Locus 1377

Sequence ID 2L_DroMel_CAF1
Location 3,670,381 – 3,670,487
Length 106
Max. P 0.723081
window2252

overview

Window 2

Location 3,670,381 – 3,670,487
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 65.99
Mean single sequence MFE -24.45
Consensus MFE -4.96
Energy contribution -6.27
Covariance contribution 1.31
Combinations/Pair 1.28
Mean z-score -2.41
Structure conservation index 0.20
SVM decision value 0.40
SVM RNA-class probability 0.723081
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3670381 106 + 22407834
AUUCCUGCACAUUGCUGUUUGAAAUAAAAUUUACCAUCAGUUAA-----------UA--AUGGAUAAUAAUAGUGUUUUGCUAACUACUUACGAUCUUUUUUCCCGUGAGCUAGUGCAA-
.....(((((......(((.((((((....(((((((.......-----------..--)))).)))......))))))...)))..((((((...........))))))...))))).- ( -16.50)
>DroSec_CAF1 132815 102 + 1
AUUCCUGCACAUUGCUGUUUGAAAGA-AAUUUAGCAGCAGUUAA-----------UA--AUGGUCA---AUGGUGGUUUACUAACUACUCACGAUCUUUUUGCCCUUGGGCAAGUGCAA-
.....(((((((((((((...(((..-..))).))))))))...-----------..--..((((.---..(((((((....)))))))...))))...(((((....)))))))))).- ( -34.50)
>DroSim_CAF1 138907 102 + 1
AUUCUUGCACAUUGCUGUUUGAAAGA-AAUUUAACAGCAGUUAA-----------UA--AUGGUCA---ACAGUGGUUUACUAACUACUUACGAUCUUUUUGCCCGUGAGCAAGUGCAA-
.....((((((((((((((..(((..-..))))))))))))...-----------..--..((((.---..(((((((....)))))))...))))...((((......))))))))).- ( -29.40)
>DroEre_CAF1 137602 91 + 1
ACU-UUGCACUUUGCUGUUCGAAAGA-AAUGUAUCAC----------------------UCAGUCA---AGAGUGAUUUCAUU-CUACUUACGAUCUCUUUUUCCCUGAACAAGUGCCA-
...-..(((((....((((((..(((-(.((.(((((----------------------((.....---.)))))))..))))-))......((........))..)))))))))))..- ( -21.50)
>DroYak_CAF1 142518 102 + 1
UUUCUUGCACUUUGCUGUUUUAAAGA-AAUUUACCAAAAAUUAA-----------UA--ACAGUGA---GCAGUGGUUUCAUAACUACUUACGAUCAUUUUGUCCGUGAACAAGUGCAA-
.....(((((((..(((((.((((..-..))))...........-----------.)--))))..)---...((((((....))))))(((((..(.....)..)))))...)))))).- ( -21.42)
>DroAna_CAF1 148648 111 + 1
AUAACGACAGAUUGCUA-----GGGA-AAUUAAG---GAGUUAAAGGAGUAUAAAUAUUAUAAAUUAGUAUGGUAUUUUUUUAAUAACUUACGACUUUUUUGUGAGAAAGCAAGACCCAU
.................-----(((.-...((((---..(((((((((((((..((((((.....)))))).)))))))))))))..))))......((((((......))))))))).. ( -23.40)
>consensus
AUUCCUGCACAUUGCUGUUUGAAAGA_AAUUUACCAGCAGUUAA___________UA__AUAGUCA___AUAGUGGUUUACUAACUACUUACGAUCUUUUUGCCCGUGAGCAAGUGCAA_
.....(((((.(((((.......................................................((((..........))))((((...........)))))))))))))).. ( -4.96 =  -6.27 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:03 2006