Locus 1969

Sequence ID 2L_DroMel_CAF1
Location 5,346,015 – 5,346,112
Length 97
Max. P 0.515926
window3185

overview

Window 5

Location 5,346,015 – 5,346,112
Length 97
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 82.86
Mean single sequence MFE -28.98
Consensus MFE -19.42
Energy contribution -19.62
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.62
Structure conservation index 0.67
SVM decision value -0.03
SVM RNA-class probability 0.515926
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5346015 97 - 22407834
GGCAACACGACGAAGCUCCAAACUCGAAGGACC--CAAGACGCUCCUGCGAAAAAUCAGAGGUAA-GAGCCAA-GUGGCAUCCGCGCAAGCGUUUGUUUAC
.....(((......((((....(((...(....--)....(((....)))........)))....-))))...-)))(((..(((....)))..))).... ( -25.00)
>DroSim_CAF1 4507 97 - 1
GGCAACACGACGAAGCUCCAAACUCGAAGGACC--CAAGACGCUCCUGCGAAAAAUCCGUGGAAA-GAGCCAA-GUCGCAUCCGCGCAAGCGUUUGUUUAC
(....)..(((...((((.....(((.((((.(--......).)))).)))....((....))..-))))...-)))(((..(((....)))..))).... ( -27.70)
>DroEre_CAF1 5083 97 - 1
GGCAACACGACGAAGCUCCAAACUCGAACGACC--CAAGACGCUCCUGCGAAAAAUCAGAAGUAG-GAGCCAA-GUUGCAUCCGCGCAAGCGUUUGUUUAC
.(((((....(((..........))).......--......((((((((............))))-))))...-)))))...(((....)))......... ( -27.70)
>DroYak_CAF1 4438 99 - 1
GGCAACACGACGAAGCCCCAAACUCGAAGGAGUCUUGGGACGCUCCUGCGAAAAACCAGAAGAAA-GAGCCAA-AUCGCAUCCGCGCAAGCGUUUGUUUAC
(((.............(((((((((....)))).))))).(((....)))...............-..)))..-...(((..(((....)))..))).... ( -32.90)
>DroAna_CAF1 8043 92 - 1
GGCAACACGACGAAACUGCCAAGACGAAGG---------ACGCUCCGGCGAAAGCCCGAAAAUGGUAAGCCAUCCUGGCAUCCGCGCAAGCGUUUGUUUAC
((((............)))).(((((((((---------(.((((.(((....))).))..((((....))))....)).)))((....)).))))))).. ( -31.60)
>consensus
GGCAACACGACGAAGCUCCAAACUCGAAGGACC__CAAGACGCUCCUGCGAAAAAUCAGAAGUAA_GAGCCAA_GUCGCAUCCGCGCAAGCGUUUGUUUAC
(((....................((....)).........(((....)))..................)))......(((..(((....)))..))).... (-19.42 = -19.62 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:13 2006