Locus 1640

Sequence ID	3L_DroMel_CAF1
Location	4,763,525 – 4,763,619
Length	94
Max. P	0.766814

overview

Window 7

Location	4,763,525 – 4,763,619
Length	94
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	88.20
Mean single sequence MFE	-29.00
Consensus MFE	-20.69
Energy contribution	-20.53
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-2.13
Structure conservation index	0.71
SVM decision value	0.52
SVM RNA-class probability	0.766814
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4763525 94 + 23771897
AAAGGAUGGCUA----------UGUUCAUAUGUGUGCACAUAGUUCCGUGCCCAACAAGGUGUGAAACUUCGCCUUACGGUGCCGCAGACAAAAUCCAACACUC-----
...(((((((((----------(((.(((....))).)))))))).((.((((...((((((........))))))..)).))))........)))).......----- ( -25.40)
>DroSec_CAF1 26325 94 + 1
AAAGGAUGGCCA----------CGUUCAUAUGUGUGCACAUAGUUCCGUGCCCAACAAGGUGUGAAACUUCGCCUUACGGUGCCGCAGACAAAAUCCAACACUC-----
...((((.((((----------(((....))))).)).....(((.((.((((...((((((........))))))..)).))))..)))...)))).......----- ( -25.10)
>DroSim_CAF1 23624 94 + 1
AAAGGAUGGCCA----------CGUUCAUAUGUGUGCACAUAGUUCCGUGCCCAACAAGGUGUGAAACUUCGCCUUACGGUGCCGCAGACAAAAUCCAACACUC-----
...((((.((((----------(((....))))).)).....(((.((.((((...((((((........))))))..)).))))..)))...)))).......----- ( -25.10)
>DroEre_CAF1 15547 94 + 1
AAAGGAUGGCAA----------UGUGCAUAUGUGUGCACAUAGUUCCGUGCCCAACAAGGUGUGAAACUUCGCCUUACGGUGGCGCAUACAAAAUCCAACACUC-----
...(((((((.(----------(((((((....)))))))).)))..((((((...((((((........))))))...).))))).......)))).......----- ( -32.20)
>DroYak_CAF1 22514 109 + 1
AAAGGAUGGCUACACAUACAUACGAGUAUGUGUGUGCACAUAGUUUUGUGCCCAACAAGGUGUGAAACUUCGCCUUUUGGUGGCGCAGACAAAAUCCAACACUCCAAAC
...((((.(((((((((((......))))))))).)).....((((.((((((...((((((........))))))...).)))))))))...))))............ ( -37.20)
>consensus
AAAGGAUGGCCA__________CGUUCAUAUGUGUGCACAUAGUUCCGUGCCCAACAAGGUGUGAAACUUCGCCUUACGGUGCCGCAGACAAAAUCCAACACUC_____
...((((.......................(((.(((....((((.((..((......))..)).)))).((((....))))..))).)))..))))............ (-20.69 = -20.53 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	4,763,525 – 4,763,619
Length	94
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	88.20
Mean single sequence MFE	-31.54
Consensus MFE	-22.98
Energy contribution	-23.42
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.97
Structure conservation index	0.73
SVM decision value	0.47
SVM RNA-class probability	0.747991
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4763525 94 - 23771897
-----GAGUGUUGGAUUUUGUCUGCGGCACCGUAAGGCGAAGUUUCACACCUUGUUGGGCACGGAACUAUGUGCACACAUAUGAACA----------UAGCCAUCCUUU
-----..((((..(((((((((((((....))).))))))))))..))))............(((.((((((.((......)).)))----------)))...)))... ( -27.20)
>DroSec_CAF1 26325 94 - 1
-----GAGUGUUGGAUUUUGUCUGCGGCACCGUAAGGCGAAGUUUCACACCUUGUUGGGCACGGAACUAUGUGCACACAUAUGAACG----------UGGCCAUCCUUU
-----..((((..(((((((((((((....))).))))))))))..)))).....(((.((((....(((((....)))))....))----------)).)))...... ( -33.80)
>DroSim_CAF1 23624 94 - 1
-----GAGUGUUGGAUUUUGUCUGCGGCACCGUAAGGCGAAGUUUCACACCUUGUUGGGCACGGAACUAUGUGCACACAUAUGAACG----------UGGCCAUCCUUU
-----..((((..(((((((((((((....))).))))))))))..)))).....(((.((((....(((((....)))))....))----------)).)))...... ( -33.80)
>DroEre_CAF1 15547 94 - 1
-----GAGUGUUGGAUUUUGUAUGCGCCACCGUAAGGCGAAGUUUCACACCUUGUUGGGCACGGAACUAUGUGCACACAUAUGCACA----------UUGCCAUCCUUU
-----..((((..((((((((.((((....))))..))))))))..)))).......((((.......(((((((......))))))----------)))))....... ( -26.41)
>DroYak_CAF1 22514 109 - 1
GUUUGGAGUGUUGGAUUUUGUCUGCGCCACCAAAAGGCGAAGUUUCACACCUUGUUGGGCACAAAACUAUGUGCACACACAUACUCGUAUGUAUGUGUAGCCAUCCUUU
....(((((((..((((((((((...........))))))))))..)))).....((((((((......)))))..((((((((......))))))))..))))))... ( -36.50)
>consensus
_____GAGUGUUGGAUUUUGUCUGCGGCACCGUAAGGCGAAGUUUCACACCUUGUUGGGCACGGAACUAUGUGCACACAUAUGAACG__________UAGCCAUCCUUU
.......((((..(((((((((((((....))).))))))))))..))))..(((...(((((......)))))..))).............................. (-22.98 = -23.42 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:37 2006