Locus 6215

Sequence ID 2L_DroMel_CAF1
Location 17,304,203 – 17,304,298
Length 95
Max. P 0.805048
window9931 window9932

overview

Window 1

Location 17,304,203 – 17,304,298
Length 95
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 88.31
Mean single sequence MFE -25.22
Consensus MFE -20.94
Energy contribution -21.10
Covariance contribution 0.16
Combinations/Pair 1.08
Mean z-score -1.62
Structure conservation index 0.83
SVM decision value 0.59
SVM RNA-class probability 0.791405
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17304203 95 + 22407834
------CUCGUGCUGGUGUGGCUAAUAAAAAGCCAAAACAAUUUAGAUUAACUGUAAAUUGUGUUAUUUUGUUUAGCCAGUGAGUGGAUUUGUAGUCCUG-----------G
------(((..((((((.(((((.......)))))..((((((((.(.....).)))))))).............))))))))).((((.....))))..-----------. ( -24.50)
>DroSec_CAF1 1732 95 + 1
------CUCGCGCUGGUGCGGCUAAUAAAAAGCCAAAACAAUUUAGAUUAACUGUAAAUUGUGUUAUUUUGUUUAGCCAGUGAGUGGAUUUGUAGUCCUU-----------G
------(((((((....))((((((..((((......((((((((.(.....).))))))))....))))..)))))).))))).((((.....))))..-----------. ( -26.50)
>DroSim_CAF1 2040 95 + 1
------CUCGUGCUGGUGUGGCUAAUAAAAAGCCAAAACAAUUUAGAUUAACUGUAAAUUGUGUUAUUUUGUUUAGCCAGUGAGUGGAUUUGUAGUCCUU-----------G
------(((..((((((.(((((.......)))))..((((((((.(.....).)))))))).............))))))))).((((.....))))..-----------. ( -24.50)
>DroEre_CAF1 4519 95 + 1
------CUCGUGCUGGUGUGGCUAAUAAAAAGGCAAAACAAUUUAGAUUAACUGUAAAUUGUGUUAUUUUGUUUAGCCAGUGAGUGGAUUUGACGUCCUU-----------G
------(((..((((((......(((((((..((...((((((((.(.....).))))))))))..)))))))..))))))))).((((.....))))..-----------. ( -21.50)
>DroAna_CAF1 13543 112 + 1
UGCUUAUUCGGGCUGGUGUGGCUAAUAAAAAGCCAAAACAAUUUAGAUUAACUGUAAAUUGUGUUAUUUUGUUUGGCCAGUCAGUGGAUUUGUCGCCCUGCCAGGCUCUCUC
.((..((((.(((((((.(((((.......)))))..((((((((.(.....).)))))))).............)))))))...))))..)).(((......)))...... ( -29.10)
>consensus
______CUCGUGCUGGUGUGGCUAAUAAAAAGCCAAAACAAUUUAGAUUAACUGUAAAUUGUGUUAUUUUGUUUAGCCAGUGAGUGGAUUUGUAGUCCUU___________G
..........(((((((.(((((.......)))))..((((((((.(.....).)))))))).............)))))))...((((.....)))).............. (-20.94 = -21.10 +   0.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,304,203 – 17,304,298
Length 95
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 88.31
Mean single sequence MFE -17.82
Consensus MFE -14.06
Energy contribution -13.94
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -1.77
Structure conservation index 0.79
SVM decision value 0.63
SVM RNA-class probability 0.805048
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17304203 95 - 22407834
C-----------CAGGACUACAAAUCCACUCACUGGCUAAACAAAAUAACACAAUUUACAGUUAAUCUAAAUUGUUUUGGCUUUUUAUUAGCCACACCAGCACGAG------
.-----------..(((.......))).(((.((((..............((((((((.........))))))))..(((((.......)))))..))))...)))------ ( -17.00)
>DroSec_CAF1 1732 95 - 1
C-----------AAGGACUACAAAUCCACUCACUGGCUAAACAAAAUAACACAAUUUACAGUUAAUCUAAAUUGUUUUGGCUUUUUAUUAGCCGCACCAGCGCGAG------
.-----------..(((.......))).(((...((((((..((((.....(((...((((((......)))))).)))...)))).))))))((......)))))------ ( -17.80)
>DroSim_CAF1 2040 95 - 1
C-----------AAGGACUACAAAUCCACUCACUGGCUAAACAAAAUAACACAAUUUACAGUUAAUCUAAAUUGUUUUGGCUUUUUAUUAGCCACACCAGCACGAG------
.-----------..(((.......))).(((.((((..............((((((((.........))))))))..(((((.......)))))..))))...)))------ ( -17.00)
>DroEre_CAF1 4519 95 - 1
C-----------AAGGACGUCAAAUCCACUCACUGGCUAAACAAAAUAACACAAUUUACAGUUAAUCUAAAUUGUUUUGCCUUUUUAUUAGCCACACCAGCACGAG------
.-----------..(((.......)))......(((((((..(((((((.((((((((.........)))))))).)))..))))..)))))))............------ ( -13.90)
>DroAna_CAF1 13543 112 - 1
GAGAGAGCCUGGCAGGGCGACAAAUCCACUGACUGGCCAAACAAAAUAACACAAUUUACAGUUAAUCUAAAUUGUUUUGGCUUUUUAUUAGCCACACCAGCCCGAAUAAGCA
......((.((...(((((((((......((((((.......................)))))).......))))).(((((.......))))).....))))...)).)). ( -23.42)
>consensus
C___________AAGGACUACAAAUCCACUCACUGGCUAAACAAAAUAACACAAUUUACAGUUAAUCUAAAUUGUUUUGGCUUUUUAUUAGCCACACCAGCACGAG______
..............(((.......))).....((((..............((((((((.........))))))))..(((((.......)))))..))))............ (-14.06 = -13.94 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:26 2006