Locus 3840

Sequence ID 3R_DroMel_CAF1
Location 10,472,896 – 10,472,986
Length 90
Max. P 0.974507
window6152

overview

Window 2

Location 10,472,896 – 10,472,986
Length 90
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 68.56
Mean single sequence MFE -27.85
Consensus MFE -6.07
Energy contribution -6.46
Covariance contribution 0.39
Combinations/Pair 1.20
Mean z-score -3.02
Structure conservation index 0.22
SVM decision value 1.73
SVM RNA-class probability 0.974507
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10472896 90 - 27905053
AAAUGUCUUCCAAAGUGGCCAAUU------------------UAAACGCCU---UCAACCGUCAAGCACCCAUAGCUUCAAAGGGCGUUAGAAAUGGCAUCACUAACAACA
.............((((((((.((------------------(.(((((((---(........((((.......))))...)))))))).))).))))..))))....... ( -22.10)
>DroVir_CAF1 16713 102 - 1
AAAUGUCUUCCAAAGUUGCCAAUUCUGUUGUU---AGUAAUGCUGGCGCCU---UAAAACGUAAAGCGCCGGUGGCUAGCACAGGUUGCAGAAAGGGCAAUAAAACAA---
..............((((((..((((((((((---(((...((((((((.(---((.....))).)))))))).)))))))......))))))..)))))).......--- ( -37.60)
>DroPse_CAF1 18575 111 - 1
AAAUGUCUUCCAAAGUUGCCAAUGCUAAUGCUGCCGUCAAUGCAAACGCCGCGCCAAAACGUCAAACGCCAGGAGCUGCUGCUGGCGGCAGAAGAGGCAACAACAACAAAA
..............((((((....((....(((((((((..(((...((.((.((....((.....))...)).)).)))))))))))))).)).)))))).......... ( -34.50)
>DroSec_CAF1 18851 90 - 1
AAAUGUCUUCCAAAGUGGCCAAUU------------------UAAACGCCU---CCAACCGUCAAGCACCCAUAGCUUCAAAGGGCGUUAGAAAUGGCAACACUAACAACA
.............((((((((.((------------------(.(((((((---.........((((.......))))....))))))).))).))))..))))....... ( -21.32)
>DroEre_CAF1 19088 90 - 1
AAAUGUCUUCCAAAGUGGCCAAUU------------------UAAACGCCU---CCAAUCGUCAAGCACCCAUAGCUUCAAAGGACGUUAGAAAUGGCAUCACUAACAACA
.............((((((((.((------------------(.(((((((---.........((((.......))))...))).)))).))).))))..))))....... ( -17.10)
>DroPer_CAF1 18569 111 - 1
AAAUGUCUUCCAAAGUUGCCAAUGCUAAUGCUGCCGUCAAUGCAAACGCCGCGCCAAAACGUCAAACGCCAGGAGCUGCUGCUGGCGGCAGAAGAGGCAACAACAACAAAA
..............((((((....((....(((((((((..(((...((.((.((....((.....))...)).)).)))))))))))))).)).)))))).......... ( -34.50)
>consensus
AAAUGUCUUCCAAAGUGGCCAAUU__________________CAAACGCCU___CAAAACGUCAAGCACCCAUAGCUUCAAAGGGCGGCAGAAAUGGCAACAAUAACAACA
...............................................(((.........((((.(((.......)))......))))........)))............. ( -6.07 =  -6.46 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:22 2006