Locus 7094

Sequence ID	2L_DroMel_CAF1
Location	19,859,629 – 19,859,727
Length	98
Max. P	0.723160

overview

Window 9

Location	19,859,629 – 19,859,727
Length	98
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	81.47
Mean single sequence MFE	-31.07
Consensus MFE	-17.17
Energy contribution	-18.09
Covariance contribution	0.92
Combinations/Pair	1.15
Mean z-score	-1.94
Structure conservation index	0.55
SVM decision value	0.05
SVM RNA-class probability	0.559433
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19859629 98 + 22407834
UGAGAUCCCACUUC-CAGUUC-------CCAGUUCCGUGUUCCCAGUAACAAUAUCGGACCAAGGACCCCCAACGAGUCGGGGAAUUAGCUCCACUGAUAACUGGA
............((-(((((.-------.(((((((.((.(((..(((....))).))).)).))).((((........))))..........))))..))))))) ( -26.00)
>DroSec_CAF1 36427 92 + 1
UGAGAUCCCAGUUCC--------------CAGUUCCGUGUUCCCAGUAACAAUAUCGGAGCAAGGACCCCCAACCAGUCGGGGAAUUAGCUCCACUGAUAACUGGA
.......((((((..--------------(((((((.((((((..(((....))).)))))).))).((((........))))..........))))..)))))). ( -29.50)
>DroSim_CAF1 46010 99 + 1
UGAGAUCCCAGUUCCCAGCUC-------CCAGUUCCGUGUUCCCAGUAACAAUAUCGGAGCAAGGACCCCCAACCAGUCGGGGAAUUAGCUCCACUGAUAACUGGA
.......((((((..(((.((-------(..((((((((((......))))....))))))..))).((((........))))...........)))..)))))). ( -29.70)
>DroEre_CAF1 43631 103 + 1
GGAGAAUUCAGAGCUGAGAUCCCGGUUCCCAGUUCCAUG--CCCAGUAACGAAAUCGGACUGAGGACCC-CGGCCAGUCGGGGAAUUAGCUCCACUGAUAACUGGA
((((......((((((......))))))....))))...--.(((((...(....)(((((((...(((-(((....))))))..)))).))).......))))). ( -33.80)
>DroYak_CAF1 41597 103 + 1
CGAGAUCCCAGUUCCCAGUUACCAGUUCCCAGGUCCAUA--CCCAGUAACGAAAUCGGACCAAGGACCC-CGACCAGUCGGGGAAUUAGCUCCACUGAUAACUGGA
..............(((((((.(((((((..(((((...--...............)))))..)))(((-(((....))))))..........)))).))))))). ( -36.37)
>consensus
UGAGAUCCCAGUUCCCAGUUC_______CCAGUUCCGUGUUCCCAGUAACAAUAUCGGACCAAGGACCCCCAACCAGUCGGGGAAUUAGCUCCACUGAUAACUGGA
.......((((((..................((((((..................))))))...............((((((((......))).))))))))))). (-17.17 = -18.09 +   0.92)

alignment

secondary structure

dotplot

Window 0

Location	19,859,629 – 19,859,727
Length	98
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	81.47
Mean single sequence MFE	-37.56
Consensus MFE	-19.82
Energy contribution	-22.18
Covariance contribution	2.36
Combinations/Pair	1.17
Mean z-score	-2.20
Structure conservation index	0.53
SVM decision value	0.40
SVM RNA-class probability	0.723160
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19859629 98 - 22407834
UCCAGUUAUCAGUGGAGCUAAUUCCCCGACUCGUUGGGGGUCCUUGGUCCGAUAUUGUUACUGGGAACACGGAACUGG-------GAACUG-GAAGUGGGAUCUCA
(((((((..(((((((.((((.(((((((....)))))))...)))))))..........(((......))).)))).-------.)))))-))............ ( -34.00)
>DroSec_CAF1 36427 92 - 1
UCCAGUUAUCAGUGGAGCUAAUUCCCCGACUGGUUGGGGGUCCUUGCUCCGAUAUUGUUACUGGGAACACGGAACUG--------------GGAACUGGGAUCUCA
(((((((..(((((((((....(((((((....))))))).....)))))..........(((......))).))))--------------..)))))))...... ( -37.40)
>DroSim_CAF1 46010 99 - 1
UCCAGUUAUCAGUGGAGCUAAUUCCCCGACUGGUUGGGGGUCCUUGCUCCGAUAUUGUUACUGGGAACACGGAACUGG-------GAGCUGGGAACUGGGAUCUCA
(((((((..(((((((((....(((((((....))))))).....)))))......(((.(((......))))))...-------..))))..)))))))...... ( -39.00)
>DroEre_CAF1 43631 103 - 1
UCCAGUUAUCAGUGGAGCUAAUUCCCCGACUGGCCG-GGGUCCUCAGUCCGAUUUCGUUACUGGG--CAUGGAACUGGGAACCGGGAUCUCAGCUCUGAAUUCUCC
(((((((....(((.........(((((......))-)))..((((((.((....))..))))))--)))..)))))))....((((..(((....)))..)))). ( -32.00)
>DroYak_CAF1 41597 103 - 1
UCCAGUUAUCAGUGGAGCUAAUUCCCCGACUGGUCG-GGGUCCUUGGUCCGAUUUCGUUACUGGG--UAUGGACCUGGGAACUGGUAACUGGGAACUGGGAUCUCG
(((((((((((((..........((((((....)))-)))((((.((((((..((((....))))--..)))))).)))))))))))))))))............. ( -45.40)
>consensus
UCCAGUUAUCAGUGGAGCUAAUUCCCCGACUGGUUGGGGGUCCUUGGUCCGAUAUUGUUACUGGGAACACGGAACUGG_______GAACUGGGAACUGGGAUCUCA
(((((((.((((((((.(....(((((((....))))))).....).)))......(((.(((......))))))............))))).)))))))...... (-19.82 = -22.18 +   2.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:24 2006