Locus 8330

Sequence ID X_DroMel_CAF1
Location 20,676,970 – 20,677,115
Length 145
Max. P 0.939652
window13685 window13686

overview

Window 5

Location 20,676,970 – 20,677,081
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 82.58
Mean single sequence MFE -34.30
Consensus MFE -24.99
Energy contribution -27.47
Covariance contribution 2.48
Combinations/Pair 1.12
Mean z-score -2.49
Structure conservation index 0.73
SVM decision value 1.30
SVM RNA-class probability 0.939652
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20676970 111 - 22224390
GCCGCAGAAUAAGUGGCAAUUGAGCAUUUGAUUGGGCAGUGAGUCUGAGAAGUUUGCAGCCACGGCUGUGAGCAUUGAAAUAUGGCUCGACAAUCAGAUGGCUGGCUUUAA
(((((.......))))).....((((((((((((.....((((((...((.(((..((((....))))..))).)).......)))))).))))))))).)))........ ( -40.00)
>DroEre_CAF1 73392 111 - 1
GCCACAGAAUAAGUGGCAAUUGAGCAUUUGAUUGGGCAGUGAGUUUGAGAAGUUUGCUGCCACGGCUUUGAGCUUUGAAAUAUGGCUCGACAAUCAGAUGGCUGGCUUUAA
(((((.......))))).....(((((((((((((((((..(..(.....)..)..)))))......(((((((.........)))))))))))))))).)))........ ( -40.10)
>DroYak_CAF1 74848 95 - 1
GCCGCAGAAUAAGUGGCAAUUCAACAUUUGAUUGGGCGGCGAGUCUGAGAAGUUUGU----------------UUUGAAAUAUUACUCGGCAAUCAGAUAGCUGGCUUUAA
(((((.......)))))................((.((((..((((((.....((((----------------..(((........))))))))))))).)))).)).... ( -22.80)
>consensus
GCCGCAGAAUAAGUGGCAAUUGAGCAUUUGAUUGGGCAGUGAGUCUGAGAAGUUUGC_GCCACGGCU_UGAGCUUUGAAAUAUGGCUCGACAAUCAGAUGGCUGGCUUUAA
(((((.......))))).....((((((((((((.....((((((...((((((((.(((....))).)))))))).......)))))).))))))))).)))........ (-24.99 = -27.47 +   2.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,677,004 – 20,677,115
Length 111
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 79.71
Mean single sequence MFE -32.77
Consensus MFE -23.01
Energy contribution -24.60
Covariance contribution 1.59
Combinations/Pair 1.18
Mean z-score -1.45
Structure conservation index 0.70
SVM decision value -0.03
SVM RNA-class probability 0.517299
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20677004 111 - 22224390
AUUAAGUGGUGUGGUUUGAUGUU------GUCCAGGGGCAGCCGCAGAAUAAGUGGCAAUUGAGCAUUUGAUUGGGCAGUGAGUCUGAGAAGUUUGCAGCCACGGCUGUGAGCAUUG
.............(((..((..(------(((....))))(((((.......))))).))..)))......(..(((.....)))..)...(((..((((....))))..))).... ( -34.50)
>DroEre_CAF1 73426 111 - 1
AUUAAGUGCUGCGGUUUGAUGCU------GUCCAGUGGCAGCCACAGAAUAAGUGGCAAUUGAGCAUUUGAUUGGGCAGUGAGUUUGAGAAGUUUGCUGCCACGGCUUUGAGCUUUG
.(((((.(((((((((.((((((------(((....))).(((((.......))))).....)))))).)))))(((((..(..(.....)..)..))))).)))))))))...... ( -37.00)
>DroYak_CAF1 74882 101 - 1
AUUAAGUGCUGUGGUUUGAUGUUGUCGUUGUCCAGGGGCAGCCGCAGAAUAAGUGGCAAUUCAACAUUUGAUUGGGCGGCGAGUCUGAGAAGUUUGU----------------UUUG
......((((((((((.(((((((....((((....))))(((((.......)))))....))))))).))))..))))))................----------------.... ( -26.80)
>consensus
AUUAAGUGCUGUGGUUUGAUGUU______GUCCAGGGGCAGCCGCAGAAUAAGUGGCAAUUGAGCAUUUGAUUGGGCAGUGAGUCUGAGAAGUUUGC_GCCACGGCU_UGAGCUUUG
.......(((((((((.((((((......(((....))).(((((.......))))).....)))))).))))..)))))........((((((((.(((....))).)))))))). (-23.01 = -24.60 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:24 2006