Locus 3271

Sequence ID 2R_DroMel_CAF1
Location 11,177,705 – 11,177,815
Length 110
Max. P 0.529602
window5366

overview

Window 6

Location 11,177,705 – 11,177,815
Length 110
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 76.02
Mean single sequence MFE -42.77
Consensus MFE -28.12
Energy contribution -29.59
Covariance contribution 1.46
Combinations/Pair 1.17
Mean z-score -1.10
Structure conservation index 0.66
SVM decision value -0.01
SVM RNA-class probability 0.529602
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11177705 110 - 20766785
GCAGCAAUCACUGCUGGCC---GCCACUACGGGUAUGUUCAGUUCGGCGGGUCAGUCGCCGACGACCGUAGCCGCCGGUACCGCUCAGUCGCCGCUGGGCGGCACUCAU----ACAC
.(((((.....))))).((---(......)))(((((.......((((((.((.((((....)))).).).))))))((.(((((((((....))))))))).)).)))----)).. ( -47.60)
>DroPse_CAF1 92560 83 - 1
GCAGCCCUCGCUGCUAUCC---------ACGGGUAUGUU---------AGCUCAGUCGCCGCCGACUCCAACCGG------CGCCCAGUCGGCCAUCUCCGGCUCA----------C
(((((....))))).....---------..((((.....---------.((......)).((((........)))------)))))((((((......))))))..----------. ( -28.70)
>DroSec_CAF1 92266 110 - 1
GCAGCAAUCACUGCUGGCC---GCCACUACGGGUAUGUUCAGUUCGGCGGGUCAGUCGCCGACGACCGUAGUCGCCGGUACCGCUCAGUCGCCGCUGGGCGGCACUCAU----ACAC
.(((((.....)))))(((---((.((((((((......).((.((((((.....))))))))..))))))).).)))).(((((((((....))))))))).......----.... ( -47.10)
>DroEre_CAF1 94823 110 - 1
GCAGCAAUCACUGCUGGCC---GCCACUACGGGUAUGUUCAGUUCGGCGGGUCAGUCGCCGACGACCGUAGCCGCCGGUACCGCUCAGUCGCCGCUCAGCGGCACUCAU----ACAC
.(((((.....))))).((---(......)))(((((.......((((((.((.((((....)))).).).))))))((.(((((.(((....))).))))).)).)))----)).. ( -42.30)
>DroYak_CAF1 92326 110 - 1
GCAGCAAUCACUGCUGGCC---GCCACUACGGGUAUGUUUAGUUCGGCGGGUCAGUCGCCGACGACCGUAGCCGCCGGUACCGCUCAGUCGCCGCUCGGCGGCACUCAU----ACAC
.(((((.....)))))(((---(((....(((.((((....((.((((((.....))))))))...)))).))).((((..(.....)..))))...))))))......----.... ( -44.20)
>DroAna_CAF1 100426 117 - 1
GCAGCCCUCGCUGCUGGCUGCGGCCACCUCGGGUAUGUUCAGUUCGGCAGGUCAAUCGGCAUCGGCCUCUACUGGCACUGCCUCCCAGUCGCCAAUCGGCGGCACCCACUCCCACAC
(((((....)))))((((....))))....((((...........(((((((((...(((....))).....)))).))))).....((((((....)))))))))).......... ( -46.70)
>consensus
GCAGCAAUCACUGCUGGCC___GCCACUACGGGUAUGUUCAGUUCGGCGGGUCAGUCGCCGACGACCGUAGCCGCCGGUACCGCUCAGUCGCCGCUCGGCGGCACUCAU____ACAC
((((......))))((((....))))....((((.........(((((((....((((....)))).....)))))))....)))).((((((....)))))).............. (-28.12 = -29.59 +   1.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:34 2006