Locus 2946

Sequence ID 2R_DroMel_CAF1
Location 10,173,437 – 10,173,548
Length 111
Max. P 0.555657
window4866

overview

Window 6

Location 10,173,437 – 10,173,548
Length 111
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 71.46
Mean single sequence MFE -44.47
Consensus MFE -21.53
Energy contribution -22.07
Covariance contribution 0.53
Combinations/Pair 1.29
Mean z-score -1.59
Structure conservation index 0.48
SVM decision value 0.04
SVM RNA-class probability 0.555657
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10173437 111 - 20766785
AAA--AUAGGGGCAAAGCGCAGAUGACGGUCCUGUUGAGCCACAGGAUGCUCCUCGCUGGAUGGGCGAGGCGUGCCACGCCCACCGCCGCCCAGUGGAUACACCACAAUCCAG
...--....((((..((((.((..(...(((((((......))))))).)..))))))((.((((((.((....)).))))))))...)))).((((.....))))....... ( -46.40)
>DroSec_CAF1 1645 110 - 1
AAA---UAGGGGCAAAGCGCAGAUGACGGUCUUGUUGGGCCACAGGGUGCUCCUCGCUGGAUGGGCGAGGCGUGCCACGCCAACCGCCGUCCAGUGGAUGCACCACAACCCAG
...---..(((((..((((.((((....))))))))..)))....((((((((..(((((((((.((.((((.....))))...)))))))))))))).))))).....)).. ( -49.80)
>DroSim_CAF1 1651 109 - 1
AAA----ACGGGCAUAUCGCAAAUGACGGUCCUGUUGAGCCACAGGGUACUCCUCGCUGGACGGGCGAGGCGUGCCACGCCCACCGCCGUCCAGUGGAUGCACCACAAACCAG
...----..((((((.((((....((((((.((((......))))(((((.(((((((.....))))))).))))).........))))))..)))))))).))......... ( -43.20)
>DroEre_CAF1 3225 113 - 1
AAACAGAAGGGGCAAAGAGCAGAUGACGAUGCUGUUGAGCCACCGGGCGCUACUCGCUGGACUGGCGAGGCGUGCCACGCCCACCGCCGUCCAGUUAAUGCACGAGAAUCCGC
........(((((.((.((((........)))).))..))).))(((..((....(((((((.((((.((((.....))))...))))))))))).........))..))).. ( -41.82)
>DroYak_CAF1 1667 113 - 1
AGUAAGAAGGCACCAGGAGCAGAUGGCGGUGUUGUUGAGCCGCAGGAUGCAACUUGCUGGAUUGGCGCGGCGUGCCACGCCCACCGCCGUCCAAUUGAUGCACGAGAAUCCGA
.........(((.(((.....((((((((((..((..(.(((((((......))))).)).)..))..((((.....))))))))))))))...))).))).((......)). ( -42.50)
>DroAna_CAF1 1626 111 - 1
AAA--ACUUAACCUUGCUGCAGAUGACGGCUCUGUUGGCCUGUCAUUGGCAGCCCGCCAGGCUGGUCAGGAGGGCCGUUCCAACUGCCAACCGAUUCCUGCACCACCAGGUCG
...--.............((((.((((((((((.((((((.(((..((((.....))))))).)))))).))))))))..)).))))....(((..((((......))))))) ( -43.10)
>consensus
AAA___AAGGGGCAAAGCGCAGAUGACGGUCCUGUUGAGCCACAGGGUGCUCCUCGCUGGACGGGCGAGGCGUGCCACGCCCACCGCCGUCCAGUGGAUGCACCACAAUCCAG
..................(((......(((........)))..............(((((((.((((.((((.....))))...)))))))))))...)))............ (-21.53 = -22.07 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:35 2006