Locus 8726

Sequence ID 3R_DroMel_CAF1
Location 23,307,586 – 23,307,689
Length 103
Max. P 0.548622
window14012

overview

Window 2

Location 23,307,586 – 23,307,689
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.75
Mean single sequence MFE -29.74
Consensus MFE -17.75
Energy contribution -17.92
Covariance contribution 0.17
Combinations/Pair 1.08
Mean z-score -1.59
Structure conservation index 0.60
SVM decision value 0.03
SVM RNA-class probability 0.548622
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23307586 103 + 27905053
C-AGC-----------CCACAGAACCCACUCACCUGUACAGGUGAGCCAUGUUGUCAGCGGAAGGUAGCUACAAAUUCUC----GUUGC-AAAAGCUUUUAGUGAAUUUAUGGCAAGGAA
.-...-----------((.....(((..(((((((....)))))))((.((....))..))..))).((((.((((((.(----...((-....)).....).)))))).))))..)).. ( -27.30)
>DroPse_CAF1 108069 103 + 1
C-AUA-----------CCGCAUCCCUUUGGCACCUGUACAGGUGAGCCAUGUUGUCAGCGGAAGGCAGCAACAAAUUCUC----GUUGC-AAAAGCUUUUAGUGAAUUUAUGGCAAGGAA
.-...-----------.......((((...(((((....))))).((((((...(((...((((((.(((((........----)))))-....))))))..)))...)))))))))).. ( -32.20)
>DroWil_CAF1 112162 88 + 1
-------------------------------CCGGGGCCAGGUGAGCCAUGUUGUCAGCGGAAGGUAGCAACAAAUUUUCGUUCGUUGG-AAAAGCUUUUAGUAAAUUUAUGGCAAGGAA
-------------------------------((...((((...((((..(((((..(.(....).)..)))))..((((((.....)))-))).))))............))))..)).. ( -22.36)
>DroYak_CAF1 115379 104 + 1
CCAGC-----------ACACAGAACACACUCACCUGUACAGGUGAGCCAUGUUGUCAGCGGAAGGUAGCUACAAAUUCUC----GUUGC-AAAAGCUUUUAGUGAAUUUAUGGCAAGGAA
((.((-----------..((((......(((((((....))))))).....))))..))........((((.((((((.(----...((-....)).....).)))))).))))..)).. ( -27.40)
>DroAna_CAF1 99833 115 + 1
C-AGGCACCUGCCACCUCCUUCUACAGACUCACCUGUACAGGUGAGCCAUGUUGUCAGCGGAAGGUAGCUACAAAUUCUC----GUUGCGAAAAGCUUUUAGUGAAUUUAUGGCAAGGAA
.-.(((....))).((((((((..(.(.(((((((....))))))).).((....)))..)))))..((((.((((((.(----...((.....)).....).)))))).)))).))).. ( -37.00)
>DroPer_CAF1 108549 103 + 1
C-AUA-----------CCGCAUCCCUUUGGCACCUGUACAGGUGAGCCAUGUUGUCAGCGGAAGGCAGCAACAAAUUCUC----GUUGC-AAAAGCUUUUAGUGAAUUUAUGGCAAGGAA
.-...-----------.......((((...(((((....))))).((((((...(((...((((((.(((((........----)))))-....))))))..)))...)))))))))).. ( -32.20)
>consensus
C_AGA___________CCACAGAACACACUCACCUGUACAGGUGAGCCAUGUUGUCAGCGGAAGGUAGCAACAAAUUCUC____GUUGC_AAAAGCUUUUAGUGAAUUUAUGGCAAGGAA
..............................(((((....))))).(((((((((((.......))))))...((((((.(....(((......))).....).)))))))))))...... (-17.75 = -17.92 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:11 2006