Locus 7054

Sequence ID	3L_DroMel_CAF1
Location	19,112,816 – 19,112,932
Length	116
Max. P	0.994747

overview

Window 7

Location	19,112,816 – 19,112,932
Length	116
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	89.08
Mean single sequence MFE	-34.50
Consensus MFE	-23.40
Energy contribution	-23.08
Covariance contribution	-0.32
Combinations/Pair	1.17
Mean z-score	-2.02
Structure conservation index	0.68
SVM decision value	-0.05
SVM RNA-class probability	0.508957
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19112816 116 + 23771897
GGAUGUGAUGAGGCAGAAAUUAAUUCAAGACAAUUGCUCACUUGAAAUGC-AGUCAAAAUGGAGGCUGCCA--AGCCACCCAUCAAGUUGGGUCUCUACCCAUCGCUGACUGGGAUAAU
...........(((.........((((((...........))))))..((-((((........))))))..--.))).(((((((.(.(((((....))))).)..))).))))..... ( -32.70)
>DroSec_CAF1 346 116 + 1
GGAUGUGAUGAGGCAGAAAUUAAUUCAAGACAAUUGCUCACUUGAAACGC-AGUCAAAAUGGAGGCUGCCA--AGCCACCCAUCAAGUUGGGUGUCUACCCAUCGCUGACUGGGAUAAU
....((((((.((.(((......((((((...........))))))..((-((((........))))))..--...((((((......))))))))).))))))))............. ( -34.10)
>DroSim_CAF1 1258 116 + 1
GGAUGUGAUGAGGCAGAAAUUAAUUCAAGACAAUUGCUCACUUGAAACGC-AGUCAAAAUGGAGGCUGCCA--AGCCACCCAUCAAGUUGGGUGUCUACCCAUCGCUGACUGGGAUAAU
....((((((.((.(((......((((((...........))))))..((-((((........))))))..--...((((((......))))))))).))))))))............. ( -34.10)
>DroYak_CAF1 1384 116 + 1
GGAUGUGAUGAGGCAGAAAUUAAUUCAAGACAAUUGCUCACUUGAAACGC-AGUCAAAAUGGAGGCUGCAA--AGCCACCCAUCAAGUUGGCUCUCUACCCAUCAUUGACUGGGGCAAU
...(((.....(((.........((((((...........))))))..((-((((........))))))..--.))).((((((((..(((........)))...)))).))))))).. ( -31.90)
>DroAna_CAF1 383 111 + 1
GGAUGUGAUGGGGCAGGAAUUAAUUCAAGACAAUUGCUCACUUGAAACGAAAGUCAAAAUGGUGGUUGCUGAGAGCCACCCAUCAAGUG----UCCUGCCCAUCUCCCACU----UAAU
(((...((((((.(((((.......(((.....)))..(((((((.((....))......(((((((......)))))))..)))))))----))))))))))))))....----.... ( -39.70)
>consensus
GGAUGUGAUGAGGCAGAAAUUAAUUCAAGACAAUUGCUCACUUGAAACGC_AGUCAAAAUGGAGGCUGCCA__AGCCACCCAUCAAGUUGGGUCUCUACCCAUCGCUGACUGGGAUAAU
....((((((.((.(((........(((.....)))((.((((((.((....))......((.((((......)))).))..)))))).))...))).))))))))............. (-23.40 = -23.08 +  -0.32)

alignment

secondary structure

dotplot

Window 8

Location	19,112,816 – 19,112,932
Length	116
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	89.08
Mean single sequence MFE	-34.56
Consensus MFE	-31.20
Energy contribution	-31.64
Covariance contribution	0.44
Combinations/Pair	1.09
Mean z-score	-2.09
Structure conservation index	0.90
SVM decision value	2.51
SVM RNA-class probability	0.994747
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19112816 116 - 23771897
AUUAUCCCAGUCAGCGAUGGGUAGAGACCCAACUUGAUGGGUGGCU--UGGCAGCCUCCAUUUUGACU-GCAUUUCAAGUGAGCAAUUGUCUUGAAUUAAUUUCUGCCUCAUCACAUCC
.............(.((((((((((((.....(..((((((.((((--....))))))))))..)...-....(((((((((....))).))))))....)))))))).)))).).... ( -33.90)
>DroSec_CAF1 346 116 - 1
AUUAUCCCAGUCAGCGAUGGGUAGACACCCAACUUGAUGGGUGGCU--UGGCAGCCUCCAUUUUGACU-GCGUUUCAAGUGAGCAAUUGUCUUGAAUUAAUUUCUGCCUCAUCACAUCC
.............(.((((((((((((((((......))))))...--..((((.(........).))-))..(((((((((....))).))))))......)))))).)))).).... ( -34.30)
>DroSim_CAF1 1258 116 - 1
AUUAUCCCAGUCAGCGAUGGGUAGACACCCAACUUGAUGGGUGGCU--UGGCAGCCUCCAUUUUGACU-GCGUUUCAAGUGAGCAAUUGUCUUGAAUUAAUUUCUGCCUCAUCACAUCC
.............(.((((((((((((((((......))))))...--..((((.(........).))-))..(((((((((....))).))))))......)))))).)))).).... ( -34.30)
>DroYak_CAF1 1384 116 - 1
AUUGCCCCAGUCAAUGAUGGGUAGAGAGCCAACUUGAUGGGUGGCU--UUGCAGCCUCCAUUUUGACU-GCGUUUCAAGUGAGCAAUUGUCUUGAAUUAAUUUCUGCCUCAUCACAUCC
..............(((((((((((((((...(..((((((.((((--....))))))))))..)...-))..(((((((((....))).))))))....)))))))).)))))..... ( -36.00)
>DroAna_CAF1 383 111 - 1
AUUA----AGUGGGAGAUGGGCAGGA----CACUUGAUGGGUGGCUCUCAGCAACCACCAUUUUGACUUUCGUUUCAAGUGAGCAAUUGUCUUGAAUUAAUUCCUGCCCCAUCACAUCC
....----.((((.....((((((((----(((((((..(((((..........))))).....(((....))))))))))..(((.....))).......))))))))..)))).... ( -34.30)
>consensus
AUUAUCCCAGUCAGCGAUGGGUAGACACCCAACUUGAUGGGUGGCU__UGGCAGCCUCCAUUUUGACU_GCGUUUCAAGUGAGCAAUUGUCUUGAAUUAAUUUCUGCCUCAUCACAUCC
...............((((((((((((.....(..((((((.((((......))))))))))..)........(((((((((....))).))))))....)))))))).))))...... (-31.20 = -31.64 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:31 2006