Locus 9208

Sequence ID 3R_DroMel_CAF1
Location 24,547,499 – 24,547,604
Length 105
Max. P 0.658484
window14729

overview

Window 9

Location 24,547,499 – 24,547,604
Length 105
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 75.00
Mean single sequence MFE -30.35
Consensus MFE -20.81
Energy contribution -20.37
Covariance contribution -0.44
Combinations/Pair 1.32
Mean z-score -1.07
Structure conservation index 0.69
SVM decision value 0.26
SVM RNA-class probability 0.658484
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24547499 105 - 27905053
CGUGGGGUGUGACCGCGUAGGCAUAAAACUGGUGCGUUCGCAGCAGCGAGAUGCCGAUAGAGGUGACCAGCGACUGGAGG---AAGGGAGGAGAAUCGAAUCGAGAAA
(((...(.((.(((.(...(((((....(((.(((....))).)))....)))))....).))).))).))).((.((..---..((........))...)).))... ( -29.80)
>DroPse_CAF1 54164 90 - 1
CGUGCGGAGUCACCGCGUAGGCAUAAAACUGGUGCGUGCGUAGCAGAGCGAUGCCAAUGGAGGCCAGCAGCGUCUGCAGG---AAAGAACGAG---------------
(((((((.....))))((((((......(((.(((....))).))).((...(((......)))..))...))))))...---.....)))..--------------- ( -30.50)
>DroEre_CAF1 50097 99 - 1
CGUGGGGAGUGACCGCGUAGGCAUAAAACUGGUGCGUUCGCAGCAGCGAGAUGCCGAUGGAAGCCAACAGCGGCUGGGGGG--AAGGGAGACGAG-------AAGAAA
(((((.......)))))..(((((....(((.(((....))).)))....)))))......((((......))))......--...(....)...-------...... ( -30.60)
>DroYak_CAF1 46796 101 - 1
CGUGGGGAGUAACCGCGUAGGCAUAAAACUGGUGCGUUCGCAGCAGCGAGAUGCCGAUGGAGGCCACCAGCGACUGGGGGGAGAAGGGGGUUGAA-------AAGAAA
(((((.......)))))..(((((....(((.(((....))).)))....)))))......((((.((..(..(.....)..)...))))))...-------...... ( -31.10)
>DroMoj_CAF1 58563 91 - 1
CGUAAGGUGUCACUGCGUAGGCGUAAAACUGAUGUGUGCGCAGCAGCGAGGUGCCAAUGGAGGCGAUAAGCGGCUGCAAG---GUGUGUGG-G-------------AG
.......(.((((((((((.((((.......)))).)))(((((.((....((((......))))....)).)))))...---))).))))-.-------------). ( -29.60)
>DroPer_CAF1 33559 90 - 1
CGUGCGGAGUCACCGCGUAGGCAUAAAACUGGUGCGUGCGUAGCAGAGCGAUGCCAAUGGAGGCCAGCAGCGUCUGCAGG---AAAGAACGAG---------------
(((((((.....))))((((((......(((.(((....))).))).((...(((......)))..))...))))))...---.....)))..--------------- ( -30.50)
>consensus
CGUGGGGAGUCACCGCGUAGGCAUAAAACUGGUGCGUGCGCAGCAGCGAGAUGCCAAUGGAGGCCACCAGCGACUGCAGG___AAGGGAGGAG_____________AA
((((.(......)))))..(((((....(((.(((....))).)))....)))))........((.((((...)))).))............................ (-20.81 = -20.37 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:59 2006