Locus 6874

Sequence ID 2L_DroMel_CAF1
Location 19,231,764 – 19,231,891
Length 127
Max. P 0.998181
window10955 window10956

overview

Window 5

Location 19,231,764 – 19,231,864
Length 100
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 89.27
Mean single sequence MFE -36.57
Consensus MFE -34.30
Energy contribution -33.76
Covariance contribution -0.54
Combinations/Pair 1.19
Mean z-score -1.34
Structure conservation index 0.94
SVM decision value 0.14
SVM RNA-class probability 0.605001
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19231764 100 + 22407834
AAGGUCCUUUCACCGAAGGUGGUGGCUUCUGCCGAGGGGGUUGGUUGGUUAUGAUGGGGCUGGUGGUUAUGGCUAU------GGCUGUGGUGGCCAUGGUGGUGCG
..((((((..((((...))))((((((...(((((.....))))).))))))...))))))....((.((.(((((------((((.....))))))))).)))). ( -34.90)
>DroSec_CAF1 51633 105 + 1
AAGGUCCUUUCGCCGAAGGUGGUGGCUUCUGCCGAGG-GGUUGGUCGGUUAUGAUGGGGCUGGUGGUUACGGUGGUUCUGGAGGCCAUGGUGGCUAUGGUGGUGCG
..((((((.(((((((......((((....))))...-......)))))...)).)))))).((((((((.((((((.....)))))).))))))))......... ( -37.16)
>DroSim_CAF1 53382 105 + 1
AAGGUCCUUUCGCCGAAGGUGGUGGCUUCUGCCGAGG-GGUUGGUCGGUUAUGAUGGGGCUGGUGGUUAUGGUGGUUCUGGAGGCCAUGGUGGCUACGGUGGUGCG
..((((((.(((((((......((((....))))...-......)))))...)).)))))).((((((((.((((((.....)))))).))))))))......... ( -37.66)
>consensus
AAGGUCCUUUCGCCGAAGGUGGUGGCUUCUGCCGAGG_GGUUGGUCGGUUAUGAUGGGGCUGGUGGUUAUGGUGGUUCUGGAGGCCAUGGUGGCUAUGGUGGUGCG
..((((((.(((((((......((((....))))..........)))))...)).)))))).((((((((.((((((.....)))))).))))))))......... (-34.30 = -33.76 +  -0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,231,793 – 19,231,891
Length 98
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 78.97
Mean single sequence MFE -42.38
Consensus MFE -30.23
Energy contribution -31.10
Covariance contribution 0.87
Combinations/Pair 1.35
Mean z-score -2.80
Structure conservation index 0.71
SVM decision value 3.03
SVM RNA-class probability 0.998181
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19231793 98 + 22407834
UGCCGAGGGGGUUGGUUGGUUAUGAUGGGGCUGGUGGUUAUGGCUAU------GGCUGUGGUGGCCAUGGUGGUGCGGGGAAUGUGCCAUC-------ACCCUUUUGGCCG
.(((((((((((....(((((((.((..(((((.((((....)))))------)))))).))))))).(((((..((.....))..)))))-------))))))))))).. ( -43.70)
>DroSec_CAF1 51662 103 + 1
UGCCGAGG-GGUUGGUCGGUUAUGAUGGGGCUGGUGGUUACGGUGGUUCUGGAGGCCAUGGUGGCUAUGGUGGUGCGGGGAUUGUGCCAUC-------ACCCUUUUGGCCG
.(((((((-(((....(((((.......)))))((((((((.((((((.....)))))).))))))))(((((..((.....))..)))))-------)))).)))))).. ( -42.80)
>DroSim_CAF1 53411 103 + 1
UGCCGAGG-GGUUGGUCGGUUAUGAUGGGGCUGGUGGUUAUGGUGGUUCUGGAGGCCAUGGUGGCUACGGUGGUGCGGGGAUUGUGCCAUC-------ACCCUUUUGGCCG
.(((((((-(((....(((((.......)))))((((((((.((((((.....)))))).))))))))(((((..((.....))..)))))-------)))).)))))).. ( -43.60)
>DroEre_CAF1 50909 103 + 1
CGCCGAGG-GG----UUGGUUAUGAUGGGGCUGUUGGUUAUGGUGGCCAUGGUGGCUGUGG---UGGCUAUGGUGCGAGGAUUGUGCCAUCACCCAUCACCCUUUUUUCCG
....((((-((----(.......((((((.....(((((((.(..(((.....)))..).)---))))))(((..(((...)))..)))...)))))))))))))...... ( -39.41)
>consensus
UGCCGAGG_GGUUGGUCGGUUAUGAUGGGGCUGGUGGUUAUGGUGGUUCUGGAGGCCAUGGUGGCUACGGUGGUGCGGGGAUUGUGCCAUC_______ACCCUUUUGGCCG
.(((.....)))....((((((....((((...((((((((.((((((.....)))))).))))))))(((((..((.....))..)))))........))))..)))))) (-30.23 = -31.10 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:47 2006