Locus 6883

Sequence ID 2L_DroMel_CAF1
Location 19,247,382 – 19,247,480
Length 98
Max. P 0.976228
window10973 window10974

overview

Window 3

Location 19,247,382 – 19,247,480
Length 98
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 88.73
Mean single sequence MFE -33.72
Consensus MFE -32.08
Energy contribution -31.70
Covariance contribution -0.38
Combinations/Pair 1.07
Mean z-score -1.99
Structure conservation index 0.95
SVM decision value 1.67
SVM RNA-class probability 0.971425
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19247382 98 + 22407834
------------AUAAUUUUGUCAAGUGCACCAACCAAGUCACAGACAUGGCCAUAUGCCAGGAACACCCACAUAUGGGCGG-CUGGUGUAUCAGCGUGUGUGUGUGCUGG
------------.............((((((((.((..(((...)))..(.(((((((...((.....)).))))))).)))-.))))))))(((((........))))). ( -31.40)
>DroSec_CAF1 67294 96 + 1
------------AUAAUUUUGUUAAGUGCACCAACCAAGUCACAGACAUGGCCAUAUGCCAGGAACACCCACAUAUGGGCGG-CUGGCGUAUCAGCGUGU--GUGCGCUGG
------------............(((((((((.(((.(((...))).)))..(((((((((...(.((((....)))).).-))))))))).....)).--))))))).. ( -33.80)
>DroSim_CAF1 68631 96 + 1
------------AUAAUUUUGUUGAGUGCACCAACCAAGUCACAGACAUGGCCAUAUGCCAGGAACACCCACAUAUGGGCGG-CUGGCGUAUCAGCGUGU--GUGCGCUGG
------------............(((((((((.(((.(((...))).)))..(((((((((...(.((((....)))).).-))))))))).....)).--))))))).. ( -33.90)
>DroYak_CAF1 68733 107 + 1
AUCAUUUUUAUA-UAAUUUUUGCAAGUGCAC-AACCAAGUCACAGACAUGGCCAUAUGCCAGGAACACCCACAUAUGGGCGGACUGGCGUAUCAGCGUGU--GUGCGCUGG
............-...........(((((((-(.(((.(((...))).)))..(((((((((...(.((((....)))).)..))))))))).......)--))))))).. ( -35.80)
>consensus
____________AUAAUUUUGUCAAGUGCACCAACCAAGUCACAGACAUGGCCAUAUGCCAGGAACACCCACAUAUGGGCGG_CUGGCGUAUCAGCGUGU__GUGCGCUGG
........................(((((((...(((.(((...))).)))..(((((((((...(.((((....)))).)..)))))))))..........))))))).. (-32.08 = -31.70 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,247,382 – 19,247,480
Length 98
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 88.73
Mean single sequence MFE -33.55
Consensus MFE -29.86
Energy contribution -29.93
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -2.26
Structure conservation index 0.89
SVM decision value 1.77
SVM RNA-class probability 0.976228
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19247382 98 - 22407834
CCAGCACACACACACGCUGAUACACCAG-CCGCCCAUAUGUGGGUGUUCCUGGCAUAUGGCCAUGUCUGUGACUUGGUUGGUGCACUUGACAAAAUUAU------------
.((((..........))))...((((((-(((.((((((((.((.....)).)))))))).)..(((...)))..))))))))................------------ ( -31.20)
>DroSec_CAF1 67294 96 - 1
CCAGCGCAC--ACACGCUGAUACGCCAG-CCGCCCAUAUGUGGGUGUUCCUGGCAUAUGGCCAUGUCUGUGACUUGGUUGGUGCACUUAACAAAAUUAU------------
.(((((...--...)))))...((((((-(((.((((((((.((.....)).)))))))).)..(((...)))..))))))))................------------ ( -33.90)
>DroSim_CAF1 68631 96 - 1
CCAGCGCAC--ACACGCUGAUACGCCAG-CCGCCCAUAUGUGGGUGUUCCUGGCAUAUGGCCAUGUCUGUGACUUGGUUGGUGCACUCAACAAAAUUAU------------
.(((((...--...)))))...((((((-(((.((((((((.((.....)).)))))))).)..(((...)))..))))))))................------------ ( -33.90)
>DroYak_CAF1 68733 107 - 1
CCAGCGCAC--ACACGCUGAUACGCCAGUCCGCCCAUAUGUGGGUGUUCCUGGCAUAUGGCCAUGUCUGUGACUUGGUU-GUGCACUUGCAAAAAUUA-UAUAAAAAUGAU
.(((((...--...)))))....(((((..((((((....))))))...)))))..(..((((.(((...))).)))).-.)((....))........-............ ( -35.20)
>consensus
CCAGCGCAC__ACACGCUGAUACGCCAG_CCGCCCAUAUGUGGGUGUUCCUGGCAUAUGGCCAUGUCUGUGACUUGGUUGGUGCACUUAACAAAAUUAU____________
...((((............(((.(((((..((((((....))))))...))))).)))(((((.(((...))).))))).))))........................... (-29.86 = -29.93 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:02 2006