Locus 8680

Sequence ID 3R_DroMel_CAF1
Location 23,185,190 – 23,185,288
Length 98
Max. P 0.652721
window13942

overview

Window 2

Location 23,185,190 – 23,185,288
Length 98
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 67.14
Mean single sequence MFE -25.93
Consensus MFE -8.74
Energy contribution -8.68
Covariance contribution -0.05
Combinations/Pair 1.23
Mean z-score -1.85
Structure conservation index 0.34
SVM decision value 0.25
SVM RNA-class probability 0.652721
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23185190 98 + 27905053
--------CAAGUCC-UUGGCAACUCACCACGUUGCCCAGGACAACGGCUUCCAAUUCUGCCC---GCAG-GACCCUGCACC---CUCUUACCCUCUCGUUGGCUCCUUCCAGG
--------...((((-(.((((((.......)))))).)))))...(((..........))).---((((-....))))...---..............((((......)))). ( -30.00)
>DroPse_CAF1 330 107 + 1
AGUUUCUCCAAGUGCAGUGGUAACUCACCACGUUGCCCAUAACAACCGUUUUCCAACCCGCUUUUGGCCG-UUUCCAGGCGU--CGCGUCCGACACUU----GCACUUUCCAGG
.........((((((((((((.....)))))((((.....(((....)))...)))).........(((.-......)))((--((....))))...)----))))))...... ( -25.00)
>DroSec_CAF1 128 102 + 1
--------CAAGUCC-UUGGCAACUCACCACGUUGCCCAGGACAACGGCUUCCAAUCCUGCCC---GCAGGGACCCUGCCCCCCCCUCUCCACCAAUCGAUGGCUACUUCCCGG
--------...((((-(.((((((.......)))))).)))))...(((..........))).---...((((....(((.....................)))....)))).. ( -30.30)
>DroSim_CAF1 404 100 + 1
--------CAAGUCC-UUGGCAACUCACCACGUUGCCCAGAACAACGGCUUCCAAUCCUGCCC---GCAG-GACCCUGCCCC-CCCUCUCCACCACUCGAUGGCUACUUCCAGG
--------..(((((-(.((((((.......)))))).))......(((......(((((...---.)))-))....)))..-..................))))......... ( -23.60)
>DroEre_CAF1 395 84 + 1
-----CU-CCAGUCC-UUGGCAACUCACCACGUUGCCCAGGACAACGACUUCCAAUCCUUCUC---GCAG-GACACACCCAC-C-------------CG-----CCCUUCCAGG
-----..-((.((((-(.((((((.......)))))).)))))............((((....---..))-)).........-.-------------..-----........)) ( -21.70)
>DroPer_CAF1 476 107 + 1
AGUUUCUCCAAGUGCAGUGGUAACUCACCACGUUGCCCAUAACAACCGUUUUCCAACCCGCUUUUGGCCG-UUUCCAGGCGU--CGCGUCCGACACUU----GCACUUUCCAGG
.........((((((((((((.....)))))((((.....(((....)))...)))).........(((.-......)))((--((....))))...)----))))))...... ( -25.00)
>consensus
________CAAGUCC_UUGGCAACUCACCACGUUGCCCAGAACAACGGCUUCCAAUCCUGCCC___GCAG_GACCCAGCCCC__CCUCUCCACCACUCG___GCUCCUUCCAGG
...........(((....((((((.......))))))....................((((.....)))).)))........................................ ( -8.74 =  -8.68 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:07 2006