Locus 7950

Sequence ID 3R_DroMel_CAF1
Location 21,335,345 – 21,335,435
Length 90
Max. P 0.915430
window12805 window12806

overview

Window 5

Location 21,335,345 – 21,335,435
Length 90
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.43
Mean single sequence MFE -29.20
Consensus MFE -13.56
Energy contribution -13.53
Covariance contribution -0.03
Combinations/Pair 1.25
Mean z-score -2.87
Structure conservation index 0.46
SVM decision value 1.10
SVM RNA-class probability 0.915430
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21335345 90 + 27905053
GGUGUUUGUUGCUGGCAGUUGUAGUUGGCGUUGCUAGAUGUUGUUGUCAUCAA----CAGCCAGCAACAUUAUCAUUGUAGCUGCAAGUGGCAG
((((..((((((((((.((((....(((((..((.....))...))))).)))----).)))))))))).)))).......((((.....)))) ( -33.70)
>DroPse_CAF1 31438 79 + 1
--------CCUCUUUUUGUU---GUUGCUGUUGCAAGUUGUUCUUGUCAUCAA----CAGUCAGCAACAUUAUCAUUGUGGCUGCAAGUGGCAG
--------........((((---((((((((((((((.....))))....)))----))).)))))))).......(((.((.....)).))). ( -23.30)
>DroSim_CAF1 27702 91 + 1
GGCGUUUGUUGCUGGCUGUU---GUUGGCGUUGCUAGAUGUUGUUGUCAUCUGGCUGUUGAUGACAACAUUAUCAUUGUAGCUGCAAGUGGCAG
(.(((((((.((..((....---))..))(((((..((((.((((((((((........)))))))))).))))...))))).))))))).).. ( -35.90)
>DroEre_CAF1 27668 87 + 1
GGCGUUUGUUGCUGCCAGUU---GUUGGCGCUGCUAGAUGUUGUUGUCAUCAA----CAGCCAGCAACAUUAUCAUUGUAGCUGCAAGUGGCAG
...........((((((.((---((....(((((..((((((((((.(.....----..).))))))))))......))))).)))).)))))) ( -30.60)
>DroYak_CAF1 27380 87 + 1
GGCGGUUGUUGCUGGCAUUU---GUUGGCGUUGCUAGAUGUUGUUGUCAUCAA----CAGCCAGCAACAUUAUCAUUGUAGCUGCAAGUGGCAG
.(((((((..((..((....---))..))((((((....(((((((....)))----)))).))))))..........)))))))......... ( -30.70)
>DroPer_CAF1 52908 79 + 1
--------CCUCUUUUUGUU---GUUGCUGUCGCAAGUUGUUCUUGUCAUCAA----CAGUCAGCAACAUUAUCAUUGUGGCUGCAAGUGGCAG
--------........((((---((((((((.(((((.....))))).....)----))).)))))))).......(((.((.....)).))). ( -21.00)
>consensus
GGCGUUUGUUGCUGGCAGUU___GUUGGCGUUGCUAGAUGUUGUUGUCAUCAA____CAGCCAGCAACAUUAUCAUUGUAGCUGCAAGUGGCAG
.............................(((((..((((((((((.(...........).))))))))))....((((....))))))))).. (-13.56 = -13.53 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,335,345 – 21,335,435
Length 90
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 79.43
Mean single sequence MFE -22.83
Consensus MFE -8.41
Energy contribution -8.11
Covariance contribution -0.30
Combinations/Pair 1.29
Mean z-score -3.19
Structure conservation index 0.37
SVM decision value 0.86
SVM RNA-class probability 0.869012
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21335345 90 - 27905053
CUGCCACUUGCAGCUACAAUGAUAAUGUUGCUGGCUG----UUGAUGACAACAACAUCUAGCAACGCCAACUACAACUGCCAGCAACAAACACC
((((.....))))............((((((((((.(----((((((.......))))..((...)).......))).))))))))))...... ( -24.70)
>DroPse_CAF1 31438 79 - 1
CUGCCACUUGCAGCCACAAUGAUAAUGUUGCUGACUG----UUGAUGACAAGAACAACUUGCAACAGCAAC---AACAAAAAGAGG--------
((((.....))))............(((((.((.(((----(((....((((.....)))))))))))).)---))))........-------- ( -18.10)
>DroSim_CAF1 27702 91 - 1
CUGCCACUUGCAGCUACAAUGAUAAUGUUGUCAUCAACAGCCAGAUGACAACAACAUCUAGCAACGCCAAC---AACAGCCAGCAACAAACGCC
..((...((((.((((....(((..((((((((((........))))))))))..)))))))...((....---....))..)))).....)). ( -22.50)
>DroEre_CAF1 27668 87 - 1
CUGCCACUUGCAGCUACAAUGAUAAUGUUGCUGGCUG----UUGAUGACAACAACAUCUAGCAGCGCCAAC---AACUGGCAGCAACAAACGCC
((((.....))))............(((((((.((((----((((((.......)))).))))))((((..---...)))))))))))...... ( -29.70)
>DroYak_CAF1 27380 87 - 1
CUGCCACUUGCAGCUACAAUGAUAAUGUUGCUGGCUG----UUGAUGACAACAACAUCUAGCAACGCCAAC---AAAUGCCAGCAACAACCGCC
((((.....))))............((((((((((((----((((((.......)))).))))..(....)---....))))))))))...... ( -24.20)
>DroPer_CAF1 52908 79 - 1
CUGCCACUUGCAGCCACAAUGAUAAUGUUGCUGACUG----UUGAUGACAAGAACAACUUGCGACAGCAAC---AACAAAAAGAGG--------
((((.....))))............(((((.((.(((----(((....((((.....)))))))))))).)---))))........-------- ( -17.80)
>consensus
CUGCCACUUGCAGCUACAAUGAUAAUGUUGCUGGCUG____UUGAUGACAACAACAUCUAGCAACGCCAAC___AACAGCCAGCAACAAACGCC
((((.....))))............((((((............((((.......))))..))))))............................ ( -8.41 =  -8.11 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:50 2006