Locus 873

Sequence ID 3R_DroMel_CAF1
Location 2,940,234 – 2,940,354
Length 120
Max. P 0.658457
window1387

overview

Window 7

Location 2,940,234 – 2,940,354
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.89
Mean single sequence MFE -49.05
Consensus MFE -31.27
Energy contribution -32.00
Covariance contribution 0.73
Combinations/Pair 1.32
Mean z-score -1.57
Structure conservation index 0.64
SVM decision value 0.26
SVM RNA-class probability 0.658457
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2940234 120 + 27905053
UUGGGUCCGGCCAGAGGACGGCCAUCUGGGAACUGGAUGGUGCUCUCGCCACUGGUUGACACUAGAGUGGGGGCGUGGCCGUAACCAAAGCCCUUGGGGCCGAAGAGCUUGCCGUAGCAG
((((...((((((.......((((((..(...)..))))))((((((((..(((((....))))).)))))))).))))))...)))).((((...))))......(((......))).. ( -50.70)
>DroVir_CAF1 25185 120 + 1
UUCUGACCAUUUAAUGGACCACCGUCGGGAAACUGGAUGGUGGACUCGCCGCUGGUCGAGACGAGCGUGGGCGCAUGGCCAUAGCCAAAGCCCUUGGGACCAAAGUGCUUGCCAUAGCAG
..............(((.((((((((((....)).)))))))).(((..((((.((....)).)))).((((...((((....))))..))))..))).)))...((((......)))). ( -47.10)
>DroGri_CAF1 30218 120 + 1
CGUUGACCGGUCAACGGACGACCAUCGGGAAACUGGAUGGUUGACUCACCAGUGGUGGACACCAAGGUGGGGGCAUGGCCAUAGCCAAAGCCCUUGGGGCCGAAGUGUUUGCCAUAGCAG
((((((....))))))..((((((((((....)).))))))))........((((..(((((...(((((((((.((((....))))..))))))...)))...)))))..))))..... ( -55.40)
>DroWil_CAF1 18434 120 + 1
UUUUGACCAUUGAAUGGACGUCCAUCUGGGAAUUGAAUUGUCGACUCACCACUGGUGGACACCAGAGUUGGAGCAUGGCCAUAACCGAAUCCCUUGGGGCCAAAGAGUUUGCCAUAACAG
.((((.((((...))))..((((((((((((.((((....)))).)).)))..)))))))..))))((((..((((((((....((((.....))))))))).......)))..)))).. ( -34.81)
>DroMoj_CAF1 28609 120 + 1
UUCUGGCCAUUCAGUGGGCCGCCAUCGGGAAACUGAAUGGUGGACUCGCCGCUGGUGGAGACCAGGGUGGGGGCAUGUCCAUAGCCAAAGCCCUUGGGGCCGUACCGCUUGCCGUAGCAG
....((((...(((.(((((((((((((....))).))))))..((((((.(((((....)))))))))))(((.........)))...))))))).)))).....(((......))).. ( -54.30)
>DroPer_CAF1 21041 120 + 1
CGCGCUCCGUUCAGGGGACCGCCAUCGGGGAACUGAAUGGUGGACUCGCCGCUGGUCGACACCAGAGUGGGGGCAUGGCCAUAGCCAAAGCCCUUAGGGCCAAAGUGCUUGCCAUAGCAG
.(((((((.....((.((((((((((((....))).)))))))..)).)).(((((....)))))....)))))(((((...((((...((((...))))....).))).))))).)).. ( -52.00)
>consensus
UUCUGACCAUUCAAUGGACCGCCAUCGGGAAACUGAAUGGUGGACUCGCCACUGGUGGACACCAGAGUGGGGGCAUGGCCAUAGCCAAAGCCCUUGGGGCCAAAGUGCUUGCCAUAGCAG
......(((.....))).((((((((((....))).))))))).(((((..(((((....))))).))))).(((((((...(((....((((...))))......))).))))).)).. (-31.27 = -32.00 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:16 2006