Locus 8544

Sequence ID	3L_DroMel_CAF1
Location	22,324,617 – 22,324,724
Length	107
Max. P	0.951459

overview

Window 4

Location	22,324,617 – 22,324,724
Length	107
Sequences	4
Columns	107
Reading direction	forward
Mean pairwise identity	90.65
Mean single sequence MFE	-29.35
Consensus MFE	-25.35
Energy contribution	-26.35
Covariance contribution	1.00
Combinations/Pair	1.09
Mean z-score	-2.17
Structure conservation index	0.86
SVM decision value	1.41
SVM RNA-class probability	0.951459
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22324617 107 + 23771897
AGCAGAUUGAUUGAGUUAUUUGCAGUUUGCCCGGCAAACAGGCGAGCGAACCCCAAAUAUAAUUUGUGAAUUCUGAAUCUGAUUCCGGCUGCUCAAUCAAUUCCAAU
....((((((((((((((((((..((((((.((.(.....).)).))))))..))))))....(((.(((((........))))))))..))))))))))))..... ( -30.60)
>DroSec_CAF1 3847 107 + 1
AGCAGAUUGAUUGAGUUAUUUGCAGUUUGCCCGGCAAACAGGCGAGCGAACCCCAAAUAUAAUUUGUGAAUUCUGAAUCUGAUUCCGGCUGCGCAAUCAAUUCCAAU
....(((((((((.((((((((..((((((.((.(.....).)).))))))..))))))....(((.(((((........))))))))..)).)))))))))..... ( -26.20)
>DroSim_CAF1 3347 107 + 1
AGCAGAUUGAUUGAGUUAUUUGCAGUUUGCCCGGCAAACAGGCGAGCGAACCCCAAAUAUAAUUUGUGAAUUCUGAAUCUGAUUCCGGCUGCUCAAUCAAUUCCAAU
....((((((((((((((((((..((((((.((.(.....).)).))))))..))))))....(((.(((((........))))))))..))))))))))))..... ( -30.60)
>DroEre_CAF1 1958 99 + 1
UGCAGAUUGAUUGAGUUAUUUUCAGUCAGU-CGGCAAACAGGCGAGCAAGCUCGAAAUAUAAUUUGUGGAUUCUGAA-------CCGGCUGCUCAAUCAAUUCUAAU
....((((((((((((....(((((..(((-(.(((((....((((....))))........))))).)))))))))-------......))))))))))))..... ( -30.00)
>consensus
AGCAGAUUGAUUGAGUUAUUUGCAGUUUGCCCGGCAAACAGGCGAGCGAACCCCAAAUAUAAUUUGUGAAUUCUGAAUCUGAUUCCGGCUGCUCAAUCAAUUCCAAU
....((((((((((((((((((..((((((.((.(.....).)).))))))..))))))....(((.(((((........))))))))..))))))))))))..... (-25.35 = -26.35 +   1.00)

alignment

secondary structure

dotplot

Window 5

Location	22,324,617 – 22,324,724
Length	107
Sequences	4
Columns	107
Reading direction	reverse
Mean pairwise identity	90.65
Mean single sequence MFE	-28.53
Consensus MFE	-24.05
Energy contribution	-25.30
Covariance contribution	1.25
Combinations/Pair	1.12
Mean z-score	-2.02
Structure conservation index	0.84
SVM decision value	1.07
SVM RNA-class probability	0.909892
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22324617 107 - 23771897
AUUGGAAUUGAUUGAGCAGCCGGAAUCAGAUUCAGAAUUCACAAAUUAUAUUUGGGGUUCGCUCGCCUGUUUGCCGGGCAAACUGCAAAUAACUCAAUCAAUCUGCU
...(((.(((((((((.....(((.((.......)).)))........((((((.((((.(((((.(.....).))))).)))).)))))).))))))))))))... ( -31.00)
>DroSec_CAF1 3847 107 - 1
AUUGGAAUUGAUUGCGCAGCCGGAAUCAGAUUCAGAAUUCACAAAUUAUAUUUGGGGUUCGCUCGCCUGUUUGCCGGGCAAACUGCAAAUAACUCAAUCAAUCUGCU
.(((((.((((((.((....)).)))))).))))).............((((((.((((.(((((.(.....).))))).)))).))))))................ ( -27.40)
>DroSim_CAF1 3347 107 - 1
AUUGGAAUUGAUUGAGCAGCCGGAAUCAGAUUCAGAAUUCACAAAUUAUAUUUGGGGUUCGCUCGCCUGUUUGCCGGGCAAACUGCAAAUAACUCAAUCAAUCUGCU
...(((.(((((((((.....(((.((.......)).)))........((((((.((((.(((((.(.....).))))).)))).)))))).))))))))))))... ( -31.00)
>DroEre_CAF1 1958 99 - 1
AUUAGAAUUGAUUGAGCAGCCGG-------UUCAGAAUCCACAAAUUAUAUUUCGAGCUUGCUCGCCUGUUUGCCG-ACUGACUGAAAAUAACUCAAUCAAUCUGCA
..((((.((((((((((((.(((-------(.((((((......)))......((((....)))).)))...))))-.)))..(....)...))))))))))))).. ( -24.70)
>consensus
AUUGGAAUUGAUUGAGCAGCCGGAAUCAGAUUCAGAAUUCACAAAUUAUAUUUGGGGUUCGCUCGCCUGUUUGCCGGGCAAACUGCAAAUAACUCAAUCAAUCUGCU
...(((.(((((((((.....(((.((.......)).)))........((((((.((((.(((((.(.....).))))).)))).)))))).))))))))))))... (-24.05 = -25.30 +   1.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:40 2006