Locus 463

Sequence ID	2L_DroMel_CAF1
Location	1,357,143 – 1,357,238
Length	95
Max. P	0.940086

overview

Window 5

Location	1,357,143 – 1,357,238
Length	95
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	93.23
Mean single sequence MFE	-23.96
Consensus MFE	-20.14
Energy contribution	-20.38
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.67
Structure conservation index	0.84
SVM decision value	1.08
SVM RNA-class probability	0.911136
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1357143 95 + 22407834
ACGUUUGCAACAUAUUGUUGCUGGUCAGCCAAGUGGGAAUUCCCCUAACCAAGCC--AAAAAAAAAGGAAGGUAAUUCGUUAAAUCCUUUGGUUGAG
......(((((.....)))))...((((((.((.(((....))))).........--......((((((...(((....)))..)))))))))))). ( -24.40)
>DroSec_CAF1 114285 93 + 1
ACGUUUGCAACAUAUUGUUGCUGGUCAGCCAAGUGGGAAUUCCCCUAACCAAGCC--AAAA--AAAGGAAGUUAAUUCGUUAAAUCCUUUGGUUGAG
......(((((.....)))))...((((((.((.(((....))))).........--....--((((((..((((....)))).)))))))))))). ( -24.80)
>DroSim_CAF1 118668 93 + 1
ACGUUUGCAACAUAUUGUUGCUGGUCAGCCAAGUGGGAAUUCCCCUAACCAAGCC--AAAA--AAAGGAAGUUAAUUCGUUAAAUCCUUUGGUUGAG
......(((((.....)))))...((((((.((.(((....))))).........--....--((((((..((((....)))).)))))))))))). ( -24.80)
>DroEre_CAF1 132690 93 + 1
ACGUUUGCAACAUAUUGUUGCUGGUCAGCCAAGUGGGAAUUUCCCUAACCAGUCC--AAAA--AAAGGAAGUAAAUUCGUUGAAUCCUUUGGUUGCG
......(((((...(((..((((((.........(((.....)))..)))))).)--))..--((((((..(((.....)))..)))))).))))). ( -22.90)
>DroYak_CAF1 117456 95 + 1
ACGUUUGCAACAUAUUGUUGCUGGUCAGCCAAGUGGGAAUUCCCCUAACCAAGCCACAAAA--AAAGAAAGCAAAUUCAUGCAAUCCUUUGGUUGAG
......(((((.....)))))...(((((((((.(((....)))))...............--.......(((......))).......))))))). ( -22.90)
>consensus
ACGUUUGCAACAUAUUGUUGCUGGUCAGCCAAGUGGGAAUUCCCCUAACCAAGCC__AAAA__AAAGGAAGUUAAUUCGUUAAAUCCUUUGGUUGAG
......(((((.....)))))...((((((.((.(((....))))).................((((((...............)))))))))))). (-20.14 = -20.38 +   0.24)

alignment

secondary structure

dotplot

Window 6

Location	1,357,143 – 1,357,238
Length	95
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	93.23
Mean single sequence MFE	-24.57
Consensus MFE	-19.76
Energy contribution	-19.80
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-2.04
Structure conservation index	0.80
SVM decision value	1.31
SVM RNA-class probability	0.940086
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1357143 95 - 22407834
CUCAACCAAAGGAUUUAACGAAUUACCUUCCUUUUUUUUU--GGCUUGGUUAGGGGAAUUCCCACUUGGCUGACCAGCAACAAUAUGUUGCAAACGU
.......((((((...............)))))).....(--((.(..((((((((.....)).))))))..))))(((((.....)))))...... ( -23.56)
>DroSec_CAF1 114285 93 - 1
CUCAACCAAAGGAUUUAACGAAUUAACUUCCUUU--UUUU--GGCUUGGUUAGGGGAAUUCCCACUUGGCUGACCAGCAACAAUAUGUUGCAAACGU
.((((..((((((.((((....))))..))))))--..))--))..((((((((((....)))......)))))))(((((.....)))))...... ( -24.40)
>DroSim_CAF1 118668 93 - 1
CUCAACCAAAGGAUUUAACGAAUUAACUUCCUUU--UUUU--GGCUUGGUUAGGGGAAUUCCCACUUGGCUGACCAGCAACAAUAUGUUGCAAACGU
.((((..((((((.((((....))))..))))))--..))--))..((((((((((....)))......)))))))(((((.....)))))...... ( -24.40)
>DroEre_CAF1 132690 93 - 1
CGCAACCAAAGGAUUCAACGAAUUUACUUCCUUU--UUUU--GGACUGGUUAGGGAAAUUCCCACUUGGCUGACCAGCAACAAUAUGUUGCAAACGU
.(((((.((((((...............))))))--..((--(..((((((((((.....))).......)))))))...)))...)))))...... ( -22.57)
>DroYak_CAF1 117456 95 - 1
CUCAACCAAAGGAUUGCAUGAAUUUGCUUUCUUU--UUUUGUGGCUUGGUUAGGGGAAUUCCCACUUGGCUGACCAGCAACAAUAUGUUGCAAACGU
..(((..((((((..(((......)))..)))))--).)))(((.(..((((((((.....)).))))))..))))(((((.....)))))...... ( -27.90)
>consensus
CUCAACCAAAGGAUUUAACGAAUUAACUUCCUUU__UUUU__GGCUUGGUUAGGGGAAUUCCCACUUGGCUGACCAGCAACAAUAUGUUGCAAACGU
.......((((((...............))))))............((((((((((....)))......)))))))(((((.....)))))...... (-19.76 = -19.80 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:48 2006