Locus 6022

Sequence ID 3L_DroMel_CAF1
Location 16,059,694 – 16,059,853
Length 159
Max. P 0.620044
window9635 window9636

overview

Window 5

Location 16,059,694 – 16,059,814
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -35.23
Consensus MFE -35.89
Energy contribution -35.23
Covariance contribution -0.66
Combinations/Pair 1.08
Mean z-score -1.37
Structure conservation index 1.02
SVM decision value 0.18
SVM RNA-class probability 0.620044
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16059694 120 - 23771897
UACAUACUUUGGUUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUGUCUAGGAACGGAUAACCAUUCAGCGCAAUGUGCGCAUCGUAGAUACCUUGCCUGCCCAG
((((.((.(((((((((.......))))))))).)))))).(((((((......)))))((((((.((..((....)).....((((.....)))).)).))))))....))........ ( -34.90)
>DroSim_CAF1 65 120 - 1
UACAUACUUUGGUUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUAUCUAGGAACGGAUAACCAUUCAGCGCUAUGUGCGCAUCGUAGAUACCUUGCCUGCCGAG
((((.((.(((((((((.......))))))))).)))))).(((((((......)))))((((((.((..((....)).....((((.....)))).)).))))))....))........ ( -35.10)
>DroYak_CAF1 241 120 - 1
UACAUACUUUGGCUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUAUCUAGGAACGGAUAACCAUUCAGCGCUAUGUGUGCAUCGUAGAUACCUUGCCUGCCGAG
((((.((.(((((((((.......))))))))).)))))).(((((((......)))))((((((.((..((....)).....((((.....)))).)).))))))....))........ ( -35.70)
>consensus
UACAUACUUUGGUUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUAUCUAGGAACGGAUAACCAUUCAGCGCUAUGUGCGCAUCGUAGAUACCUUGCCUGCCGAG
((((.((.(((((((((.......))))))))).)))))).(((((((......)))))((((((.((..((....)).....((((.....)))).)).))))))....))........ (-35.89 = -35.23 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,059,734 – 16,059,853
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.15
Mean single sequence MFE -29.03
Consensus MFE -24.34
Energy contribution -24.23
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.84
SVM decision value 0.07
SVM RNA-class probability 0.569927
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16059734 119 - 23771897
UU-UUGUUAGAUGAUCUUGAGGAAAAAAAGGUUUUCUUUAUACAUACUUUGGUUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUGUCUAGGAACGGAUAACCAU
..-((.((((((.....(((((((((.....)))))))))..(((((.(((((((((.......)))))))))....))))).(((((......))))).)))))).)).((....)).. ( -29.50)
>DroSim_CAF1 105 119 - 1
UAGAAGUUAGUUUAUCUUGAGGAUAA-AAUGUGUUAUUAAUACAUACUUUGGUUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUAUCUAGGAACGGAUAACCAU
.(((((....((((((.....)))))-).(((((.....(((((.((.(((((((((.......))))))))).))))))))))))....)))))....(((((......)))))..... ( -28.20)
>DroYak_CAF1 281 118 - 1
AU-UUGUUAGAUAAUUUUGAUGAUAA-UUUUUAUACCUUAUACAUACUUUGGCUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUAUCUAGGAACGGAUAACCAU
..-((.(((((((.............-...........((((((.((.(((((((((.......))))))))).)))))))).(((((......)))))))))))).)).((....)).. ( -29.40)
>consensus
UU_UUGUUAGAUAAUCUUGAGGAUAA_AAUGUAUUCUUUAUACAUACUUUGGUUGCAUCACAUCUGCGGCCAGUGUUGUAUGCGCAAACUCUUCUUUGCUAUCUAGGAACGGAUAACCAU
.....((((.....(((((..((((..............(((((.((.(((((((((.......))))))))).)))))))..(((((......)))))))))))))).....))))... (-24.34 = -24.23 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:05 2006