Locus 3724

Sequence ID 3L_DroMel_CAF1
Location 10,790,796 – 10,790,912
Length 116
Max. P 0.928730
window5817 window5818

overview

Window 7

Location 10,790,796 – 10,790,912
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.98
Mean single sequence MFE -29.13
Consensus MFE -23.87
Energy contribution -23.98
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.27
Structure conservation index 0.82
SVM decision value 0.25
SVM RNA-class probability 0.653340
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10790796 116 + 23771897
ACCGCCCACAAAUCGAA--ACCGAA-AAAGGUUUCGGGCUA-AAUUAAAUGAAACGUUGAUAAGGCGCAAAAGGGCGCACUAAACGAUUAAAUCGACUGAGCGAGCAAAUGAGAGAGUGG
..(((((.....(((((--(((...-...))))))))(((.-.(((((........)))))..)))......)))))((((...........(((......)))...........)))). ( -30.85)
>DroYak_CAF1 143870 115 + 1
-GCGCCCACAAAUCGAA--ACCGAA-AAAGGUUUCGGGCUA-AAUUAAAUGAAACGUUGAUAAGGCGCAAAAGGGCGCACUAAACGAUUAAAUCGACUGAGCGAGCAAAUGAGAGAGUGG
-((((((.....(((((--(((...-...))))))))(((.-.(((((........)))))..)))......))))))(((...........(((......)))...........))).. ( -32.15)
>DroAna_CAF1 125779 118 + 1
GCCGCCCACAAAUCGAAAAACCGAAAAAAGGUUUCGGGCCAAAAUUAAAUGAAACGUUGAUAAGGCACAAAAGGGCGCACUAAACGGUUAAAUCGAAUGAGCGAGCAAAUGAGAGAGU--
(((((((.............((((((.....))))))(((...(((((........)))))..)))......))))).......((.(((.......))).)).))............-- ( -24.40)
>consensus
_CCGCCCACAAAUCGAA__ACCGAA_AAAGGUUUCGGGCUA_AAUUAAAUGAAACGUUGAUAAGGCGCAAAAGGGCGCACUAAACGAUUAAAUCGACUGAGCGAGCAAAUGAGAGAGUGG
..(((((.....(((((..(((.......))))))))(((...(((((........)))))..)))......)))))((((...........(((......)))...........)))). (-23.87 = -23.98 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,790,796 – 10,790,912
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.98
Mean single sequence MFE -28.70
Consensus MFE -26.25
Energy contribution -26.37
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.40
Structure conservation index 0.91
SVM decision value 1.19
SVM RNA-class probability 0.928730
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10790796 116 - 23771897
CCACUCUCUCAUUUGCUCGCUCAGUCGAUUUAAUCGUUUAGUGCGCCCUUUUGCGCCUUAUCAACGUUUCAUUUAAUU-UAGCCCGAAACCUUU-UUCGGU--UUCGAUUUGUGGGCGGU
............((((((((..((((((......((((.((.((((......))))))....))))............-....((((((....)-))))).--.)))))).)))))))). ( -29.30)
>DroYak_CAF1 143870 115 - 1
CCACUCUCUCAUUUGCUCGCUCAGUCGAUUUAAUCGUUUAGUGCGCCCUUUUGCGCCUUAUCAACGUUUCAUUUAAUU-UAGCCCGAAACCUUU-UUCGGU--UUCGAUUUGUGGGCGC-
..............((((((..((((((......((((.((.((((......))))))....))))............-....((((((....)-))))).--.)))))).))))))..- ( -28.80)
>DroAna_CAF1 125779 118 - 1
--ACUCUCUCAUUUGCUCGCUCAUUCGAUUUAACCGUUUAGUGCGCCCUUUUGUGCCUUAUCAACGUUUCAUUUAAUUUUGGCCCGAAACCUUUUUUCGGUUUUUCGAUUUGUGGGCGGC
--............((.(((((((((((...(((((...((.((((......))))))......((..(((........)))..))...........)))))..))))...))))))))) ( -28.00)
>consensus
CCACUCUCUCAUUUGCUCGCUCAGUCGAUUUAAUCGUUUAGUGCGCCCUUUUGCGCCUUAUCAACGUUUCAUUUAAUU_UAGCCCGAAACCUUU_UUCGGU__UUCGAUUUGUGGGCGG_
.............(((((((..((((((......((((.((.((((......))))))....)))).................(((((.......)))))....)))))).))))))).. (-26.25 = -26.37 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:14 2006