Locus 5048

Sequence ID 2R_DroMel_CAF1
Location 16,400,710 – 16,400,807
Length 97
Max. P 0.662826
window8066

overview

Window 6

Location 16,400,710 – 16,400,807
Length 97
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 78.01
Mean single sequence MFE -25.40
Consensus MFE -14.77
Energy contribution -15.28
Covariance contribution 0.51
Combinations/Pair 1.13
Mean z-score -1.66
Structure conservation index 0.58
SVM decision value 0.27
SVM RNA-class probability 0.662826
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16400710 97 + 20766785
AUCCUGGGAACUGGCCUUUCUUGGCCCUGGUUGCUGGGCAAAUUAAUCACGUGAGAAAUUCAUUUAGUGCACCGGCACCCACACACACCCA-CCAACA
....((((....((((......)))).(((.((((((((((((.(((..(....)..))).)))...))).)))))).)))......))))-...... ( -30.90)
>DroSec_CAF1 70468 96 + 1
AUCCUGGGAACUGUCCUCUCUUGGUCCAGGUUGCUGGGCAAAUUAAUCACGUGAGAAAUUCAUUUAGUGCACCGGCACACACACUCACCCA-CCU-UA
....((((..(((.((......))..)))((((((((((((((.(((..(....)..))).)))...))).)))))).)).......))))-...-.. ( -24.30)
>DroSim_CAF1 72312 97 + 1
AUCCUGGGAACUGGCCUCUCUUGGUCCAGGUUGCUGGGCAAAUUAAUCACGUGAGAAAUUCAUUUAGUGCACCGGCACAUACACACACCCA-CCAACA
....((((..((((((......)).))))..((((((((((((.(((..(....)..))).)))...))).))))))..........))))-...... ( -28.10)
>DroEre_CAF1 76104 91 + 1
UUCAGGAGAACUGGCCUUUCGUGGCCCAGGUUGCCGGGCAAAUUAAUCACGUGAGAAAUUCAUUUAGUGCACCGGCAC------ACACCCA-CCAACA
....((....((((((......)).))))((((((((((((((.(((..(....)..))).)))...))).)))))).------)).....-)).... ( -27.50)
>DroYak_CAF1 75794 80 + 1
UGCCUGAGAACUGGC-----------CAGGUUGCCGGGCAAAUUAAUCACGUGAGAAAUUCAUUUAGUGCACCGGCAC------ACACCCA-CCAACA
.(((........)))-----------..(((((((((((((((.(((..(....)..))).)))...))).)))))).------..)))..-...... ( -21.70)
>DroPer_CAF1 104691 85 + 1
-UGCAGAGUCCUGCGCUGCCUUGGCGC-GGUUGCCUGGCAAAUUAAUCAUGUGAGAAAUUCAUUUAGUGCCCAGACACAC-----------ACACACA
-.((((....))))..((((..((((.-...)))).)))).........((((.(.....).....(((......))).)-----------))).... ( -19.90)
>consensus
AUCCUGAGAACUGGCCUCUCUUGGCCCAGGUUGCCGGGCAAAUUAAUCACGUGAGAAAUUCAUUUAGUGCACCGGCACAC____ACACCCA_CCAACA
..........((((((......)).))))..(((((((((...(((....(((((...)))))))).))).))))))..................... (-14.77 = -15.28 +   0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:08 2006