Locus 3384

Sequence ID 2L_DroMel_CAF1
Location 9,802,332 – 9,802,452
Length 120
Max. P 0.824444
window5354

overview

Window 4

Location 9,802,332 – 9,802,452
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.06
Mean single sequence MFE -27.47
Consensus MFE -24.68
Energy contribution -24.85
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.90
SVM decision value 0.69
SVM RNA-class probability 0.824444
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9802332 120 + 22407834
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUCUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAUUGUAACUCCUGAAACAAAAGAAU
.....((((((((....(((....))).)))))))).......(..(((((.((((((((((....))))))))..)).)))..(((((......)))))....))..)........... ( -28.40)
>DroGri_CAF1 12640 120 + 1
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUCUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAUUGUAACUCCUGAAACAAAAGAAU
.....((((((((....(((....))).)))))))).......(..(((((.((((((((((....))))))))..)).)))..(((((......)))))....))..)........... ( -28.40)
>DroSec_CAF1 11110 120 + 1
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUAUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAGAANNNNNNNNNNNNNNNNNNNNN
.....((((((((....(((....))).))))))))..((((((((...))).))))).((((((..(((....)))..))).))).................................. ( -22.80)
>DroSim_CAF1 14441 120 + 1
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUCUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAUUGUAACUCCUGAAACAAAAGAAU
.....((((((((....(((....))).)))))))).......(..(((((.((((((((((....))))))))..)).)))..(((((......)))))....))..)........... ( -28.40)
>DroEre_CAF1 13987 120 + 1
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUCUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAUUGUAACUCCUGAAACAAAAGAAU
.....((((((((....(((....))).)))))))).......(..(((((.((((((((((....))))))))..)).)))..(((((......)))))....))..)........... ( -28.40)
>DroWil_CAF1 16701 120 + 1
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUCUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAUUGUAACUCCUGAAACAAAAGAAU
.....((((((((....(((....))).)))))))).......(..(((((.((((((((((....))))))))..)).)))..(((((......)))))....))..)........... ( -28.40)
>consensus
UUUAAAUGCAAUCGCUACCUAACAAGGGGAUUGCAUCAGAUACUUGGGGCAAUGUCUCAGCUACAAGGUUGAGAAACACUGUGAGCGAUAGAAGAAUUGUAACUCCUGAAACAAAAGAAU
..........((((((.(((....)))(((((((..(((....)))..))))).((((((((....))))))))....))...))))))............................... (-24.68 = -24.85 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:07 2006