Locus 1773

Sequence ID X_DroMel_CAF1
Location 4,889,668 – 4,889,774
Length 106
Max. P 0.685614
window2899

overview

Window 9

Location 4,889,668 – 4,889,774
Length 106
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 73.85
Mean single sequence MFE -20.77
Consensus MFE -8.00
Energy contribution -9.24
Covariance contribution 1.24
Combinations/Pair 1.18
Mean z-score -1.82
Structure conservation index 0.39
SVM decision value 0.32
SVM RNA-class probability 0.685614
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4889668 106 - 22224390
-CUCAAGAAA-ACGGUUUU--UUUUUUCGAUCUGUUGUCCGAAUGCAGAAACCGAAGGCGAAUCCCAAGUUCU----UAUGCGCCUUAUUUCU-UAAAAAUCUUUC--ACAUCUUCU
-...((((((-.(((((((--(...((((..(....)..))))...))))))))((((((.............----....)))))).)))))-)...........--......... ( -23.03)
>DroSec_CAF1 40869 107 - 1
-CUCAGGAAA-ACGGUUUU---CUUUUCGAUCUGUUGUUCGAAUGCAGAAACCGAAGGCGAAUC-CAAGUUCU----UGUGCGCCUUAUUUCUUUAAAAAUCUUUCUUUCAUCUUCU
-...((((((-.(((((((---...(((((........)))))....)))))))((((((....-(((....)----))..)))))).))))))....................... ( -25.00)
>DroSim_CAF1 41813 107 - 1
-CUCAGGAAA-ACGGUUUU---CUUUUCGAUCUGUUGUUCGAAUGCAGAAACCGAAGGCGAAUC-CAAGUUCU----UGUGCGCCUUAUUUCUUUAAAAAUCUUUCUUUCAUCUUCU
-...((((((-.(((((((---...(((((........)))))....)))))))((((((....-(((....)----))..)))))).))))))....................... ( -25.00)
>DroEre_CAF1 43691 101 - 1
-CUCAAGCAA-ACGGUUUU---AUUUUCGAUCUU---UCCGAGUGCAGAAACCGAAUGCGAAUC-CAAGUUCU----UAUGCCUCUUAUUUCUUU-AAAAUCUUUC--ACAUCUUCU
-.....(((.-.(((((((---...((((.....---..))))....)))))))..)))((((.-...)))).----..................-..........--......... ( -14.70)
>DroPer_CAF1 1589 105 - 1
UCUCAAGCUCUCAGGUACUCCUUUGUUCUUUCCUUUGGCCGAACGCCAAAACCGAACGCCAAUC-UGAGCCCGAACCAGUCCCUCUUCC--------UACUCCUCC--UC-CCUUCU
..((..((((..(((....)))..((((.....((((((.....))))))...)))).......-.))))..))...............--------.........--..-...... ( -16.10)
>consensus
_CUCAAGAAA_ACGGUUUU___CUUUUCGAUCUGUUGUCCGAAUGCAGAAACCGAAGGCGAAUC_CAAGUUCU____UGUGCGCCUUAUUUCUUUAAAAAUCUUUC__UCAUCUUCU
............(((((((......((((..........))))....)))))))((((((.....................)))))).............................. ( -8.00 =  -9.24 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:34 2006