Locus 4489

Sequence ID 3R_DroMel_CAF1
Location 11,890,446 – 11,890,544
Length 98
Max. P 0.500000
window7341

overview

Window 1

Location 11,890,446 – 11,890,544
Length 98
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 87.87
Mean single sequence MFE -41.23
Consensus MFE -29.10
Energy contribution -28.66
Covariance contribution -0.44
Combinations/Pair 1.24
Mean z-score -3.22
Structure conservation index 0.71
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11890446 98 + 27905053
UGGAUACCACGCGAGGAUCGCCUCAUGCAG-AACGGCUUCCUUGCGAUGUCGUUUUGGGUGAGGUGCCUGCA----AAUGUUCUGGUGGCGGUUU-CUAGUGAU
((((.(((.(((.(((((((((((((.(((-((((((.((.....)).))))))))).))))))))......----...))))).)))..))).)-)))..... ( -41.40)
>DroSec_CAF1 46571 98 + 1
UGGAUACCACGCGCGGAUCGCCUCAUGCAG-AACGGCUUCCUUGCGAUGUCGUUUUGGGUGAGGUGCCUGCA----AAUGUUCUGGUGGCGGUUU-CUAGUGAU
((((.(((.(((.((((.((((((((.(((-((((((.((.....)).))))))))).))))))))...((.----...)))))))))..))).)-)))..... ( -39.50)
>DroSim_CAF1 47255 96 + 1
UGGAUACCACGCGCGGAUCGCCUCAUGCAG-AACGGCUUCC-UGCGAUGUCGUUUUGGGUGAGGUGCCAGCA----AAUGUUCUGGUGGCGGU-U-CUAGUGAU
.........(((..((((((((((((.(((-((((((.((.-...)).))))))))).)))))))((((.((----.......)).)))))))-)-)..))).. ( -40.90)
>DroEre_CAF1 47392 98 + 1
UGGAUACCAUGCGAGGAUCGCCUCAUGCAG-AACGGCUUCCUUGCGAUGUCGUUUUGGGUGAGGUGCCUGUA----AUUGCUCUGGUGGCGGUGU-CUAGUGAU
((((((((.(((.(((..((((((((.(((-((((((.((.....)).))))))))).))))))))))))))----...(((.....))))))))-)))..... ( -44.00)
>DroYak_CAF1 47863 99 + 1
UGGAUACCAUACGAGGGUCGCCUCAUGCAAAAACGGCUUCCUUGCGAUGUCGUUUUGGGUGAGGUGCCUGCA----AUUGCUCUGGUGGCGGUGU-CUAGUGAU
((((((((.(((.((((.((((((((.(((((.((((.((.....)).))))))))).)))))))))).((.----...)).)).)))..)))))-)))..... ( -42.70)
>DroAna_CAF1 49316 103 + 1
UUAAAACCAUGCGAGGAUCGCCUCAUGCAG-AACGGCCUCCUUAAGGUGUCGUUUUGGGUGAGGUGUUUGCAUUACACUUUCUUAGUGGCUGUUUGCGAGUGAU
........(((((((...((((((((.(((-((((((..((....)).))))))))).)))))))))))))))..((((.....))))((.....))....... ( -38.90)
>consensus
UGGAUACCACGCGAGGAUCGCCUCAUGCAG_AACGGCUUCCUUGCGAUGUCGUUUUGGGUGAGGUGCCUGCA____AAUGUUCUGGUGGCGGUUU_CUAGUGAU
(((..(((.(((.(((((((((((((.(((.((((((.((.....)).))))))))).)))))))).............))))).)))..)))...)))..... (-29.10 = -28.66 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:40 2006