Locus 1723

Sequence ID X_DroMel_CAF1
Location 4,799,580 – 4,799,680
Length 100
Max. P 0.529385
window2830

overview

Window 0

Location 4,799,580 – 4,799,680
Length 100
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 77.83
Mean single sequence MFE -36.17
Consensus MFE -19.50
Energy contribution -21.42
Covariance contribution 1.92
Combinations/Pair 1.27
Mean z-score -1.69
Structure conservation index 0.54
SVM decision value -0.01
SVM RNA-class probability 0.529385
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4799580 100 + 22224390
GAUGACCAGCAGCCGUUGAACAAUGAAACGACGGCCACCUUGUCAUCGGCCAGCUGCAGCAGCAGCACCCAUG---ACGUGCAUGUGGUUCUCCAGGAGGCGA-----------
((((((.((..(((((((..........)))))))...)).)))))).(((.(((((....)))))(((((((---.....)))).))).........)))..----------- ( -39.60)
>DroSim_CAF1 6752 100 + 1
GAUGACCAGCAGCCGUUGAACAAUGAAACGACGGCCACCUUGUCAUCGGCCAGCUGCAGCAGCAGCACCCAUG---ACGUGCAUGUGGUUCUCCAGGAGGCGA-----------
((((((.((..(((((((..........)))))))...)).)))))).(((.(((((....)))))(((((((---.....)))).))).........)))..----------- ( -39.60)
>DroEre_CAF1 12875 100 + 1
GAUGACCAGCAGCCGUUGAACAAUGAAACGACGGCCACCUUGUCAUCGGCCAGCUGCAGCAGCAGCACCCAGG---AAGUGCAUGUGGAUCUCCAGAAGGCGA-----------
((((((.((..(((((((..........)))))))...)).)))))).(((.(((((....))))).....((---(..(.(....).)..)))....)))..----------- ( -38.30)
>DroYak_CAF1 6763 111 + 1
GAUGACCAGCAGCCGUUAAACAAUGAAACGACGGCCACCUUGUCAUCGGGCAGCUGCAGCAGCAGCACCCAGG---AUGUGCAUGUGGAUCUCCAGAAGACGAUCUCGAUCUCG
((((((.((..((((((............))))))...)).))))))(((..(((((....))))).))).((---(.((.(....).)).))).((.((((....)).)))). ( -37.00)
>DroAna_CAF1 7216 103 + 1
GAUGAUCUGCAGCCAUUGAAUAAUGAGACGACGGCCACUCUGUCGUCCGGCAGCGGAAGCGGCAGCAUCACUAGCCAGGAGCAUGUGGAGCAGCUGCAGUCGA-----------
..(((.(((((((..........((.((((((((.....))))))))))((.((....)).)).((..(((..((.....))..)))..)).)))))))))).----------- ( -40.70)
>DroPer_CAF1 7763 97 + 1
GAUGAUCAGCAGCCAUUGAACAAUGAGACGACAGCCACAUUGUCGACAGCCAGCAGUAGCAGU---AUUAGUG---AGGAUCAGGUGGAUCAUCAGGAACAGC-----------
(((((((....(((..............((((((.....))))))....((.((((((....)---))).)).---.))....))).))))))).........----------- ( -21.80)
>consensus
GAUGACCAGCAGCCGUUGAACAAUGAAACGACGGCCACCUUGUCAUCGGCCAGCUGCAGCAGCAGCACCCAUG___ACGUGCAUGUGGAUCUCCAGGAGGCGA___________
((((((.((..(((((((..........)))))))...)).)))))).(((.(((((....)))))...................(((....)))...)))............. (-19.50 = -21.42 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:32 2006