCACCCAACAACCAAUGUUGGAAGCUUAGAUCCUU
....(((((((.................................................((((....))))........((......))..........)))))))............. (-10.93 = -11.27 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:57 2006