Locus 8063

Sequence ID 3L_DroMel_CAF1
Location 21,258,932 – 21,259,072
Length 140
Max. P 0.534454
window13176 window13177

overview

Window 6

Location 21,258,932 – 21,259,032
Length 100
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 96.85
Mean single sequence MFE -27.35
Consensus MFE -23.26
Energy contribution -23.58
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.81
Structure conservation index 0.85
SVM decision value -0.04
SVM RNA-class probability 0.512225
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21258932 100 + 23771897
AACUUUGAACAAAUUUUGUGGAGUCCGGGAAAGGAAAUUUCGCUUUUCCUU-UUUGUCUCUCCGCCUUUUGGUUGUUGUCACCUACAGCGAUGGGGUACAC
.(((((...((((....((((((....((((((((((.......)))))))-)))....))))))..))))((((((((.....))))))))))))).... ( -28.60)
>DroSec_CAF1 16954 100 + 1
AACUUUGAACAAAUUUCGUGGAGUCCGGGAAAGGAAAUUUCGCUUUUCCUU-UUUGUCUCUCCGCCUUUUGGUUGUUGUCACCUACAGCGAUGGGAUACAC
............((..(((((((....((((((((((.......)))))))-)))....))))))......((((((((.....)))))))))..)).... ( -27.60)
>DroSim_CAF1 16773 100 + 1
AACUUUGAACAAAUUUCGUGGAGUCCGGGAAAGGAAAUUUCGCUUUUCCUU-UUUGUCUCUCCGCCUUUUGGUUGUUGUCACCUACAGCGAUGGGAUACAC
............((..(((((((....((((((((((.......)))))))-)))....))))))......((((((((.....)))))))))..)).... ( -27.60)
>DroEre_CAF1 18331 101 + 1
AACUUUGAACAAAUUUUGUGUACUCCGGGAAAGGAAAUUUCGCUUUUCCUUUUUUGUCUCUCCGCUUUUUGGUUGUUGUCACCUACAGCGAUGGGAUACAC
.................(((((...((((((((((((.......))))))))))))((((..((((....(((.......)))...))))..))))))))) ( -25.60)
>consensus
AACUUUGAACAAAUUUCGUGGAGUCCGGGAAAGGAAAUUUCGCUUUUCCUU_UUUGUCUCUCCGCCUUUUGGUUGUUGUCACCUACAGCGAUGGGAUACAC
.................((((((..((((.(((((((.......))))))).))))...))))))..(((.((((((((.....)))))))).)))..... (-23.26 = -23.58 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 21,258,970 – 21,259,072
Length 102
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 84.88
Mean single sequence MFE -22.53
Consensus MFE -15.93
Energy contribution -16.80
Covariance contribution 0.87
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.71
SVM decision value 0.00
SVM RNA-class probability 0.534454
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21258970 102 - 23771897
CUGUGAAAAUAGUUGAUUCAAAUCGAAAAUGCUUUUUCCAGUGUACCCCAUCGCUGUAGGUGACAACAACCAAAAGGCGGAGAGACAAA-AAGGAAAAGCGAA
((((....))))(((((....)))))...(((((((((...(((....(..((((...(((.......)))....))))..)..)))..-..))))))))).. ( -23.30)
>DroSec_CAF1 16992 102 - 1
CUGUGGAAAUAGUUGAUUAAGAUCGAGGACUCUUUUUCCAGUGUAUCCCAUCGCUGUAGGUGACAACAACCAAAAGGCGGAGAGACAAA-AAGGAAAAGCGAA
((((....))))(((((....)))))....(((((((((..(((.((...(((((...(((.......)))....))))).)).)))..-..))))))).)). ( -21.20)
>DroSim_CAF1 16811 102 - 1
CUGUGAAAAUAGUUGAUUAAGAUCGAGGAUGCUUUUUCCAGUGUAUCCCAUCGCUGUAGGUGACAACAACCAAAAGGCGGAGAGACAAA-AAGGAAAAGCGAA
((((....))))(((((....)))))...(((((((((...(((.((...(((((...(((.......)))....))))).)).)))..-..))))))))).. ( -24.40)
>DroEre_CAF1 18369 87 - 1
-------------UGAUUGGAA---GACAUUGUUUUUCCAGUGUAUCCCAUCGCUGUAGGUGACAACAACCAAAAAGCGGAGAGACAAAAAAGGAAAAGCGAA
-------------.........---....((((((((((..(((.((...(((((...(((.......)))....))))).)).))).....)))))))))). ( -21.20)
>consensus
CUGUGAAAAUAGUUGAUUAAAAUCGAAGAUGCUUUUUCCAGUGUAUCCCAUCGCUGUAGGUGACAACAACCAAAAGGCGGAGAGACAAA_AAGGAAAAGCGAA
((((....)))).................(((((((((...(((.((...(((((...(((.......)))....))))).)).))).....))))))))).. (-15.93 = -16.80 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:16 2006