Locus 6381

Sequence ID	X_DroMel_CAF1
Location	16,027,473 – 16,027,631
Length	158
Max. P	0.934681

overview

Window 5

Location	16,027,473 – 16,027,593
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.83
Mean single sequence MFE	-25.90
Consensus MFE	-17.80
Energy contribution	-17.84
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-1.77
Structure conservation index	0.69
SVM decision value	0.01
SVM RNA-class probability	0.540654
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16027473 120 - 22224390
UGCUGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCACAUUAAUGACAAAAGGUUCCCAAAAAAAUAAGAGGGUGAAAUAAAGUUGUCAAAAAGUUAA
.((((((((..((((..((((.......))))..))))....))))))))...............((((((...((((((............)))...)))....))))))......... ( -28.50)
>DroSec_CAF1 95050 117 - 1
UGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCAUAUUAAUGACAAAAGAUCCC--AAAAAA-AAGAGACUGAAAUAAAGUUGUCAAAAAGUUAA
.....((((((((((..((((.......))))..))).....((..(((((((...((((....)))).....(....)--......-..)))))))..))...)))))))......... ( -23.30)
>DroSim_CAF1 89260 119 - 1
UGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCAUAUUAAUGACAAAAGAUCCCCAAAAAAA-AAUAGACUGAAAUAAAGUUGUCAAAAAGUUAA
....(((((..((((..((((.......))))..))))....)))))..................((((....(.....).......-....((((.......))))))))......... ( -19.40)
>DroEre_CAF1 95777 116 - 1
UGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGCUGGGCACAGUCGCAGUUUCAUUUCAUAUUAAUGACAA-AAAGCUGCAAAGAAA--AAA-GGGCAAGUAAAGUUGUCAAAAUGUUAC
.....((((((((.....(((((.((((...(((((....)))))(((((((....((((....))))...-.)))))))...))))--...-))))).....))))))))......... ( -33.20)
>DroYak_CAF1 78307 112 - 1
UGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUCUCAUAUUAAUGACACAAGAUCUACA-----A--AAA-GGCGAAAUAAUGUUGUCAAAAUGUUAA
.((((((((..((((..((((.......))))..))))....))))).((.((((.........)))).))..........-----.--...-)))....(((((((.....))))))). ( -25.10)
>consensus
UGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCAUAUUAAUGACAAAAGAUCCCCAAAAAAA_AAAAGGGUGAAAUAAAGUUGUCAAAAAGUUAA
....(((((..((((..((((.......))))..))))....)))))..................((((((..................................))))))......... (-17.80 = -17.84 +   0.04)

alignment

secondary structure

dotplot

Window 6

Location	16,027,513 – 16,027,631
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.05
Mean single sequence MFE	-30.08
Consensus MFE	-25.32
Energy contribution	-25.00
Covariance contribution	-0.32
Combinations/Pair	1.18
Mean z-score	-1.73
Structure conservation index	0.84
SVM decision value	1.24
SVM RNA-class probability	0.934681
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16027513 118 - 22224390
UUCCGGAUUUUAAUAACAAGUGAGGCCUGACAUCA--CGCUGCUGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCACAUUAAUGACAAAAGGUUCCC
....(((..(((((...(((((((((.((....))--.)))((((((((..((((..((((.......))))..))))....)))))))).))))))...)))))...........))). ( -28.72)
>DroSec_CAF1 95088 119 - 1
UUCCGGAUUUUAAUAACAAGUGAGGCCUGACAUCACACGCUGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCAUAUUAAUGACAAAAGAUCCC-
....(((((((.......((((((((.(((((((((........)))))..((((..((((.......))))..))))....))))..))))))))((((....))))...))))))).- ( -32.30)
>DroSim_CAF1 89299 120 - 1
UUCCGGAUUUUAAUAACAAGUGAGGCCUGACAUCACACGCUGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCAUAUUAAUGACAAAAGAUCCCC
....(((((((.......((((((((.(((((((((........)))))..((((..((((.......))))..))))....))))..))))))))((((....))))...))))))).. ( -32.30)
>DroEre_CAF1 95814 117 - 1
UUCCGGAUUUUAAUAACAAGUGAGGCCUGACAUCA--UGCUGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGCUGGGCACAGUCGCAGUUUCAUUUCAUAUUAAUGACAA-AAAGCUGC
....((.(((((........))))))).(((((((--((....))))))..((((..((((.......))))..))))....)))(((((((....((((....))))...-.))))))) ( -27.50)
>DroYak_CAF1 78339 118 - 1
UUCCGGAUUUUAAUAACAAGUGAGGCCUGACAUCA--UGCUGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUCUCAUAUUAAUGACACAAGAUCUAC
....(((((((........(((((((.((((((((--((....))))))..((((..((((.......))))..))))....))))..))))))).((((....))))...))))))).. ( -29.60)
>consensus
UUCCGGAUUUUAAUAACAAGUGAGGCCUGACAUCA__CGCUGCCGUGAUAACUCAUUCUGCUCAUUUCGCAGGUUGAGCAAAGUCGCAGUUUCAUUUCAUAUUAAUGACAAAAGAUCCCC
....(((((((.......((((((((.((((......(((....)))....((((..((((.......))))..))))....))))..))))))))((((....))))...))))))).. (-25.32 = -25.00 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:16 2006