Locus 5299

Sequence ID 3L_DroMel_CAF1
Location 14,656,873 – 14,656,990
Length 117
Max. P 0.768916
window8375

overview

Window 5

Location 14,656,873 – 14,656,990
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.95
Mean single sequence MFE -41.99
Consensus MFE -19.68
Energy contribution -19.97
Covariance contribution 0.28
Combinations/Pair 1.41
Mean z-score -2.13
Structure conservation index 0.47
SVM decision value 0.52
SVM RNA-class probability 0.768916
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14656873 117 - 23771897
AAAUCGCAUUGGAUUAUCGCCUCCAGCCAACUGGUCGG---CGUUUUCGCCAACAGGUACGGAUGGAAUUCGAGCAUGGAGCUUCCUCUUCAUCUGGACCACGGCAGAGUUGGCCAUGCU
.....((((((((........))))(((((((.(((((---((....))))....(((.((((((((....((((.....))))....)))))))).)))..)))..))))))).)))). ( -45.40)
>DroSec_CAF1 6724 117 - 1
GAAUCGCAUCGGAUUAUCGCCUCCAGCCAACUGGUCGG---CAUUUUCGCCAACAGGUGCGGAUGGAAUUCGAGCAUGGAGUUUCGUCUUCAUCUGGGCCACGGCAGAGUUGGCCAUGCU
.....((((.(((........))).(((((((((((((---(......)))..((((((.(((((((((((.......))))))))))).)))))))))).(....)))))))).)))). ( -46.90)
>DroSim_CAF1 6735 117 - 1
GAAUCGCAUCGGAUUAUCGCCUCCAGCCAACUGGUCGG---CAUUUUCGCCAACAGGUGCGGAUGGAAUUCGAGCAUGGAGUUUCGUCUUCAUCUGGGCCACGGCAGAAUUGGCCAUGCU
.....((((.(((..((.(((.((((....))))..))---)))..))(((((((((((.(((((((((((.......))))))))))).)))))).((....))....)))))))))). ( -44.00)
>DroEre_CAF1 7112 117 - 1
AAAUCUCAUUGGAUUAUCCCCUCCAGCCAACUUGUCGG---CAUUUUCGACUACAGCUGCUGAUGGAAUCCGAGCCUGGAGUUUUCUCUUCAUCUGAACCACGGCCGAGUUGGCCAGGCU
........(((((((....((..((((......(((((---.....))))).......))))..)))))))))((((((((......))))...........((((.....)))))))). ( -34.32)
>DroYak_CAF1 6781 117 - 1
AAAUCUCAAAGUAUUAUCGCCUCCAGCCAACUGGUCGG---CAUUUUCGACCACAGCUGCUGAUGGAAUCUGAGCAUGCAGUUUCCUCUUCAUCUGAGUCACGGCAGAGUUGGCCAGGUU
..................((((...(((((((((((((---.....))))))....((((((..((((.(((......))).))))..(((....)))...))))))))))))).)))). ( -38.20)
>DroAna_CAF1 6441 120 - 1
GCGACGCAAUCCAUUGUCGCCUCCAGCCAUUUUGUCUUCCUCAAUUGCAGCAGCAGCCUUUGCUACCAUUCGGCUCCGAAGGGCUUUCUGCAAUGUGGCCAUGGUCGAAGUGGCCAUUCG
((((((........)))))).....(((((((((.((.((...(((((((.((((((....))).((.((((....)))))))))..)))))))..))....)).)))))))))...... ( -43.10)
>consensus
AAAUCGCAUUGGAUUAUCGCCUCCAGCCAACUGGUCGG___CAUUUUCGCCAACAGCUGCGGAUGGAAUUCGAGCAUGGAGUUUCCUCUUCAUCUGGGCCACGGCAGAGUUGGCCAUGCU
.........................(((((((.((((..........((((....))))((((((((....((((.....))))....)))))))).....))))..)))))))...... (-19.68 = -19.97 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:39 2006