Locus 7887

Sequence ID	3L_DroMel_CAF1
Location	21,035,486 – 21,035,606
Length	120
Max. P	0.960818

overview

Window 5

Location	21,035,486 – 21,035,606
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.54
Mean single sequence MFE	-35.40
Consensus MFE	-32.20
Energy contribution	-33.20
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.92
Structure conservation index	0.91
SVM decision value	1.52
SVM RNA-class probability	0.960818
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21035486 120 + 23771897
ACUAAAAAAAUGAGAAUUUGCCAGCAGCUUUUUGACUCCGCGGGCAGUCUUUUGUUUGUCUUACAAAUCACUAACAAUAUGAAUUGGUGAAACGCUGGCCGCAGAGCUCAAAAGGUGCUA
......................((((.(((((((((((.((((.((((..(((((.......)))))(((((((.........)))))))...)))).)))).))).)))))))))))). ( -38.40)
>DroSec_CAF1 90609 119 + 1
ACUA-AAAAAUGAGAAUUUGCCAGCAGCUUUUUGACUCCGCGGGCAGUCUUUUGUUUGUCUUACAAAUCACUAACAAUAUGAAUUGGUGAAACGCUGACCGCCGAGCUCAAAAGGUGCUA
....-.................((((.(((((((((((.((((.((((..(((((.......)))))(((((((.........)))))))...)))).)))).))).)))))))))))). ( -35.90)
>DroEre_CAF1 12168 118 + 1
ACUA-AAAUAUGAGAAUUUGCCAGCAGCUU-UUGACUCCGCUGGCAGUCUUUUGUUUGUCUUACAAAUCACUAACAUUAUGAAUUGGUGAAACGCUGACCGCCAAGCUCAAAAGGUGCUA
....-.................((((.(((-((((....((((((.(((.(((((.......)))))(((((((.........)))))))......))).))).)))))))))).)))). ( -31.90)
>consensus
ACUA_AAAAAUGAGAAUUUGCCAGCAGCUUUUUGACUCCGCGGGCAGUCUUUUGUUUGUCUUACAAAUCACUAACAAUAUGAAUUGGUGAAACGCUGACCGCCGAGCUCAAAAGGUGCUA
......................((((.(((((((((((.((((.((((..(((((.......)))))(((((((.........)))))))...)))).)))).))).)))))))))))). (-32.20 = -33.20 +   1.00)

alignment

secondary structure

dotplot

Window 6

Location	21,035,486 – 21,035,606
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.54
Mean single sequence MFE	-34.40
Consensus MFE	-29.85
Energy contribution	-30.30
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-2.52
Structure conservation index	0.87
SVM decision value	0.77
SVM RNA-class probability	0.845151
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21035486 120 - 23771897
UAGCACCUUUUGAGCUCUGCGGCCAGCGUUUCACCAAUUCAUAUUGUUAGUGAUUUGUAAGACAAACAAAAGACUGCCCGCGGAGUCAAAAAGCUGCUGGCAAAUUCUCAUUUUUUUAGU
(((((.(((((..(((((((((.((((...((((((((....))))...))))(((((.......))))).).))).)))))))))..))))).)))))..................... ( -36.00)
>DroSec_CAF1 90609 119 - 1
UAGCACCUUUUGAGCUCGGCGGUCAGCGUUUCACCAAUUCAUAUUGUUAGUGAUUUGUAAGACAAACAAAAGACUGCCCGCGGAGUCAAAAAGCUGCUGGCAAAUUCUCAUUUUU-UAGU
(((((.(((((..((((.((((.((((...((((((((....))))...))))(((((.......))))).).))).)))).))))..))))).)))))................-.... ( -33.90)
>DroEre_CAF1 12168 118 - 1
UAGCACCUUUUGAGCUUGGCGGUCAGCGUUUCACCAAUUCAUAAUGUUAGUGAUUUGUAAGACAAACAAAAGACUGCCAGCGGAGUCAA-AAGCUGCUGGCAAAUUCUCAUAUUU-UAGU
(((((.((((((((((.(((((((......((((.(((.......))).))))(((((.......))))).))))))))))....))))-))).)))))................-.... ( -33.30)
>consensus
UAGCACCUUUUGAGCUCGGCGGUCAGCGUUUCACCAAUUCAUAUUGUUAGUGAUUUGUAAGACAAACAAAAGACUGCCCGCGGAGUCAAAAAGCUGCUGGCAAAUUCUCAUUUUU_UAGU
(((((.(((((..((((.((((.((((...((((.(((.......))).))))(((((.......))))).).))).)))).))))..))))).)))))..................... (-29.85 = -30.30 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:31 2006