Locus 4753

Sequence ID 2L_DroMel_CAF1
Location 13,572,614 – 13,572,768
Length 154
Max. P 0.515147
window7519 window7520

overview

Window 9

Location 13,572,614 – 13,572,728
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.35
Mean single sequence MFE -25.55
Consensus MFE -16.21
Energy contribution -16.97
Covariance contribution 0.76
Combinations/Pair 1.05
Mean z-score -1.89
Structure conservation index 0.63
SVM decision value -0.04
SVM RNA-class probability 0.515147
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13572614 114 - 22407834
UGCUCCCC------AAUGGGGAGGGGGUGGGGGUAAGGCAGAACCCUAGCAAUUCCCCAGAGCGAAUUCAAAACACAAAAGCUCAAUGGACAUGUAGCCCUGUCGAGAUAACAUACACAA
..((((((------...))))))((((((((((....((((....)).))...))))).((((.................))))............)))))................... ( -34.03)
>DroSec_CAF1 5889 110 - 1
UGCUCCCCUUCCCCAUAGGGGA----------UAAAGGCAGAACCCUCGCAAUUCCCCAGAGCGAAUUCAAAACACAAAAGCUCAAUGGACAUGUAGCCCUGUCGAGAUAACAUACACAA
...((((((.......))))))----------....(((((....((.(((..(((...((((.................))))...)))..)))))..)))))................ ( -24.13)
>DroSim_CAF1 5466 108 - 1
UGCUCCCCUUC--CAUUGGGGA----------UAAAGGCAGAACCCUUGCAAUUCCCCAGAGCGAAUUCAAAACACAAAAGCUCAAUGGACAUGUAGCCCUGUCGAGAUAACAUACACAA
.(((.(...((--(((((((((----------.....((((.....))))...))))).((((.................))))))))))...).)))...................... ( -25.93)
>DroEre_CAF1 6393 98 - 1
UUAUCCCA-------A-GGGGA-----------GAAGGC---ACCCCACCAAUUCCCCAGAGCGAAUUCACAACACAAAAGCUCAAUGGACAUGUAGCCCUGUCGAGAUAACAUACACAA
(((((.(.-------.-(((((-----------(..((.---......))..)))))).((((.................))))....((((........))))).)))))......... ( -21.73)
>DroYak_CAF1 2984 101 - 1
UUCUCCCA-------A-UGGGA-----------GAAGGCAGAACCCCACCAAUUCCCCAGAGCGAAUUCAAAACACAAAAGCUCAAUGGACAUGUAGCCCUGUCGAGAUAACAUACACAA
(((((((.-------.-.))))-----------)))(((((..(..((.....(((...((((.................))))...)))..))..)..)))))................ ( -21.93)
>consensus
UGCUCCCC______AA_GGGGA___________AAAGGCAGAACCCUAGCAAUUCCCCAGAGCGAAUUCAAAACACAAAAGCUCAAUGGACAUGUAGCCCUGUCGAGAUAACAUACACAA
...(((((.........)))))..............(((((.......(((..(((...((((.................))))...)))..)))....)))))................ (-16.21 = -16.97 +   0.76)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,572,654 – 13,572,768
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.59
Mean single sequence MFE -29.72
Consensus MFE -17.68
Energy contribution -18.20
Covariance contribution 0.52
Combinations/Pair 1.14
Mean z-score -1.73
Structure conservation index 0.59
SVM decision value -0.05
SVM RNA-class probability 0.507233
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13572654 114 - 22407834
CAGCAUAACAUGCCGCUGGGCUCGGCUCAGAGUUUCCCAGUGCUCCCC------AAUGGGGAGGGGGUGGGGGUAAGGCAGAACCCUAGCAAUUCCCCAGAGCGAAUUCAAAACACAAAA
..((....(((.(((((((((((......)))...)))))).((((((------...)))))))).)))((((....((((....)).))....))))...))................. ( -42.20)
>DroSec_CAF1 5929 104 - 1
------AACAUGCCGCUGGGCUCGGCUCAGAAUUUCUCAGUGCUCCCCUUCCCCAUAGGGGA----------UAAAGGCAGAACCCUCGCAAUUCCCCAGAGCGAAUUCAAAACACAAAA
------....((((.((((((...)))))).............((((((.......))))))----------....))))(((...((((...........)))).)))........... ( -27.20)
>DroSim_CAF1 5506 108 - 1
CAGCAUAACAUGCCGCUGGGCUCGGCUCAGAGUUUCCCAGUGCUCCCCUUC--CAUUGGGGA----------UAAAGGCAGAACCCUUGCAAUUCCCCAGAGCGAAUUCAAAACACAAAA
..(((.....(((((((((((((......)))...))))))..(((((...--....)))))----------....)))).......)))(((((........)))))............ ( -31.20)
>DroEre_CAF1 6433 98 - 1
CAGCAUAACAUGCCGCUGGGCUCGACUCAGAGUUUCAUAUUUAUCCCA-------A-GGGGA-----------GAAGGC---ACCCCACCAAUUCCCCAGAGCGAAUUCACAACACAAAA
..((((...))))((((((((((......)))))).............-------.-(((((-----------(..((.---......))..))))))..))))................ ( -22.60)
>DroYak_CAF1 3024 101 - 1
CAGCAUAACAAGCCGCUGGGCUCGGCUCAGAGUUUCGCAGUUCUCCCA-------A-UGGGA-----------GAAGGCAGAACCCCACCAAUUCCCCAGAGCGAAUUCAAAACACAAAA
..((.......(((((..(((((......)))))..))..(((((((.-------.-.))))-----------))))))..............((....))))................. ( -25.40)
>consensus
CAGCAUAACAUGCCGCUGGGCUCGGCUCAGAGUUUCCCAGUGCUCCCC______AA_GGGGA___________AAAGGCAGAACCCUAGCAAUUCCCCAGAGCGAAUUCAAAACACAAAA
...........((((((((((((......)))...))))))..(((((.........)))))..............)))...........(((((........)))))............ (-17.68 = -18.20 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:23 2006