Locus 2772

Sequence ID 3L_DroMel_CAF1
Location 7,847,609 – 7,847,740
Length 131
Max. P 0.994990
window4329 window4330

overview

Window 9

Location 7,847,609 – 7,847,710
Length 101
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 81.48
Mean single sequence MFE -29.94
Consensus MFE -22.16
Energy contribution -22.40
Covariance contribution 0.24
Combinations/Pair 1.12
Mean z-score -2.71
Structure conservation index 0.74
SVM decision value 2.20
SVM RNA-class probability 0.990265
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7847609 101 - 23771897
AUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCACCACCA----ACACCCACAACCCCCCUUUGUGGCACCACCUCAGUG--GC
.(((((.((((((....(.(((((.((((....))))))))))))))))...)))))......----....((((((.......))))))..((((....)))--). ( -32.50)
>DroSec_CAF1 3470 104 - 1
AUGCAACCUGGGGCA-AGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCAACACCACCACACACCCACCACCCCCUUUUGUGGCACCACCUCAGUG--GC
.(((((.((((((..-.(.(((((.((((....))))))))))))))))...)))))...((((..........((((........))))..........)))--). ( -31.75)
>DroSim_CAF1 3484 105 - 1
AUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCGGCACUUGCAACACCACCACACACCCACCACCCCCUUUUGUGGCACCACCUCAGUG--GC
.(((((.((((((....(.(((((.((((....))))))))))))))))...)))))...((((..........((((........))))..........)))--). ( -30.65)
>DroEre_CAF1 4177 95 - 1
AUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCAACACC--------CCCACCA--CUUUUUUUUGGCCCCACCUCUGUG--GC
.(((((.((((((....(.(((((.((((....))))))))))))))))...))))).....--------....(((--........)))..((((....)))--). ( -27.70)
>DroAna_CAF1 3512 86 - 1
AUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCCUGCCACUUGC-------------------CACCCCCUUU--UGGCUUCAACAUUGUGCUCC
..(((...((.((((..(.(((((.((((....))))))))).)..))))....((-------------------((........--)))).....))...)))... ( -27.10)
>consensus
AUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCAACACCA____ACACCCACCACCCCCUUUUGUGGCACCACCUCAGUG__GC
.(((((.((((((....(.(((((.((((....))))))))))))))))...))))).............................(((....)))........... (-22.16 = -22.40 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,847,640 – 7,847,740
Length 100
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 80.96
Mean single sequence MFE -23.36
Consensus MFE -21.90
Energy contribution -21.74
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -2.60
Structure conservation index 0.94
SVM decision value 2.53
SVM RNA-class probability 0.994990
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7847640 100 - 23771897
CAAUAUAUCUACUUU--UUCACUCUUUGCGUAAUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCACCACCA----ACACCCA
...............--........(((.((..(((((.((((((....(.(((((.((((....))))))))))))))))...)))))..))))----)...... ( -25.10)
>DroSec_CAF1 3501 104 - 1
CAAUAUAUCUACUUU-UUUCACUCUUUGCGUAAUGCAACCUGGGGCA-AGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCAACACCACCACACACCCA
...............-..........((.((..(((((.((((((..-.(.(((((.((((....))))))))))))))))...)))))..))))........... ( -24.30)
>DroSim_CAF1 3515 106 - 1
CAAUAUAUCUACUUUUUUUCACUCUUUGCGUAAUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCGGCACUUGCAACACCACCACACACCCA
..........................((.((..(((((.((((((....(.(((((.((((....))))))))))))))))...)))))..))))........... ( -23.20)
>DroEre_CAF1 4206 95 - 1
CCAUAUAUCCACUU---UUCACUCCUUGCGUAAUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCAACACC--------CCCA
..............---................(((((.((((((....(.(((((.((((....))))))))))))))))...))))).....--------.... ( -23.30)
>DroAna_CAF1 3542 80 - 1
--------CCUCUUUUUUUUGUCUUUUGCGUAAUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCCUGCCACUUGC------------------
--------.................((((.....)))).....((((..(.(((((.((((....))))))))).)..))))......------------------ ( -20.90)
>consensus
CAAUAUAUCUACUUU_UUUCACUCUUUGCGUAAUGCAACCUGGGGCAAAGUGGCGUCUGCACUUCUGCAACGCCCCCUCAGCACUUGCAACACCA____ACACCCA
.................................(((((.((((((....(.(((((.((((....))))))))))))))))...)))))................. (-21.90 = -21.74 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:19 2006