Locus 2063

Sequence ID 3L_DroMel_CAF1
Location 5,680,218 – 5,680,327
Length 109
Max. P 0.631702
window3216

overview

Window 6

Location 5,680,218 – 5,680,327
Length 109
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 75.78
Mean single sequence MFE -25.45
Consensus MFE -14.89
Energy contribution -15.12
Covariance contribution 0.22
Combinations/Pair 1.15
Mean z-score -1.49
Structure conservation index 0.59
SVM decision value 0.20
SVM RNA-class probability 0.631702
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5680218 109 - 23771897
AUGCAACGCAAGCAAUUUGACAUGGCUCCCCAGCGCCAAACGUCGAACUUGUCCCCCAAA-CCGAAUGGCAUUCAGGCUAUCUAAGCCAUCCAAGCUAUC-------CCAGCCAUUU
.......(((((...((((((.((((........))))...)))))))))))........-..(((((((.....((((.....))))......(.....-------.).))))))) ( -25.20)
>DroSec_CAF1 52822 91 - 1
AUGCACCGCAAGCAAUUUGACAUGGCUCCCCAGCGCCAAACGUCGAACUUGUGCCCCAAG-CCGAAUGGCAUCCAGGCUAUCCAAGCC-------------------------AUUC
......((((((...((((((.((((........))))...))))))))))))......(-((....))).....((((.....))))-------------------------.... ( -25.10)
>DroSim_CAF1 55599 109 - 1
AUGCACCGCAAGCAAUUUGACAUGGCUCCCCAGCGCCAAACGUCGAACUUGUCCCCCAAA-CCGAAUGGCAUCCAGGCUAUCCAAGCCAUCCAAGCUAUC-------CCAGCCAUCC
.(((.......))).......((((((....(((((((....(((...(((.....))).-.))).)))).....((((.....))))......)))...-------..)))))).. ( -25.10)
>DroEre_CAF1 56277 116 - 1
AUGCACCGCAAGCAAUUUGACAUGGCUCCCCAGCGCCAAACGUCGAACUUGUCCCCCAAA-CCGAAUGGCAUCCAAGCCAUCUAAGCCAUCCAAGCCAUCCAACCAUCCAACCAUCC
..((...(((((...((((((.((((........))))...)))))))))))........-..((.((((......))))))...)).............................. ( -20.80)
>DroYak_CAF1 54374 105 - 1
AUGCACCGCAAGCAAUUUGACAUGGCUCCCCAGCGCCAAACGUCGAACUUGUCCCCCAAA-CCGAAUGGCAUCCAAGCCU------CCAUCCAAGCCA-----GCAUCCAACCAUUU
((((...((..((((((((((.((((........))))...)))))).))))........-......(((......))).------........))..-----)))).......... ( -20.70)
>DroPer_CAF1 55325 110 - 1
AUGCACCGCAAGCAAUUUGACGUUGCUCCCCAGCGCCAAACGUCGAACUUCUGCCGUGGUUGCCCGUGGCCCCCGUGUCUCCCGUGGCUCCCGUGGCUCC-------CGUGGUACCC
....(((((......(((((((((((........))..))))))))).....(((((((..(((((.(((......)))...)).)))..)))))))...-------.))))).... ( -35.80)
>consensus
AUGCACCGCAAGCAAUUUGACAUGGCUCCCCAGCGCCAAACGUCGAACUUGUCCCCCAAA_CCGAAUGGCAUCCAGGCCAUCCAAGCCAUCCAAGCCAUC_______CCAGCCAUCC
.......(((((...((((((.((((........))))...))))))))))).............(((((......))))).................................... (-14.89 = -15.12 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:31 2006