Locus 4042

Sequence ID 2L_DroMel_CAF1
Location 11,707,823 – 11,707,927
Length 104
Max. P 0.844015
window6367

overview

Window 7

Location 11,707,823 – 11,707,927
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.19
Mean single sequence MFE -29.35
Consensus MFE -24.53
Energy contribution -24.50
Covariance contribution -0.03
Combinations/Pair 1.11
Mean z-score -1.75
Structure conservation index 0.84
SVM decision value 0.76
SVM RNA-class probability 0.844015
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11707823 104 - 22407834
UCGAGCGAGCCGCUAGGCCUGUAAGGAAAUGUGGCUUGUUGUGCAAGUAGAUUAGCAUUGAAUUUGAAUGGAAAAUGAAAAUGUUUUCCACACACACACACAC----------------A
...((((((((((....((.....))....))))))))))((((((((.(((....)))..)))))..((((((((......)))))))))))..........----------------. ( -28.50)
>DroPse_CAF1 161135 93 - 1
UCGAGCGAGCCUCUCGGCC----GGGAAAUGCGGCUUGUUCGGCAAGUAGAUUAGCAUUGGAUUUGAAUGGAAAAUGAAAAUGUUUUCCACACCC--AG---------------------
(((((((((((((((....----)))).....)))))))))))(((((.(((....)))..)))))..((((((((......)))))))).....--..--------------------- ( -27.60)
>DroEre_CAF1 192177 105 - 1
UCGAGCGAGCCGCUAGGCCUGUAAGGAAAUGUGGCUUGUUGUGCAAGUGGAUUAGCAUUGAAUUUGAAUGGAAAAUGAAAAUGUUUUCCACACAC--ACACAC----------AC---UA
...((((((((((....((.....))....))))))))))(((...(((((..((((((..((((.......))))...)))))).)))))...)--))....----------..---.. ( -33.40)
>DroYak_CAF1 166279 108 - 1
UCGAGCGAGCCGCUAGGCCUGUAAGGAAAUGUGGCUUGUUGUGCAAGUAGAUUAGCAUUGAAUUUGAAUGGAAAAUGAAAAUGUUUUCCACACAC--ACAUAC----------ACUCUUA
..(((((((((((....((.....))....)))))))).(((((((((.(((....)))..)))))..((((((((......))))))))....)--)))...----------.)))... ( -28.60)
>DroAna_CAF1 172954 112 - 1
UUGAGCAGGCCGCU---CCUUGCAGGAAAUGCGGCUUGUUGUGCAAGUAGAUUAGCAUUGAAUUUGAAUGGAAAAUGAAAAUGUUUUCCACUCUC--ACACAGACACACACAGAC---CA
...(((((((((((---((.....)))...))))))))))((((((((......)).))).....((.((((((((......)))))))).))..--.)))..............---.. ( -30.70)
>DroPer_CAF1 162235 93 - 1
CCGAGCGAGCCUCUCGGCC----GGGAAAUGCGGCUUGUUCUGCAAGUAGAUUAGCAUUGGAUUUGAAUGGAAAAUGAAAAUGUUUUCCACACCC--AG---------------------
(((((.......)))))..----(((.(((((.(((((.....)))))......))))).........((((((((......))))))))..)))--..--------------------- ( -27.30)
>consensus
UCGAGCGAGCCGCUAGGCCUGUAAGGAAAUGCGGCUUGUUGUGCAAGUAGAUUAGCAUUGAAUUUGAAUGGAAAAUGAAAAUGUUUUCCACACAC__ACACAC________________A
...((((((((((....((.....))....))))))))))...(((((.(((....)))..)))))..((((((((......)))))))).............................. (-24.53 = -24.50 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:49 2006