Locus 3160

Sequence ID	3L_DroMel_CAF1
Location	9,193,052 – 9,193,191
Length	139
Max. P	0.993090

overview

Window 0

Location	9,193,052 – 9,193,155
Length	103
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	77.45
Mean single sequence MFE	-37.58
Consensus MFE	-20.80
Energy contribution	-21.58
Covariance contribution	0.78
Combinations/Pair	1.22
Mean z-score	-3.16
Structure conservation index	0.55
SVM decision value	2.37
SVM RNA-class probability	0.993090
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9193052 103 - 23771897
CUUGUUGUCCUCCAGCUCAGGCUUAGCUGC---UGAGCCUGAGGCUUC----------UAGUGAAGCAAAAGCUGGACCCUGGAAGCAACACUAACUGGUGACACAAACAAUAACA
.((((.(((..(((((((((((((((...)---))))))))))(((((----------(((.(.(((....)))...).))))))))........)))).)))))))......... ( -43.10)
>DroSec_CAF1 47737 103 - 1
CUUGUUGUCCUCCAGCUCGGGCUUAGCUGC---UGAGCCUGAGACUUA----------UAGUGAAGCCAAAGCAGGACCCUGGACACAACACUAACUGGUGACACGAACAAUAACA
.((((.(((..(((((((((((((((...)---)))))))))).....----------(((((..((....))((....))........))))).)))).)))))))......... ( -33.50)
>DroSim_CAF1 48193 103 - 1
CUUGUUGUCCUCCAGCUCGGGCUUAGCUGC---UGAGCCUGAGACUUC----------UACUGAAGCCAAAGCUGGACCCUGGACACAACACUAACUGGUGACACAAACAAUAACA
.(((((((((((((((((((((((((...)---)))))))))(.((((----------....)))).)...))))))....))))....((((....)))).....)))))..... ( -37.80)
>DroEre_CAF1 65126 103 - 1
CUUGUUGUCCUCCAGCUCGGGCUUAGCUGC---UGAGCCUGAGACUCC----------UGCUGAAGCUAAGGCUGGUCCCUGGAAACAGCUCUAACUGGUGACACAAACAAUAACA
.((((.(((..(((((((((((((((...)---))))))))))...((----------.(((........))).))...(((....)))......)))).)))))))......... ( -36.50)
>DroYak_CAF1 64146 113 - 1
CUUGUUGUCCUCCAGCUCGGGCUUAGCCGC---UGAGCCUGAGACUCCCAGUGACUCCCAGUGAAGCUAAAGCUGGACCCUACAACUUCGUCCAACUGGUGACACAAACAAUAACA
.(((((((.....(((((((((((((...)---)))))))))).))....(((..(((((((..(((....)))((((...........)))).))))).)))))..))))))).. ( -37.40)
>DroAna_CAF1 49595 103 - 1
CUUGUUGUCCUGCUGCUCG-GCUUAGCCCCCCCUGAGAAUCGGACUCA----------GACUGGGCUUUGGCCCGGACUCGGGGAGUA--UCUGUCUAGUGUCGCAAACAAGAAAA
((((((((..(((((..((-(.....((((..(((((.......))))----------).((((((....))))))....))))....--.)))..)))))..)).)))))).... ( -37.20)
>consensus
CUUGUUGUCCUCCAGCUCGGGCUUAGCUGC___UGAGCCUGAGACUCC__________UACUGAAGCUAAAGCUGGACCCUGGAAACAACACUAACUGGUGACACAAACAAUAACA
.(((((((..(((((((((((((((........)))))))))).....................(((....))).....)))))............((....))...))))))).. (-20.80 = -21.58 +   0.78)

alignment

secondary structure

dotplot

Window 1

Location	9,193,088 – 9,193,191
Length	103
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	80.99
Mean single sequence MFE	-36.53
Consensus MFE	-25.26
Energy contribution	-26.10
Covariance contribution	0.84
Combinations/Pair	1.26
Mean z-score	-2.02
Structure conservation index	0.69
SVM decision value	0.74
SVM RNA-class probability	0.836763
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9193088 103 - 23771897
UGCGUUUGGCCAGUAUAUUUCUUUCUGACAGCUGCACUUGUUGUCCUCCAGCUCAGGCUUAGCUGC---UGAGCCUGAGGCUUC----------UAGUGAAGCAAAAGCUGGACCC
.......(((((((............((((((.......))))))......(((((((((((...)---))))))))))(((((----------....)))))....))))).)). ( -40.50)
>DroSec_CAF1 47773 103 - 1
UGCGUUUGGCCAGUAUACUUCUUUCUGACAGCUGCACUUGUUGUCCUCCAGCUCGGGCUUAGCUGC---UGAGCCUGAGACUUA----------UAGUGAAGCCAAAGCAGGACCC
(((.((((((((.((((.........((((((.......))))))....(((((((((((((...)---)))))))))).))))----------)).))..)))))))))...... ( -37.50)
>DroSim_CAF1 48229 103 - 1
UGCGUUUGGCCAGUAUACUUCUUUCUGACAGCUGCACUUGUUGUCCUCCAGCUCGGGCUUAGCUGC---UGAGCCUGAGACUUC----------UACUGAAGCCAAAGCUGGACCC
.((.(((((((((((...........((((((.......))))))....(((((((((((((...)---)))))))))).))..----------)))))..))))))))....... ( -37.80)
>DroEre_CAF1 65162 103 - 1
UGCGUUUGGCCAGUAUACUACUUUCUGACAGCUGCACUUGUUGUCCUCCAGCUCGGGCUUAGCUGC---UGAGCCUGAGACUCC----------UGCUGAAGCUAAGGCUGGUCCC
.......(((((((....((.((((.((((((.......))))))....(((((((((((((...)---)))))))))).))..----------....)))).))..))))))).. ( -35.40)
>DroYak_CAF1 64182 113 - 1
UGCGUUUGGACAGUAUACUUCUUUCUGACAGCUGCACUUGUUGUCCUCCAGCUCGGGCUUAGCCGC---UGAGCCUGAGACUCCCAGUGACUCCCAGUGAAGCUAAAGCUGGACCC
...(((..(.(((...........)))..((((.((((.(..(((((..(((((((((((((...)---)))))))))).))...)).)))..).)))).))))....)..))).. ( -37.40)
>DroAna_CAF1 49629 97 - 1
UGCCUUUGGCCGGUAAACUU--------CAGCUGCACUUGUUGUCCUGCUGCUCG-GCUUAGCCCCCCCUGAGAAUCGGACUCA----------GACUGGGCUUUGGCCCGGACUC
.......(((((........--------((((.(.((.....)).).))))...(-(((.(((((...(((((.......))))----------)...)))))..))))))).)). ( -30.60)
>consensus
UGCGUUUGGCCAGUAUACUUCUUUCUGACAGCUGCACUUGUUGUCCUCCAGCUCGGGCUUAGCUGC___UGAGCCUGAGACUCC__________UACUGAAGCUAAAGCUGGACCC
.......(((((((...((((.....((((((.......))))))......((((((((((........))))))))))...................)))).....))))).)). (-25.26 = -26.10 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:03 2006