Locus 494

Sequence ID 3L_DroMel_CAF1
Location 1,391,507 – 1,391,613
Length 106
Max. P 0.989022
window740 window741

overview

Window 0

Location 1,391,507 – 1,391,613
Length 106
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 70.03
Mean single sequence MFE -17.56
Consensus MFE -11.64
Energy contribution -11.70
Covariance contribution 0.06
Combinations/Pair 1.10
Mean z-score -1.50
Structure conservation index 0.66
SVM decision value 1.32
SVM RNA-class probability 0.941394
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1391507 106 + 23771897
C-------GGCCAAAACAUCUUUCAAUUAACGGGCCAUGACCGUGGCAAAGGCCAAAACCGAUACCACGGCCCAGUCCACCACUACCCAAACACAACCCAUACUUCAAAUCCC
.-------((((....................)))).((.((((((....((......))....))))))..))....................................... ( -18.25)
>DroPse_CAF1 72676 93 + 1
UGAGAGCCACACAAAACAUAUUUCAAUUAACAGGCCAUGACCGUGGCAAAGGCUAAGGCUAAGACCAACACCAA---CACCAGCACCGA-----------------GAGACCU
....((((...............(........)(((((....)))))...))))..((......))........---............-----------------....... ( -12.40)
>DroSec_CAF1 46636 80 + 1
C-------GGCCAAAACAUCUUUCAAUUAACGGGCCAUGACCGUGGCAAAGGCCAAAACCGAUACCACGGCCCAUACUUC--------------------------AAGUCCC
.-------((((....................))))(((.((((((....((......))....))))))..))).....--------------------------....... ( -19.25)
>DroSim_CAF1 44087 80 + 1
C-------GGCCAAAACAUCUUUCAAUUAACGGGCCAUGACCGUGGCAAAGGCCAAAACCGAUACCACGGCCCAUACUUC--------------------------AAGUCCC
.-------((((....................))))(((.((((((....((......))....))))))..))).....--------------------------....... ( -19.25)
>DroEre_CAF1 48050 97 + 1
UGU-----GGCCCAAACAUAUUUCAAUUAACGGGCCAUGACCGUGGCAAAGGCCAAAACCGAUACCACAGCCCAGUCCACCAGCACC--AACACUUC---------GCACCCA
.((-----(((((..................)))))))....((((....((......))....)))).((..(((...........--...)))..---------))..... ( -19.61)
>DroYak_CAF1 49658 86 + 1
G-------GGCCAAAACAUAUUUCAAUUAACGGGCCAUGACCGUGGCAAAGGCCAAAACCGAUACCACAGUCCAGUCCACU---ACC--AACACU---------------CCA
.-------.......................((((...(((.((((....((......))....)))).)))..))))...---...--......---------------... ( -16.60)
>consensus
C_______GGCCAAAACAUAUUUCAAUUAACGGGCCAUGACCGUGGCAAAGGCCAAAACCGAUACCACGGCCCAGUCCACC___ACC___________________AAGUCCC
........((((...........(........)(((((....)))))...))))........................................................... (-11.64 = -11.70 +   0.06)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 1,391,507 – 1,391,613
Length 106
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 70.03
Mean single sequence MFE -30.75
Consensus MFE -21.55
Energy contribution -21.83
Covariance contribution 0.28
Combinations/Pair 1.25
Mean z-score -1.98
Structure conservation index 0.70
SVM decision value 2.15
SVM RNA-class probability 0.989022
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1391507 106 - 23771897
GGGAUUUGAAGUAUGGGUUGUGUUUGGGUAGUGGUGGACUGGGCCGUGGUAUCGGUUUUGGCCUUUGCCACGGUCAUGGCCCGUUAAUUGAAAGAUGUUUUGGCC-------G
.((.(((.((..((((((..(.......((((.....))))((((((((((..(((....)))..)))))))))))..))))))...)).)))..........))-------. ( -35.60)
>DroPse_CAF1 72676 93 - 1
AGGUCUC-----------------UCGGUGCUGGUG---UUGGUGUUGGUCUUAGCCUUAGCCUUUGCCACGGUCAUGGCCUGUUAAUUGAAAUAUGUUUUGUGUGGCUCUCA
.((((.(-----------------.(((.(((((((---..(((...(((....)))...)))..))))).(((....)))...............)).))).).)))).... ( -22.20)
>DroSec_CAF1 46636 80 - 1
GGGACUU--------------------------GAAGUAUGGGCCGUGGUAUCGGUUUUGGCCUUUGCCACGGUCAUGGCCCGUUAAUUGAAAGAUGUUUUGGCC-------G
.......--------------------------........((((((((((..(((....)))..))))))))))..((((.....(((....))).....))))-------. ( -31.50)
>DroSim_CAF1 44087 80 - 1
GGGACUU--------------------------GAAGUAUGGGCCGUGGUAUCGGUUUUGGCCUUUGCCACGGUCAUGGCCCGUUAAUUGAAAGAUGUUUUGGCC-------G
.......--------------------------........((((((((((..(((....)))..))))))))))..((((.....(((....))).....))))-------. ( -31.50)
>DroEre_CAF1 48050 97 - 1
UGGGUGC---------GAAGUGUU--GGUGCUGGUGGACUGGGCUGUGGUAUCGGUUUUGGCCUUUGCCACGGUCAUGGCCCGUUAAUUGAAAUAUGUUUGGGCC-----ACA
..(((.(---------(.(((...--...)))..)).))).((((((((((..(((....)))..)))))))))).(((((((...((......))...))))))-----).. ( -37.40)
>DroYak_CAF1 49658 86 - 1
UGG---------------AGUGUU--GGU---AGUGGACUGGACUGUGGUAUCGGUUUUGGCCUUUGCCACGGUCAUGGCCCGUUAAUUGAAAUAUGUUUUGGCC-------C
...---------------.(((((--..(---(((((.(((((((((((((..(((....)))..)))))))))).))).)))))).....))))).........-------. ( -26.30)
>consensus
GGGACUU___________________GGU___GGUGGACUGGGCCGUGGUAUCGGUUUUGGCCUUUGCCACGGUCAUGGCCCGUUAAUUGAAAGAUGUUUUGGCC_______G
.........................................((((((((((..(((....)))..))))))))))..((((....(((........)))..))))........ (-21.55 = -21.83 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:28 2006