Locus 2977

Sequence ID 3L_DroMel_CAF1
Location 8,539,056 – 8,539,176
Length 120
Max. P 0.514342
window4653

overview

Window 3

Location 8,539,056 – 8,539,176
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -49.30
Consensus MFE -35.13
Energy contribution -35.58
Covariance contribution 0.45
Combinations/Pair 1.41
Mean z-score -1.66
Structure conservation index 0.71
SVM decision value -0.04
SVM RNA-class probability 0.514342
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8539056 120 + 23771897
ACUUAUCCAGAGCAUCAAGGGGGAGGCGGAUCAGCAACAGGAUGCAGACAUGAAGCGUCAUCUGUUAUCCGCCGCCAAGCAGCUGGCGGAUGCCACUGCUAAGUUGGUAGAGGCCGCUCG
.........((((........((.(((((((.((((....(((((.........)))))...))))))))))).)).(((((.((((....))))))))).....(((....))))))). ( -47.30)
>DroVir_CAF1 956 120 + 1
GCUCAUCCAGAGCAUCAAGGGCGAGGCCGAUCAGCAGGAGGAUGCGGACAUGCAGCGCCGUCUGCUGUCGGCCGCCAAGCAGCUGGCCGAUGCCACCGCCAAGCUGGUGGAGGCGGCACG
((((.....))))......(((..((((((.((((((..((.((((....))))...))..))))))))))))))).........((((...(((((((...)).)))))...))))... ( -59.90)
>DroGri_CAF1 956 120 + 1
GCUUAUACAGAGCAUUAAGGGUGAGGCCGAUCAGCAGGAGGAUGCGGAUAUGCAGCGACGUUUGCUGUCGGCAGCCAAGCAGCUGGCCGAUGCUACCACCAAGCUGGUGGAGGCGGCACG
((((.....))))......(((...(((((.(((((((.(..((((....))))....).)))))))))))).))).........((((...((.(((((.....))))))).))))... ( -47.00)
>DroWil_CAF1 956 120 + 1
ACUUAUCCAAAGUAUUAAGGGCGAGGCGGAUCAGCAACAGGAUGCGGAUAUGCAACGUCGUCUAUUGUCUGCAGCCAAACAGUUGGCAGAUGCUACCGCCAAAUUAGUGGAAGCUGCACG
.....((((..((.......))..(((((...((((.(....((((((((.((......))....))))))))(((((....))))).).)))).))))).......))))......... ( -33.40)
>DroMoj_CAF1 956 120 + 1
GCUCAUCCAGAGCAUCAAGGGCGAGGCGGAUCAGCAAGAGGAUGCGGACAUGCAGCGACGUUUGCUGUCGGCCGCCAAGCAGUUGGCCGAUGCCACAGCCAAGCUGGUUGAGGCCGCCCG
((((.....)))).....(((((.(((.((.(((((((.(..((((....))))....).))))))))).)))(((((....)))))....(((.(((((.....))))).)))))))). ( -55.00)
>DroAna_CAF1 956 120 + 1
ACUGAUCCAGAGCAUCAAGGGCGAGGCCGACCAGCAGGAGGAUGCCGAUAUGCAGAGGCGUCUGCUGUCCGCCGCCAAGCAACUGGCGGAUGCAACAGCCAAGCUGGUGGAGGCUGCCCG
..((((.......)))).((((..((((.((((((....(((((((..........)))))))(((((.((((((((......)))))).))..)))))...))))))...)))))))). ( -53.20)
>consensus
ACUUAUCCAGAGCAUCAAGGGCGAGGCCGAUCAGCAAGAGGAUGCGGACAUGCAGCGACGUCUGCUGUCGGCCGCCAAGCAGCUGGCCGAUGCCACCGCCAAGCUGGUGGAGGCCGCACG
...........(((((........((((((.(((((((....((((....))))......)))))))))))))((((......)))).)))(((.(((((.....))))).))).))... (-35.13 = -35.58 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:35 2006