Locus 7569

Sequence ID 3R_DroMel_CAF1
Location 20,296,846 – 20,296,949
Length 103
Max. P 0.514963
window12220

overview

Window 0

Location 20,296,846 – 20,296,949
Length 103
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 81.07
Mean single sequence MFE -24.12
Consensus MFE -17.47
Energy contribution -17.80
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.17
Structure conservation index 0.72
SVM decision value -0.04
SVM RNA-class probability 0.514963
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20296846 103 + 27905053
GACGCACGUAUUUUAAUAUGUGCC-CCAAAGCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCUCAGCUCUGUGCCAUUGCCUCUGGCCU---CUACUGUCCUG
(((((((((((....)))))))).-....((((((.(((...((((......)))).))).)))))).........((((.......))))..---.....)))... ( -24.70)
>DroVir_CAF1 138671 98 + 1
GACGCACGUAUUUUAAUAUGUGCCCCCAACUCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCUG----UUGAGCCAUUGUUGUUGCUGU---UU--UUUCUUC
...((((((((....))))))))..........(((((((((..(((.....(..((..((...(((.----...)))...))..))..))))---))--))))))) ( -22.80)
>DroGri_CAF1 136957 97 + 1
GACGCACGUAUUUUAAUAUGUGCCCCCAAAGCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCUG----CUGAGCCAUUGUUGUUGCCGC---UU--CAUGU-C
(((((((((((....))))))))......((((((.(((...((((......)))).))).))))))(----(.(.((.((....)).)))))---..--...))-) ( -22.10)
>DroWil_CAF1 115022 98 + 1
GACGCACGUAUUUUAAUAUGUGCCCCCAAAGCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCU--GCUAUGUCCCAUUGACUUUGGCUU---UGACUGC----
...((((((((....))))))))...(((((((((.(((...((((......)))).))).))))))--((((.(((.....)))..)))).)---)).....---- ( -25.00)
>DroMoj_CAF1 138478 92 + 1
GACGCACGUAUUUUAAUAUGUGCCCCCAAAGCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCUG----UUGAGCCAUUGUUGUUGCCUU-----------UUC
(((((((((((....))))))))...(((((((((.(((...((((......)))).))).)))))).----))).......)))........-----------... ( -21.00)
>DroAna_CAF1 109306 104 + 1
GACGCACGUAUUUUAAUAUGUGCC-CCAAAGCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCUUUGCUCUGUCCCACUGCCUUUGGCAUCAUCCACUGUCC--
(((((((((((....)))))))).-.(((((((((.(((...((((......)))).))).)))))))))....)))....((((...)))).............-- ( -29.10)
>consensus
GACGCACGUAUUUUAAUAUGUGCCCCCAAAGCAGAAGAAAAAUCGCACGUACGUGACUUCAUUUGCUG____CUGAGCCAUUGUCGUUGCCGU___UU__UGUCU_C
...((((((((....))))))))......((((((.(((...((((......)))).))).))))))........................................ (-17.47 = -17.80 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:10 2006