Locus 4159

Sequence ID 3L_DroMel_CAF1
Location 12,146,867 – 12,146,958
Length 91
Max. P 0.500000
window6457

overview

Window 7

Location 12,146,867 – 12,146,958
Length 91
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 80.20
Mean single sequence MFE -22.62
Consensus MFE -12.18
Energy contribution -11.73
Covariance contribution -0.44
Combinations/Pair 1.15
Mean z-score -1.88
Structure conservation index 0.54
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12146867 91 - 23771897
GGCAG--GACGAAAGCGC-------UGAGUGCAGAUGAGGACUGCAAUAAACUGC------CAUACAUAAGUGAAAAUUGUGAAAUGAA-AA----CUUGCGCGAGCAUAA
(((((--(.(....))..-------....(((((.......))))).....))))------)...(((((.......))))).......-..----..(((....)))... ( -23.20)
>DroPse_CAF1 25331 106 - 1
GGCAGGGGCCGAAAGAGGUGAGUGGUAAGUGCGGAUGAGGACUGCAAUAAACUACAUACUACAUACAUAAGUGAAAACUGUGAAAUGAA-AA----CUGGCGCGAGCGUAA
.((..(.((((...(.((((.(((((...(((((.......)))))....))))).)))).)...((((.((....)))))).......-..----.)))).)..)).... ( -27.30)
>DroEre_CAF1 21429 91 - 1
GGCAG--GACGAAAGCGC-------UGAGUGCAGAUGAGGACUGCAAUAAACUGC------CAUACAUAAGUGAAAAUUGUGAAAUGAA-AA----CUUGCGCGAGCAUAA
(((((--(.(....))..-------....(((((.......))))).....))))------)...(((((.......))))).......-..----..(((....)))... ( -23.20)
>DroYak_CAF1 24275 91 - 1
GGCAG--GACGAAAGCGC-------UGAGUGCAGAUGAGGACUGCAAUAAACUGG------CGUACAUAAGUGAAAAUUGUGAAAUGAA-AA----CUUGCGCGAGCAUAA
.((((--..(....((((-------...))))......)..))))......((.(------((((....(((....(((....)))...-.)----))))))).))..... ( -20.40)
>DroAna_CAF1 22374 81 - 1
----------------GC-------UGAGUGCAGAUGAGGACUGCAAUAAACUGG------CAUACAUAAGUGAAAAUUGUGAAAUGAA-UACUGACUGGCGCGAGCAUAA
----------------((-------(..((((((.(.((...(((.........)------))..(((((.......))))).......-..)).))).)))).))).... ( -14.30)
>DroPer_CAF1 25361 107 - 1
GGCAGGGGCCGAAAGAGGUGAGUGGUAAGUGCGGAUGAGGACUGCAAUAAACUACAUACUACAUACAUAAGUGAAAACUGUGAAAUGAAAAA----CUGGCGCGAGCGUAA
.((..(.((((...(.((((.(((((...(((((.......)))))....))))).)))).)...((((.((....))))))..........----.)))).)..)).... ( -27.30)
>consensus
GGCAG__GACGAAAGCGC_______UGAGUGCAGAUGAGGACUGCAAUAAACUGC______CAUACAUAAGUGAAAAUUGUGAAAUGAA_AA____CUGGCGCGAGCAUAA
.............................(((((.......)))))...................((((.((....)))))).................((....)).... (-12.18 = -11.73 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:46 2006