Locus 3381

Sequence ID X_DroMel_CAF1
Location 9,001,059 – 9,001,163
Length 104
Max. P 0.688402
window5537 window5538

overview

Window 7

Location 9,001,059 – 9,001,163
Length 104
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 92.71
Mean single sequence MFE -24.73
Consensus MFE -17.34
Energy contribution -16.90
Covariance contribution -0.44
Combinations/Pair 1.09
Mean z-score -2.87
Structure conservation index 0.70
SVM decision value -0.04
SVM RNA-class probability 0.515195
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9001059 104 + 22224390
CAG-CAUGUGUGU------GCGUGUAGAUGUGACAGCUGCACAUCCUCACAAAAGAGAAUGCCAAAGGAAAAAGAAAAUAAAAAGCAAUUAUGCAAUAACAUACGGGAAAA
...-..(((((((------..(((..((((((.(....)))))))..)))..................................(((....)))....)))))))...... ( -21.10)
>DroSec_CAF1 1689 104 + 1
CAG-CAUGUGUGU------GCGUGUAGAUGUGACAGCUGCACAUUCUCACAAAAGAGAAUGCCAAAGGAAAAAGAAAAUAAAAAGCAAUUAUGCAAUAACAUGCGGGAAAA
..(-(((((...(------((((((((.((...)).))))))((((((......))))))................................)))...))))))....... ( -26.90)
>DroEre_CAF1 1829 103 + 1
CAG-CAUGUGUGU------GUGUGUAGAUGUGACAGCUGCACAUCCUCACAAAAGAGAAUGCCAAAGGAAAAAGAAAAUAA-AAACAAUUAUGCAAUAACAUGCGGGAAAA
..(-(((((.(((------(((((..((((((.(....)))))))..)))...........((...)).............-........)))))...))))))....... ( -23.20)
>DroYak_CAF1 1759 111 + 1
CAACCAUGUGUGUGUGUGCGUGUGUAGAUGUGACAGCUGCACAUCCUCACAAAAGAGAAUGCCGAAGGAAAAGGAAAAUAAAAAACAAUUAUGCAAUAACAUGCGGGAAAA
...((.(((((((...((((((((..((((((.(....)))))))..)))...........((.........))................)))))...))))))))).... ( -27.70)
>consensus
CAG_CAUGUGUGU______GCGUGUAGAUGUGACAGCUGCACAUCCUCACAAAAGAGAAUGCCAAAGGAAAAAGAAAAUAAAAAACAAUUAUGCAAUAACAUGCGGGAAAA
....(((((.(((......(((((..((((((.(....)))))))..)))...........((...))................))......)))...)))))........ (-17.34 = -16.90 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 9,001,059 – 9,001,163
Length 104
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 92.71
Mean single sequence MFE -21.71
Consensus MFE -16.27
Energy contribution -15.65
Covariance contribution -0.62
Combinations/Pair 1.19
Mean z-score -2.29
Structure conservation index 0.75
SVM decision value 0.32
SVM RNA-class probability 0.688402
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9001059 104 - 22224390
UUUUCCCGUAUGUUAUUGCAUAAUUGCUUUUUAUUUUCUUUUUCCUUUGGCAUUCUCUUUUGUGAGGAUGUGCAGCUGUCACAUCUACACGC------ACACACAUG-CUG
.......((((((...(((.....((((....................)))).........(((.((((((((....).))))))).)))))------)...)))))-).. ( -24.05)
>DroSec_CAF1 1689 104 - 1
UUUUCCCGCAUGUUAUUGCAUAAUUGCUUUUUAUUUUCUUUUUCCUUUGGCAUUCUCUUUUGUGAGAAUGUGCAGCUGUCACAUCUACACGC------ACACACAUG-CUG
.......((((((...((((((..((((....................))))(((((......)))))))))))(((((.......))).))------....)))))-).. ( -22.45)
>DroEre_CAF1 1829 103 - 1
UUUUCCCGCAUGUUAUUGCAUAAUUGUUU-UUAUUUUCUUUUUCCUUUGGCAUUCUCUUUUGUGAGGAUGUGCAGCUGUCACAUCUACACAC------ACACACAUG-CUG
.......(((......)))..........-..................(((((.......((((.((((((((....).))))))).)))).------......)))-)). ( -21.14)
>DroYak_CAF1 1759 111 - 1
UUUUCCCGCAUGUUAUUGCAUAAUUGUUUUUUAUUUUCCUUUUCCUUCGGCAUUCUCUUUUGUGAGGAUGUGCAGCUGUCACAUCUACACACGCACACACACACAUGGUUG
........(((((...(((.........................(....)..........((((.((((((((....).))))))).)))).))).......))))).... ( -19.20)
>consensus
UUUUCCCGCAUGUUAUUGCAUAAUUGCUUUUUAUUUUCUUUUUCCUUUGGCAUUCUCUUUUGUGAGGAUGUGCAGCUGUCACAUCUACACAC______ACACACAUG_CUG
.......((((((....(((....))).................................((((.((((((((....).))))))).))))...........))))).).. (-16.27 = -15.65 +  -0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:01 2006