Locus 5314

Sequence ID	2L_DroMel_CAF1
Location	15,029,202 – 15,029,298
Length	96
Max. P	0.913417

overview

Window 5

Location	15,029,202 – 15,029,298
Length	96
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	81.62
Mean single sequence MFE	-30.16
Consensus MFE	-20.83
Energy contribution	-20.75
Covariance contribution	-0.08
Combinations/Pair	1.17
Mean z-score	-2.82
Structure conservation index	0.69
SVM decision value	1.09
SVM RNA-class probability	0.913417
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15029202 96 + 22407834
AGACUCCGGGAAUCAAACCAGA-----------GAAUUUUGUCCUUCUCGACA--GGAUAAUCGGUUUGGUUCCCAAAUAUGUUAGCUAAGUUAGCUUUAGGCACUUUG
.....((((((((((((((.((-----------..((((((((......))))--))))..))))))))))))))......((((((...))))))....))....... ( -33.50)
>DroSec_CAF1 23188 96 + 1
AGACUCCGGGAAUCAAACUAGG-----------UCAUUUUGUCCUUCUCGGCA--GGAUAAUCGGUUUGGUUCCCAAAUAUGUUAGCUAAGUUAGCUUUAGGCACUUUG
.....((((((((((((((.((-----------(.((((((((......))))--)))).)))))))))))))))......((((((...))))))....))....... ( -31.00)
>DroSim_CAF1 25652 96 + 1
AGACUCCGGGAAUCAAACUAGG-----------GAAUCUUGUCCUUCUCGACA--GGAUAAUCGGUUUGGUUCCCAAAUAUGUUAGCUAAGUUAGCUUUAGGCACUUUG
.....((((((((((((((.((-----------..((((((((......))))--))))..))))))))))))))......((((((...))))))....))....... ( -33.10)
>DroEre_CAF1 24451 95 + 1
AGACUCCGGGAAUCAAACCAUG-----------GAACACUGUCCUUCUCGACA--GGAUAAUCGGUUUGGUUCCCA-AUAUGUUAGCUAAGUUAGCUUUAGGCACUUUA
.....((((((((((((((...-----------.....(((((......))))--).......)))))))))))).-....((((((...))))))....))....... ( -30.26)
>DroYak_CAF1 25822 95 + 1
AGACUCCGGGAAUCAAACCAUG-----------GAACUCUGUCCUUCUCGACA--GGAUAAUCGGUUUGGUUCCCA-AUAUGUUAGCUAAGUUAGCUUUAGGCACUUUG
.....((((((((((((((...-----------....((((((......))))--))......)))))))))))).-....((((((...))))))....))....... ( -30.12)
>DroAna_CAF1 22226 103 + 1
AGACUUCAGGAACCAAACUUUACUGUGUGUACAUCUCUCAGACCUCCUCAGCGAGGGGGACUCGGC-UGAUUCCU-----UAUUAGCUAAGUUAGCUUUAGAAACUUUG
....(((...............(((.(.(.....).).))).(((((((...)))))))(((..((-((((....-----.))))))..)))........)))...... ( -23.00)
>consensus
AGACUCCGGGAAUCAAACCAGG___________GAACUCUGUCCUUCUCGACA__GGAUAAUCGGUUUGGUUCCCA_AUAUGUUAGCUAAGUUAGCUUUAGGCACUUUG
.....((((((((((((((.....................(((......)))....(.....))))))))))))).........(((((...)))))...))....... (-20.83 = -20.75 +  -0.08)

alignment

secondary structure

dotplot

Window 6

Location	15,029,202 – 15,029,298
Length	96
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	81.62
Mean single sequence MFE	-25.65
Consensus MFE	-15.30
Energy contribution	-15.13
Covariance contribution	-0.16
Combinations/Pair	1.18
Mean z-score	-1.84
Structure conservation index	0.60
SVM decision value	0.01
SVM RNA-class probability	0.539831
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15029202 96 - 22407834
CAAAGUGCCUAAAGCUAACUUAGCUAACAUAUUUGGGAACCAAACCGAUUAUCC--UGUCGAGAAGGACAAAAUUC-----------UCUGGUUUGAUUCCCGGAGUCU
............(((((...)))))......((((((((.(((((((((.....--.)))(((((........)))-----------)).)))))).)))))))).... ( -28.30)
>DroSec_CAF1 23188 96 - 1
CAAAGUGCCUAAAGCUAACUUAGCUAACAUAUUUGGGAACCAAACCGAUUAUCC--UGCCGAGAAGGACAAAAUGA-----------CCUAGUUUGAUUCCCGGAGUCU
............(((((...)))))......((((((((.(((((...((((..--((((.....)).))..))))-----------....))))).)))))))).... ( -21.30)
>DroSim_CAF1 25652 96 - 1
CAAAGUGCCUAAAGCUAACUUAGCUAACAUAUUUGGGAACCAAACCGAUUAUCC--UGUCGAGAAGGACAAGAUUC-----------CCUAGUUUGAUUCCCGGAGUCU
............(((((...)))))......((((((((.(((((.....(((.--((((......)))).)))..-----------....))))).)))))))).... ( -24.10)
>DroEre_CAF1 24451 95 - 1
UAAAGUGCCUAAAGCUAACUUAGCUAACAUAU-UGGGAACCAAACCGAUUAUCC--UGUCGAGAAGGACAGUGUUC-----------CAUGGUUUGAUUCCCGGAGUCU
...((..((...(((((...))))).......-.(((((.(((((((...(..(--((((......)))))..)..-----------..))))))).)))))))...)) ( -28.20)
>DroYak_CAF1 25822 95 - 1
CAAAGUGCCUAAAGCUAACUUAGCUAACAUAU-UGGGAACCAAACCGAUUAUCC--UGUCGAGAAGGACAGAGUUC-----------CAUGGUUUGAUUCCCGGAGUCU
...((..((...(((((...))))).......-.(((((.(((((((...(..(--((((......)))))..)..-----------..))))))).)))))))...)) ( -28.30)
>DroAna_CAF1 22226 103 - 1
CAAAGUUUCUAAAGCUAACUUAGCUAAUA-----AGGAAUCA-GCCGAGUCCCCCUCGCUGAGGAGGUCUGAGAGAUGUACACACAGUAAAGUUUGGUUCCUGAAGUCU
...((((((...(((((...)))))....-----((((((((-(.(.((.((.((((...)))).)).))........(((.....)))..).))))))))))))).)) ( -23.70)
>consensus
CAAAGUGCCUAAAGCUAACUUAGCUAACAUAU_UGGGAACCAAACCGAUUAUCC__UGUCGAGAAGGACAAAAUUC___________CAUAGUUUGAUUCCCGGAGUCU
.......((...(((((...))))).........(((((.(((((((((........)))).(.....)......................))))).)))))))..... (-15.30 = -15.13 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:11 2006