Locus 5300

Sequence ID	2L_DroMel_CAF1
Location	14,943,938 – 14,944,045
Length	107
Max. P	0.996942

overview

Window 5

Location	14,943,938 – 14,944,045
Length	107
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	85.59
Mean single sequence MFE	-25.36
Consensus MFE	-22.54
Energy contribution	-22.62
Covariance contribution	0.08
Combinations/Pair	1.09
Mean z-score	-2.57
Structure conservation index	0.89
SVM decision value	2.77
SVM RNA-class probability	0.996942
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14943938 107 + 22407834
UGAAUAAGUGUGCUGAAGUGUGCCAAGUGAGCAGACUAACACUUAUUCAAACAUACACACUCAGACCCCUACACUGAUAAAAACAUCCUUAUUUGUAUGUCAUACUU-
(((((((((((.....(((.((((....).))).))).))))))))))).(((((((...((((.........))))(((........)))..))))))).......- ( -24.70)
>DroSec_CAF1 39391 106 + 1
UGAAUAAGUGUGCUGAAGUGUGCCAAGUGAGCAGACUAACACUUAUUCAAACAUACACACUCAGGACGCAACACUGAGAAAAAUUAUCUU--UUGAAUUUUAUGCAUU
(((((((((((.....(((.((((....).))).))).)))))))))))..((((....(((((.........)))))........((..--..))....)))).... ( -25.90)
>DroSim_CAF1 38527 105 + 1
UGAAUAAGUGUGCUGAAGUGUGCCAAGUGAGCAGACUAACACUUAUUCAAACAUACACACUCAGACCCCAACACUGAGAAAAACUAUCUU--GUGAAUUUUAUGCUU-
(((((((((((.....(((.((((....).))).))).)))))))))))......(((((((((.........)))))...........)--)))............- ( -25.10)
>DroEre_CAF1 51603 104 + 1
UGAAUAAGUGUGCUGAAGUGUGCCAAGUGAGCAGACUAACGCUUAUUCAAACAUACACACUCA-ACCCCUGCACUGAGCAAAACUACUCU--UUGUAUUUUAUACCA-
(((((((((((.....(((.((((....).))).))).)))))))))))..............-.....((((..(((........))).--.))))..........- ( -23.70)
>DroYak_CAF1 49289 104 + 1
UGAAUAAGUGUGCUGAAGUGUGCCAAGUGAGCAGACUAACACUUAUUCGAACAUACACACUCAGACGCCUACACUGAGAAAAGCUUAUCU--GUU-UUCGUAUACCA-
.((((((((((.....(((.((((....).))).))).))))))))))....((((...(((((.........))))).(((((......--)))-)).))))....- ( -27.40)
>consensus
UGAAUAAGUGUGCUGAAGUGUGCCAAGUGAGCAGACUAACACUUAUUCAAACAUACACACUCAGACCCCUACACUGAGAAAAACUACCUU__UUGAAUUUUAUACCU_
(((((((((((.....(((.((((....).))).))).)))))))))))..........(((((.........))))).............................. (-22.54 = -22.62 +   0.08)

alignment

secondary structure

dotplot

Window 6

Location	14,943,938 – 14,944,045
Length	107
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	85.59
Mean single sequence MFE	-27.16
Consensus MFE	-19.30
Energy contribution	-19.90
Covariance contribution	0.60
Combinations/Pair	1.15
Mean z-score	-1.68
Structure conservation index	0.71
SVM decision value	0.08
SVM RNA-class probability	0.574690
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14943938 107 - 22407834
-AAGUAUGACAUACAAAUAAGGAUGUUUUUAUCAGUGUAGGGGUCUGAGUGUGUAUGUUUGAAUAAGUGUUAGUCUGCUCACUUGGCACACUUCAGCACACUUAUUCA
-......((((((((.....((((.(((..........))).)))).....))))))))(((((((((((.(((.((((.....)))).))).....))))))))))) ( -29.00)
>DroSec_CAF1 39391 106 - 1
AAUGCAUAAAAUUCAA--AAGAUAAUUUUUCUCAGUGUUGCGUCCUGAGUGUGUAUGUUUGAAUAAGUGUUAGUCUGCUCACUUGGCACACUUCAGCACACUUAUUCA
.(((((((....((..--..))........(((((.(......)))))))))))))...(((((((((((.(((.((((.....)))).))).....))))))))))) ( -26.00)
>DroSim_CAF1 38527 105 - 1
-AAGCAUAAAAUUCAC--AAGAUAGUUUUUCUCAGUGUUGGGGUCUGAGUGUGUAUGUUUGAAUAAGUGUUAGUCUGCUCACUUGGCACACUUCAGCACACUUAUUCA
-(((((((.....(((--(...(((....((((......)))).)))..)))))))))))((((((((((.(((.((((.....)))).))).....)))))))))). ( -26.80)
>DroEre_CAF1 51603 104 - 1
-UGGUAUAAAAUACAA--AGAGUAGUUUUGCUCAGUGCAGGGGU-UGAGUGUGUAUGUUUGAAUAAGCGUUAGUCUGCUCACUUGGCACACUUCAGCACACUUAUUCA
-..((((...))))..--.((((((((((((.....))))))((-(((((((((.....(((.((..(....)..)).)))....)))))).)))))....)))))). ( -25.00)
>DroYak_CAF1 49289 104 - 1
-UGGUAUACGAA-AAC--AGAUAAGCUUUUCUCAGUGUAGGCGUCUGAGUGUGUAUGUUCGAAUAAGUGUUAGUCUGCUCACUUGGCACACUUCAGCACACUUAUUCA
-..(((((((..-..(--((((..((((..(.....).)))))))))..)))))))....((((((((((.(((.((((.....)))).))).....)))))))))). ( -29.00)
>consensus
_AAGUAUAAAAUACAA__AAGAUAGUUUUUCUCAGUGUAGGGGUCUGAGUGUGUAUGUUUGAAUAAGUGUUAGUCUGCUCACUUGGCACACUUCAGCACACUUAUUCA
...................(((((......(((((.........)))))......)))))((((((((((.(((.((((.....)))).))).....)))))))))). (-19.30 = -19.90 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:52 2006