Locus 2233

Sequence ID 3R_DroMel_CAF1
Location 6,358,258 – 6,358,356
Length 98
Max. P 0.545349
window3627

overview

Window 7

Location 6,358,258 – 6,358,356
Length 98
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -21.13
Consensus MFE -12.42
Energy contribution -12.53
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -1.59
Structure conservation index 0.59
SVM decision value 0.02
SVM RNA-class probability 0.545349
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6358258 98 + 27905053
ACAUGUCCAAAGGCAAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGUUUCGAAGCCAUCGAAA---AAGGG-UU----------------GGGGCUGGGGAA
...(((((...(((.....)))....))))).(((((..((((...(((....))).((...((((((.....))))))---..)))-))----------------)..))))).... ( -27.50)
>DroVir_CAF1 131692 88 + 1
ACAUGUCCAAAGGCGAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGU-UCGAAGCCAUCGAAGUCUAAGCC-CC----------------------------
...(((((...((((...))))....)))))....((.........(((....)))......(-((((.....)))))......)).-..---------------------------- ( -15.30)
>DroPse_CAF1 121008 95 + 1
ACAUAUCCAAAGGCAAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGU-UCGAAGCCAUCGAAG---AAGCA-CC----------------CAAGCCCAAG--
...(((((...(((.....)))....)))))....((.........(((....)))......(-((((.....))))).---..)).-..----------------..........-- ( -15.40)
>DroGri_CAF1 157712 100 + 1
ACAUGUCCAAAGGCGAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGU-UCGAACCCAUCGAAGUCUAAAGC-UU----------------AGAGCCGAGGGA
...(((((...((((...))))....)))))...............(((....))).......-.....(((.(((...((((....-.)----------------)))..)))))). ( -19.10)
>DroWil_CAF1 214960 111 + 1
AGAUGUCCAAAGGCAAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGU-UCGAAGCCAUCGAAA---GAAGCCCCCCAA---AAGAAGGGGGGGGCACAAGAG
.(((((((...(((.....)))....)))).)))............(((....))).......-.....(((.((....---))..((((((..---.....)))))))))....... ( -32.40)
>DroPer_CAF1 128056 102 + 1
ACAUAUCCAAAGGCAAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGU-UCGAAGCCAUCGAAG---AAGCA-CCCAGCGCC---------CAAGCCCAGG--
...(((((...(((.....)))....)))))....((.........(((....)))......(-((((.....))))).---..)).-((..((...---------...))...))-- ( -17.10)
>consensus
ACAUGUCCAAAGGCAAACCGCCAAAAGGAUAAUCAGCAACAAUUUAGUAUUAUUACACCACGU_UCGAAGCCAUCGAAG___AAGCC_CC________________CGAGCCCAGG__
...(((((...(((.....)))....)))))....((.........(((....)))........((((.....))))................................))....... (-12.42 = -12.53 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:31 2006