Locus 3032

Sequence ID 2L_DroMel_CAF1
Location 8,630,828 – 8,630,920
Length 92
Max. P 0.820719
window4824 window4825

overview

Window 4

Location 8,630,828 – 8,630,920
Length 92
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 76.58
Mean single sequence MFE -19.04
Consensus MFE -9.92
Energy contribution -10.42
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.52
SVM decision value 0.17
SVM RNA-class probability 0.616098
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8630828 92 + 22407834
GAUAAUCCGCUUGCCAUU---UUCCUUUCUUC-UCAACUGCCUUUUGUCGCCUUUAACGCCGCCUAAUUGCCUAAUUAGGCAUUUGCUGGCCGAAC
(((((...((........---...........-......))...)))))(((..(((....((((((((....))))))))..)))..)))..... ( -16.01)
>DroVir_CAF1 77682 74 + 1
---------GUUGGCAA------CCCUUAGCCGUGACU---UUUUUGUCGCCUUUAAUGACGCCUAAUUGCCUAAUUAGGCAUUUGCUGG----CC
---------((..((((------.(.((((..(((((.---.....)))))..)))).)..((((((((....))))))))..))))..)----). ( -24.70)
>DroSim_CAF1 65330 92 + 1
GAUAAUCCGCUUGCCAUU---UUCCUUUCUUC-UCAACUGCCUUUUGUCGCCUUUAACGCCGCCUAAUUGCCUAAUUAGGCAUUUGCUGGCCGAAC
(((((...((........---...........-......))...)))))(((..(((....((((((((....))))))))..)))..)))..... ( -16.01)
>DroEre_CAF1 60356 95 + 1
GAUAAUCCGCUUGCCUUUUUUUUGCUUUCUUC-UCAACUGCCUUUUGUCGCCUUUAACGCCGCCUAAUUGCCUAAUUAGGCAUUUGAUGGCCGAAC
(((((...((......................-......))...)))))(((.((((....((((((((....))))))))..)))).)))..... ( -16.99)
>DroYak_CAF1 61978 93 + 1
GAUAAUCCGCUUGCGUUUU--UUCCAUUCUUC-UCAACUGCCUUUUGUCGCCUUUAACGCCGCCUAAUUGCCUAAUUAGGCAUUUGCUGGCCGAAC
.....((.(((.(((....--...........-......((........))..........((((((((....))))))))...))).))).)).. ( -16.60)
>DroMoj_CAF1 89305 80 + 1
---------CUGGCCAA------CCCUUAGCC-UGGCUUUUUUUUUGUCGCAUUUAACGAUGCCUAAUUGCCUAAUUAGGCAUUUGCAGCCAGAUC
---------(((((...------.........-.(((.........)))(((......(((((((((((....)))))))))))))).)))))... ( -23.90)
>consensus
GAUAAUCCGCUUGCCAUU___UUCCUUUCUUC_UCAACUGCCUUUUGUCGCCUUUAACGCCGCCUAAUUGCCUAAUUAGGCAUUUGCUGGCCGAAC
.................................................(((..(((....((((((((....))))))))..)))..)))..... ( -9.92 = -10.42 +   0.50)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 8,630,828 – 8,630,920
Length 92
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 76.58
Mean single sequence MFE -22.75
Consensus MFE -11.23
Energy contribution -11.59
Covariance contribution 0.36
Combinations/Pair 1.08
Mean z-score -2.08
Structure conservation index 0.49
SVM decision value 0.68
SVM RNA-class probability 0.820719
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8630828 92 - 22407834
GUUCGGCCAGCAAAUGCCUAAUUAGGCAAUUAGGCGGCGUUAAAGGCGACAAAAGGCAGUUGA-GAAGAAAGGAA---AAUGGCAAGCGGAUUAUC
(((((((((((....((((((((....)))))))).)).((((..((........))..))))-...........---..))))...))))).... ( -21.90)
>DroVir_CAF1 77682 74 - 1
GG----CCAGCAAAUGCCUAAUUAGGCAAUUAGGCGUCAUUAAAGGCGACAAAAA---AGUCACGGCUAAGGG------UUGCCAAC---------
((----(.(((...(((((....))))).((((.((((......)))(((.....---.)))..).))))..)------)))))...--------- ( -22.50)
>DroSim_CAF1 65330 92 - 1
GUUCGGCCAGCAAAUGCCUAAUUAGGCAAUUAGGCGGCGUUAAAGGCGACAAAAGGCAGUUGA-GAAGAAAGGAA---AAUGGCAAGCGGAUUAUC
(((((((((((....((((((((....)))))))).)).((((..((........))..))))-...........---..))))...))))).... ( -21.90)
>DroEre_CAF1 60356 95 - 1
GUUCGGCCAUCAAAUGCCUAAUUAGGCAAUUAGGCGGCGUUAAAGGCGACAAAAGGCAGUUGA-GAAGAAAGCAAAAAAAAGGCAAGCGGAUUAUC
((((((((......(((((((((....)))))))))((........((((........)))).-.......))........)))...))))).... ( -21.79)
>DroYak_CAF1 61978 93 - 1
GUUCGGCCAGCAAAUGCCUAAUUAGGCAAUUAGGCGGCGUUAAAGGCGACAAAAGGCAGUUGA-GAAGAAUGGAA--AAAACGCAAGCGGAUUAUC
..((.((..((...(((((((((....))))))))).((((.....((((........)))).-....))))...--.....))..)).))..... ( -21.80)
>DroMoj_CAF1 89305 80 - 1
GAUCUGGCUGCAAAUGCCUAAUUAGGCAAUUAGGCAUCGUUAAAUGCGACAAAAAAAAAGCCA-GGCUAAGGG------UUGGCCAG---------
....(((((.....(((((((((....)))))))))((((.....)))).........)))))-(((((....------.)))))..--------- ( -26.60)
>consensus
GUUCGGCCAGCAAAUGCCUAAUUAGGCAAUUAGGCGGCGUUAAAGGCGACAAAAGGCAGUUGA_GAAGAAAGGAA___AAUGGCAAGCGGAUUAUC
.....(((......(((((((((....)))))))))........)))................................................. (-11.23 = -11.59 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:39 2006