Locus 5703

Sequence ID	2L_DroMel_CAF1
Location	16,231,224 – 16,231,314
Length	90
Max. P	0.725534

overview

Window 6

Location	16,231,224 – 16,231,314
Length	90
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	71.96
Mean single sequence MFE	-16.27
Consensus MFE	-1.10
Energy contribution	-1.10
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.07
SVM decision value	0.41
SVM RNA-class probability	0.725534
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16231224 90 + 22407834
CAUGUUCUUUUGCCAAA------GAAAAAAACAAGUUUUGUAGAGGGAUACCCAUACCAAUUAAGUACAAAAGUGGUCCUUACAAAUUCAAUCGCU
....((((((....)))------)))..........(((((((.(((...)))..((((.((........)).))))..))))))).......... ( -10.60)
>DroSec_CAF1 148679 83 + 1
CAUGUUCAAUGCCAGAA------AGAAAAAACAAGUUGUGUGAAGGGAUAACACAACCAAUUAAGUACAAAAGU-------ACAAUUUCAAUGGCU
..........((((...------.((((......(((((((.........))))))).......((((....))-------))..))))..)))). ( -18.80)
>DroSim_CAF1 150795 83 + 1
CAUGUUCAAUGCCAGAA------AGAAAAAACAAGUUGUGUGAAGGGAUAACACAACCAAUUAAGUACAAAAGU-------ACAAUUUCAAUGGCU
..........((((...------.((((......(((((((.........))))))).......((((....))-------))..))))..)))). ( -18.80)
>DroEre_CAF1 152202 96 + 1
CAUGUUUGGCUGCAAAAAAAUUGCAAAGGGAAAAAUUUCGUAAAGGGAUGACCCCACCAAUUAAGUAAAAAUAUGGGCCUUACAAUUUCAAUGACU
..(((..((((((((.....))))...(((....((..(.....)..))...)))....................))))..)))............ ( -19.60)
>DroYak_CAF1 160327 89 + 1
CAAGUUUGUAGGCAU-------ACAAAAAAACAAGUUUUGUGAAGGGAUAACCCUACCAACUAAGUACAAAAAUGGGCUUUACACUUUUAAUGACU
.(((..(((((((.(-------((((((.......))))))).((((....)))).(((..............))))).)))))..)))....... ( -13.54)
>consensus
CAUGUUCAAUGGCAAAA______AAAAAAAACAAGUUUUGUGAAGGGAUAACCCAACCAAUUAAGUACAAAAGUGG_C_UUACAAUUUCAAUGGCU
............................................((..........))...................................... ( -1.10 =  -1.10 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	16,231,224 – 16,231,314
Length	90
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	71.96
Mean single sequence MFE	-17.40
Consensus MFE	-0.14
Energy contribution	-0.90
Covariance contribution	0.76
Combinations/Pair	1.33
Mean z-score	-1.43
Structure conservation index	0.01
SVM decision value	0.07
SVM RNA-class probability	0.567786
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16231224 90 - 22407834
AGCGAUUGAAUUUGUAAGGACCACUUUUGUACUUAAUUGGUAUGGGUAUCCCUCUACAAAACUUGUUUUUUUC------UUUGGCAAAAGAACAUG
..........(((((((((...((((..(((((.....)))))))))...))).))))))...((((((((((------....).))))))))).. ( -15.90)
>DroSec_CAF1 148679 83 - 1
AGCCAUUGAAAUUGU-------ACUUUUGUACUUAAUUGGUUGUGUUAUCCCUUCACACAACUUGUUUUUUCU------UUCUGGCAUUGAACAUG
.((((..((((..((-------((....))))..(((.((((((((.(.....).)))))))).))).)))).------...)))).......... ( -18.90)
>DroSim_CAF1 150795 83 - 1
AGCCAUUGAAAUUGU-------ACUUUUGUACUUAAUUGGUUGUGUUAUCCCUUCACACAACUUGUUUUUUCU------UUCUGGCAUUGAACAUG
.((((..((((..((-------((....))))..(((.((((((((.(.....).)))))))).))).)))).------...)))).......... ( -18.90)
>DroEre_CAF1 152202 96 - 1
AGUCAUUGAAAUUGUAAGGCCCAUAUUUUUACUUAAUUGGUGGGGUCAUCCCUUUACGAAAUUUUUCCCUUUGCAAUUUUUUUGCAGCCAAACAUG
.(.((..(((((((((((((((((...((.....))...))))).............(((....))).))))))))))))..)))........... ( -18.40)
>DroYak_CAF1 160327 89 - 1
AGUCAUUAAAAGUGUAAAGCCCAUUUUUGUACUUAGUUGGUAGGGUUAUCCCUUCACAAAACUUGUUUUUUUGU-------AUGCCUACAAACUUG
(((...((((((((.......)))))))).)))..((.(((((((....)))...((((((.......))))))-------.)))).))....... ( -14.90)
>consensus
AGCCAUUGAAAUUGUAA_G_CCACUUUUGUACUUAAUUGGUAGGGUUAUCCCUUCACAAAACUUGUUUUUUUG______UUCUGCCAACGAACAUG
.....................................((..((((....))))...))...................................... ( -0.14 =  -0.90 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:37 2006