Locus 2998

Sequence ID	2L_DroMel_CAF1
Location	8,559,320 – 8,559,421
Length	101
Max. P	0.823029

overview

Window 7

Location	8,559,320 – 8,559,421
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.10
Mean single sequence MFE	-24.97
Consensus MFE	-17.50
Energy contribution	-19.20
Covariance contribution	1.70
Combinations/Pair	1.04
Mean z-score	-2.29
Structure conservation index	0.70
SVM decision value	0.69
SVM RNA-class probability	0.823029
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8559320 101 + 22407834
-GUUGCCAAAAAUGGGGAAAAUGG--------AGGAAAGGAC----------GCUCCAAGUUGCGAAAACUUGAGCAACCACAAAAGAAUGAAAUUCAAGUUGCUGGGGCAACAUUAACU
-((((((.................--------..........----------((((.(((((.....)))))))))..((((((..((((...))))...))).)))))))))....... ( -25.70)
>DroSec_CAF1 68999 107 + 1
----GCCAAAAAUGU-GAAAAUGG--------AGGAAAGGACGACGCUCCAAGCUCCAAGUUGCGAAAACUUGAGCAACCACAAAAGAAUGAAAUUCAAGUUGCUGGGGCAACAUUAACU
----........(((-(....(((--------((............))))).((((.(((((.....)))))))))...))))...((((...))))..(((((....)))))....... ( -25.80)
>DroSim_CAF1 70313 110 + 1
-GUUGCCAAAAAUGU-GAAAAUGG--------AGGAAAGGACGACGCUCCAAGCUCCAAGUUGCGAAAACUUGAACAACCACAAAAGAAUGAAAUUCAAGUUGCUGGGGCAACAUUAACU
-((((((.....(((-.....(((--------((............))))).....((((((.....)))))).))).((((((..((((...))))...))).)))))))))....... ( -27.00)
>DroEre_CAF1 70589 99 + 1
-GUUGCCAAAAAUGU-GA-AAUGG--------AGGAAAGGAC----------GCUCCGAGCUGCGAAAACUUGAGCAACCACAAAAGAAUGAAAUUCAAGUUGCUGGGGCAACAUUAACU
-((((((........-..-..(((--------(((......)----------.))))).(((.(((....))))))..((((((..((((...))))...))).)))))))))....... ( -23.80)
>DroYak_CAF1 70202 107 + 1
-GUUGCCAAAAAUGG-GA-AAUGGAAACUGGGAGGAAAGGAC----------GCUCCAAGUUGCGAAAACUUGAGCAACCACAAAAGAAUGAAAUUCAAGUUGCUGGGGCAACAUUAACU
-((((((...(((..-((-(..(....)..........((..----------((((.(((((.....)))))))))..))..............)))..))).....))))))....... ( -27.10)
>DroAna_CAF1 53743 87 + 1
UGUUGCCAAAAAUUG--------A--------AAGAACGG-----------------AAGUUGCAAGAACUUGAGUCACCACAAAAGAAUGAAAUUCAAGUAGCUCGGGCAACAUUAACU
(((((((........--------.--------...(((..-----------------..)))((....((((((((...((........))..)))))))).))...)))))))...... ( -20.40)
>consensus
_GUUGCCAAAAAUGG_GA_AAUGG________AGGAAAGGAC__________GCUCCAAGUUGCGAAAACUUGAGCAACCACAAAAGAAUGAAAUUCAAGUUGCUGGGGCAACAUUAACU
.((((((.............................................((((.(((((.....)))))))))..((((((..((((...))))...))).)))))))))....... (-17.50 = -19.20 +   1.70)

alignment

secondary structure

dotplot

Window 8

Location	8,559,320 – 8,559,421
Length	101
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.10
Mean single sequence MFE	-23.55
Consensus MFE	-15.54
Energy contribution	-15.98
Covariance contribution	0.45
Combinations/Pair	1.14
Mean z-score	-2.05
Structure conservation index	0.66
SVM decision value	0.38
SVM RNA-class probability	0.714882
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8559320 101 - 22407834
AGUUAAUGUUGCCCCAGCAACUUGAAUUUCAUUCUUUUGUGGUUGCUCAAGUUUUCGCAACUUGGAGC----------GUCCUUUCCU--------CCAUUUUCCCCAUUUUUGGCAAC-
.......((((((...(((((((((...((((......))))....)))))))...))....(((((.----------(......)))--------)))..............))))))- ( -23.10)
>DroSec_CAF1 68999 107 - 1
AGUUAAUGUUGCCCCAGCAACUUGAAUUUCAUUCUUUUGUGGUUGCUCAAGUUUUCGCAACUUGGAGCUUGGAGCGUCGUCCUUUCCU--------CCAUUUUC-ACAUUUUUGGC----
..((((.(((((....)))))))))............(((((((((..........))))).(((((...(((......)))....))--------)))....)-)))........---- ( -22.90)
>DroSim_CAF1 70313 110 - 1
AGUUAAUGUUGCCCCAGCAACUUGAAUUUCAUUCUUUUGUGGUUGUUCAAGUUUUCGCAACUUGGAGCUUGGAGCGUCGUCCUUUCCU--------CCAUUUUC-ACAUUUUUGGCAAC-
.......((((((...(((((((((((.((((......))))..)))))))))...))....(((((...(((......)))....))--------))).....-........))))))- ( -29.00)
>DroEre_CAF1 70589 99 - 1
AGUUAAUGUUGCCCCAGCAACUUGAAUUUCAUUCUUUUGUGGUUGCUCAAGUUUUCGCAGCUCGGAGC----------GUCCUUUCCU--------CCAUU-UC-ACAUUUUUGGCAAC-
.......((((((...(((((((((...((((......))))....)))))))...)).....((((.----------(......)))--------))...-..-........))))))- ( -22.70)
>DroYak_CAF1 70202 107 - 1
AGUUAAUGUUGCCCCAGCAACUUGAAUUUCAUUCUUUUGUGGUUGCUCAAGUUUUCGCAACUUGGAGC----------GUCCUUUCCUCCCAGUUUCCAUU-UC-CCAUUUUUGGCAAC-
.......((((((...(((((((((...((((......))))....)))))))...))((((.((((.----------(......))))).))))......-..-........))))))- ( -24.70)
>DroAna_CAF1 53743 87 - 1
AGUUAAUGUUGCCCGAGCUACUUGAAUUUCAUUCUUUUGUGGUGACUCAAGUUCUUGCAACUU-----------------CCGUUCUU--------U--------CAAUUUUUGGCAACA
......(((((((((((..((((((...((((......))))....)))))).)))).(((..-----------------..)))...--------.--------........))))))) ( -18.90)
>consensus
AGUUAAUGUUGCCCCAGCAACUUGAAUUUCAUUCUUUUGUGGUUGCUCAAGUUUUCGCAACUUGGAGC__________GUCCUUUCCU________CCAUU_UC_ACAUUUUUGGCAAC_
.......((((((..(((((((.(((........)))...)))))))((((((.....)))))).................................................)))))). (-15.54 = -15.98 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:44 2006