Locus 1688

Sequence ID 3R_DroMel_CAF1
Location 4,837,754 – 4,837,846
Length 92
Max. P 0.669032
window2785

overview

Window 5

Location 4,837,754 – 4,837,846
Length 92
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.81
Mean single sequence MFE -27.72
Consensus MFE -20.34
Energy contribution -19.57
Covariance contribution -0.78
Combinations/Pair 1.21
Mean z-score -1.27
Structure conservation index 0.73
SVM decision value 0.29
SVM RNA-class probability 0.669032
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4837754 92 + 27905053
AC--UCUCCCUUACCGUCACCUGCUGGCGAUCCAACUGCAUCUGCAUCUGUAGCUGCUGCAGCUGAGAUGUGGGCGGUCCGCCCCUCCGCACGC
..--.................(((.((((..((..(..(((((.((.((((((...)))))).)))))))..)..))..)))).....)))... ( -29.50)
>DroVir_CAF1 20474 86 + 1
--------GCUUACCGUCAACUGUUGCCGAUCCAUUUGCAUUUGCAUCUGCAAUUGUUGCAACUGCGAUGUUGGUGGAACGCCACGUCUGACGC
--------......(((((..(((.((.(.(((((..(((((.(((..((((.....))))..))))))))..))))).))).)))..))))). ( -29.30)
>DroSec_CAF1 18656 94 + 1
ACCCUCUCCCUUACCGUCACCUGCUGGCGAUCCAACUGCAUCUGCAUCUGUAGCUGCUGCAGCUGAGAUGUGGGCGGUCCGCCCCUCCGCACCC
.....................(((.((((..((..(..(((((.((.((((((...)))))).)))))))..)..))..)))).....)))... ( -29.50)
>DroSim_CAF1 20242 94 + 1
ACCCUCUCCCUUACCGUCACCUGCUGGCGAUCCAACUGCAUCUGCAUCUGUAGCUGCUGCAGCUGAGAUGUGGGCGGUCCGCCCCUCCGCACGC
.....................(((.((((..((..(..(((((.((.((((((...)))))).)))))))..)..))..)))).....)))... ( -29.50)
>DroMoj_CAF1 19268 86 + 1
--------GCUUACCGUCAACUGUUGCCGAUCCAUUUGCAUUUGCAUCUGCAAUUGUUGCAAUUGCGAUGUUGGUGGAACGCCACGUCUAACAC
--------.......((....(((.((.(.(((((..(((((.(((..((((.....))))..))))))))..))))).))).)))....)).. ( -23.10)
>DroAna_CAF1 18529 92 + 1
GC--UAUCCCUUACCGUCACCUGCUGGCGAUCCAACUGCAUCUGCAUCUGUAGCUGUUGCAGCUGCGACGUAGGCGGACCACCCCUCCUCACUC
..--..((((((((.(((...(((..(((.......)))....)))...(((((((...))))))))))))))).)))................ ( -25.40)
>consensus
AC__UCUCCCUUACCGUCACCUGCUGGCGAUCCAACUGCAUCUGCAUCUGUAGCUGCUGCAGCUGAGAUGUGGGCGGACCGCCCCUCCGCACGC
..............(((((.....)))))(((((.(((((.((((....))))....))))).)).)))..(((((...))))).......... (-20.34 = -19.57 +  -0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:56 2006