Locus 8594

Sequence ID	3L_DroMel_CAF1
Location	22,380,775 – 22,380,887
Length	112
Max. P	0.905379

overview

Window 8

Location	22,380,775 – 22,380,887
Length	112
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	93.11
Mean single sequence MFE	-36.85
Consensus MFE	-29.94
Energy contribution	-29.66
Covariance contribution	-0.28
Combinations/Pair	1.03
Mean z-score	-1.83
Structure conservation index	0.81
SVM decision value	1.04
SVM RNA-class probability	0.905379
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22380775 112 + 23771897
CCUGCCAACUGAUGUGUUGGUGCUGCUAUCCGUCCAUCAGCAAGCCCAUAUUGGGGCACUUCGCCUUGGACUAGCUGCCACACCCCACGAAGCGCCAACCCCACGCGGUAGC
.(((((.((....))(((((((((((((...(((((...((..((((......)))).....))..)))))))))((........))...))))))))).......))))). ( -35.70)
>DroSec_CAF1 31936 112 + 1
CCUGCCAACUGUUGUGUUGGGGCUGCUAUCCGUCCAUCAGCAAGCCCAUAUUGGGGCACUUCGCCUUGGACUAGCUGCCACACCCCACCAAGCACCAACCCCAUUCGGUAGC
.(((((....(((((((((((((.((((...(((((...((..((((......)))).....))..))))))))).)))........)).)))).)))).......))))). ( -34.00)
>DroSim_CAF1 47475 112 + 1
CCUGCCAACUGGUGUGUUGGGGCUGCUAUCCGUCCAUCAGCAAGCCCAUAUUGGGGCACUUCGCCUUGGACUAGCUGCCACACCCCACCAAGCACCAACCCCAUUCGGUAGC
.(((((...(((.(.((((((((.((((...(((((...((..((((......)))).....))..))))))))).)))......(.....)..)))))))))...))))). ( -38.10)
>DroEre_CAF1 48206 109 + 1
CCUGCCAACUGCUGUGUUUGGGCUGCUAUCCGUCCAUCAGCAAGCCCAUAUUGGGGCACUUUGCCUUGGACUAGCUGCCACACCCC---AAGCGCGAACCCCACUUGGUAGC
.(((((((.((.(((((((((((.((((...(((((...((((((((......))))...))))..))))))))).))......))---))))))).....)).))))))). ( -41.10)
>DroYak_CAF1 41691 109 + 1
CCUGCCAACUGCUGUGUUUGGGCUGCUAUCCGUCCAUCAGCAAGCCCAUAUUGGGGCACUUUGCCUUGAACUAGCUGCCACACCCC---AAGCGCGAACCCCACUUGGUAGC
.(((((((.(((((....(((((........))))).))))).........(((((...(((((((((.................)---))).)))))))))).))))))). ( -35.33)
>consensus
CCUGCCAACUGCUGUGUUGGGGCUGCUAUCCGUCCAUCAGCAAGCCCAUAUUGGGGCACUUCGCCUUGGACUAGCUGCCACACCCCAC_AAGCGCCAACCCCACUCGGUAGC
.(((((.((....))(((((.(((((((...(((((...((..((((......)))).....))..)))))))))...............))).))))).......))))). (-29.94 = -29.66 +  -0.28)

alignment

secondary structure

dotplot

Window 9

Location	22,380,775 – 22,380,887
Length	112
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	93.11
Mean single sequence MFE	-43.88
Consensus MFE	-37.36
Energy contribution	-37.28
Covariance contribution	-0.08
Combinations/Pair	1.10
Mean z-score	-1.45
Structure conservation index	0.85
SVM decision value	0.63
SVM RNA-class probability	0.806860
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22380775 112 - 23771897
GCUACCGCGUGGGGUUGGCGCUUCGUGGGGUGUGGCAGCUAGUCCAAGGCGAAGUGCCCCAAUAUGGGCUUGCUGAUGGACGGAUAGCAGCACCAACACAUCAGUUGGCAGG
(((((((((.((.(....).)).)))))(((((.((.....(((((.(((((...((((......)))))))))..))))).....)).)))))...........))))... ( -44.60)
>DroSec_CAF1 31936 112 - 1
GCUACCGAAUGGGGUUGGUGCUUGGUGGGGUGUGGCAGCUAGUCCAAGGCGAAGUGCCCCAAUAUGGGCUUGCUGAUGGACGGAUAGCAGCCCCAACACAACAGUUGGCAGG
((((((......)).))))(((.(.((..(((((((.(((((((((.(((((...((((......)))))))))..)))))...)))).)))...))))..)).).)))... ( -42.20)
>DroSim_CAF1 47475 112 - 1
GCUACCGAAUGGGGUUGGUGCUUGGUGGGGUGUGGCAGCUAGUCCAAGGCGAAGUGCCCCAAUAUGGGCUUGCUGAUGGACGGAUAGCAGCCCCAACACACCAGUUGGCAGG
((((((.....)).((((((..((.((((((...((.....(((((.(((((...((((......)))))))))..))))).....)).)))))).)))))))).))))... ( -45.90)
>DroEre_CAF1 48206 109 - 1
GCUACCAAGUGGGGUUCGCGCUU---GGGGUGUGGCAGCUAGUCCAAGGCAAAGUGCCCCAAUAUGGGCUUGCUGAUGGACGGAUAGCAGCCCAAACACAGCAGUUGGCAGG
(((((((((((.(...).)))))---)).(((((((.(((((((((.(((((...((((......)))))))))..)))))...)))).)))...))))......))))... ( -44.80)
>DroYak_CAF1 41691 109 - 1
GCUACCAAGUGGGGUUCGCGCUU---GGGGUGUGGCAGCUAGUUCAAGGCAAAGUGCCCCAAUAUGGGCUUGCUGAUGGACGGAUAGCAGCCCAAACACAGCAGUUGGCAGG
(((((((((((.(...).)))))---)).(((((((.(((((((((.(((((...((((......)))))))))..)))))...)))).)))...))))......))))... ( -41.90)
>consensus
GCUACCGAGUGGGGUUGGCGCUU_GUGGGGUGUGGCAGCUAGUCCAAGGCGAAGUGCCCCAAUAUGGGCUUGCUGAUGGACGGAUAGCAGCCCCAACACAGCAGUUGGCAGG
.((.((((.((..((((((((((....))))).(((.(((((((((.(((((...((((......)))))))))..)))))...)))).))))))))....)).)))).)). (-37.36 = -37.28 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:51 2006