Locus 1322

Sequence ID 3L_DroMel_CAF1
Location 3,845,650 – 3,845,741
Length 91
Max. P 0.770027
window2065

overview

Window 5

Location 3,845,650 – 3,845,741
Length 91
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 80.44
Mean single sequence MFE -29.93
Consensus MFE -19.08
Energy contribution -19.05
Covariance contribution -0.03
Combinations/Pair 1.21
Mean z-score -1.88
Structure conservation index 0.64
SVM decision value 0.53
SVM RNA-class probability 0.770027
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3845650 91 + 23771897
GCACUCGAGGUGCCAGUCAUGUGGCUGGAUUCUAGUGUUGCACUUCAGGUU--GCGAGCUAAGUGCAUCGAGAGAGA--ACCGAAGGCAUUAAUU
(((((.(((...((((((....)))))).))).)))))(((.((((.((((--....((.....)).((....)).)--))))))))))...... ( -31.90)
>DroSec_CAF1 45158 93 + 1
GCACUCGAGGUGCCAGUCAAGUGGCUGGAUUCUAGUGUUGCACUUCAGGUUACGCCAGCUAAGUGCAUCGAGAGAGA--AUCGAGGGCAUUAAUU
((.(((((....((((((....)))))).((((..((.(((((((..((.....))....))))))).))..)))).--.))))).))....... ( -33.60)
>DroEre_CAF1 45873 91 + 1
GCUCUCGAGCUGCCAGUCAUGUGGUGGGAUUCUAGUGUUGCACUUCAGGCUCC--GUGCUAAGUGCAGCGAAUGAGA--AACGAAGGCAUUAAUU
((..(((..(..(((......)))..)..((((..((((((((((..(((...--..)))))))))))))....)))--).)))..))....... ( -33.00)
>DroYak_CAF1 46681 91 + 1
GCACUCGAGGUGCCAGUCAUGUGGCUGGAUUCUAGUGUUGCACUUCAGGUUCC--GUGCUAAGUGCAUCGAGAGAGA--AGCGAAGGCAUUAAUU
(((((.(((...((((((....)))))).))).)))))(((((((..(((...--..))))))))))((....))..--.((....))....... ( -31.40)
>DroMoj_CAF1 57310 83 + 1
ACACUCGAGUUGCCAGUCAUGUGGCAGCAUUCUAGUGUUGCACUUCAGGCUCG--GCGUUAAGUGCAC--------A--AGCCAUCGUAUUAAUU
(((((.(((((((((......)))))))..)).)))))(((((((.(.((...--)).).))))))).--------.--................ ( -25.00)
>DroPer_CAF1 49958 94 + 1
ACACUCAUGUUGCCAGUCAUGUGGUUGGAUUCUAGUGUUGCACUUCAAGUUUG-GGCGUUAAGUGCACAGAGAGGGACGAGUGCGAGUAUUAAUU
.(((((......(((..(....)..))).((((..(((.((((((...((...-.))...))))))))).))))....)))))............ ( -24.70)
>consensus
GCACUCGAGGUGCCAGUCAUGUGGCUGGAUUCUAGUGUUGCACUUCAGGUUCC__GAGCUAAGUGCAUCGAGAGAGA__AGCGAAGGCAUUAAUU
(((((.(((...((((((....)))))).))).)))))(((((((..(((.......))))))))))............................ (-19.08 = -19.05 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:45 2006