Locus 4596

Sequence ID	X_DroMel_CAF1
Location	12,041,620 – 12,041,714
Length	94
Max. P	0.900581

overview

Window 8

Location	12,041,620 – 12,041,714
Length	94
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	71.53
Mean single sequence MFE	-15.48
Consensus MFE	-5.07
Energy contribution	-7.35
Covariance contribution	2.28
Combinations/Pair	1.08
Mean z-score	-2.30
Structure conservation index	0.33
SVM decision value	1.01
SVM RNA-class probability	0.900581
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12041620 94 + 22224390
AAAACCUUGAAUUGAAAAAUUCGCAAA-A----------CAAAAAUAUGCCUGCAAAGAUAUGUGCAAGUUGCACUGUUCAA--AAAUAGGGGC-A------UAAACUAAAGGA
....(((((((((....))))).....-.----------......(((((((.....((...((((.....))))...))..--......))))-)------)).....)))). ( -22.02)
>DroPse_CAF1 176340 96 + 1
AAAACCUUGAAUUGAAAAAUUCCAAAAAAAAAGAAACCAAAAAAAUAUGCCUGCAAAAAUAUGUAUCUGUAGAUGUGU---A--AAGGAGGAGU-A------U---CUGUA---
....(((((((((....)))))......................((((..(((((............)))))..))))---.--...))))...-.------.---.....--- ( -13.20)
>DroSec_CAF1 73622 94 + 1
AAAACCUUGAAUUGAAAAAUUCCCAAA-A----------CAAAAAUAUGCCUGCAAAAAUAUGUGCAAAUUGCACUGCCCAA--AAAUAGGGUC-A------UAAACUAAAGAA
.....((((((((....))))).....-.----------......(((((((..........((((.....)))).......--.....))).)-)------)).....))).. ( -14.45)
>DroEre_CAF1 71094 97 + 1
AAAACCUUGAAUUGAAAAAUUCCCUAA-A----------CAUAAAUAUGCCCGCAAAAAUAUGUGCAGCUUGCACUGACCAAAAAAAUAGGGGAGG------AAAACUAUAGGA
....(((((((((....)))))((((.-.----------........((....)).......((((.....))))............)))).))))------............ ( -16.60)
>DroYak_CAF1 73256 102 + 1
AAAACCUUGAAUUGAAAAAUUCCCAAA-A----------CAAAAAUAUGCCUGCAAAAAUAUGUGCAAAUUGCACUGGCCAGA-AAAUAGGAGACUCAAACAAAAAAUUCAAAA
......(((((((..............-.----------.........(((...........((((.....)))).)))....-....((....)).........))))))).. ( -13.40)
>DroPer_CAF1 182222 95 + 1
AAAACCUUGAAUUGAAAAAUUCCAAAA-AAAAGAAACCAAAAAAAUAUGCCUGCAAAAAUAUGUAUCUGUAGAUGUGU---A--AAGGAGGAGU-A------U---CUGUA---
....(((((((((....))))).....-................((((..(((((............)))))..))))---.--...))))...-.------.---.....--- ( -13.20)
>consensus
AAAACCUUGAAUUGAAAAAUUCCCAAA_A__________CAAAAAUAUGCCUGCAAAAAUAUGUGCAAGUUGCACUGUCCAA__AAAUAGGAGA_A______UAAACUAUAG_A
....(((.(((((....)))))........................................((((.....)))).............)))....................... ( -5.07 =  -7.35 +   2.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:02 2006