Locus 6144

Sequence ID	2L_DroMel_CAF1
Location	17,137,778 – 17,137,898
Length	120
Max. P	0.998820

overview

Window 4

Location	17,137,778 – 17,137,898
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.67
Mean single sequence MFE	-18.89
Consensus MFE	-18.38
Energy contribution	-18.42
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.26
Structure conservation index	0.97
SVM decision value	3.24
SVM RNA-class probability	0.998820
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17137778 120 + 22407834
AAAAUAAAAGCAAAGUAAAGGAAACAAAAAUCAUAAAAACAAUAACCAAAAGUAAUCAAAAAGUGGAGCACUUUACUUUUGUUUGUCCUUACCACACAGGGAAAAUAAAGUGGGGUAACA
.(((((((((.(((((...(....)....................(((....(.....)....)))...))))).)))))))))....(((((.(((............))).))))).. ( -19.00)
>DroSec_CAF1 106174 120 + 1
AAAAUAAAAGCAAAGUAAAGGAAACAAAAAUCAUAAAAACAAUAACCAAAAGUAAUCAAAAAGUGGAGCACUUUACUUUUGUUUGUCCUUACCACACAGGGAAAAUAAAGUGGGGUAACA
.(((((((((.(((((...(....)....................(((....(.....)....)))...))))).)))))))))....(((((.(((............))).))))).. ( -19.00)
>DroSim_CAF1 118401 120 + 1
AAAAUAAAAGCAAAGUAAAGGAAACAAAAAUCAUAAAAACAAUAACCAAAAGUAAUCAAAAAGUGGAGCACUUUACUUUUGUUUGUCCUUACCACACAGGGAAAAUAAAGUGGGGUAACA
.(((((((((.(((((...(....)....................(((....(.....)....)))...))))).)))))))))....(((((.(((............))).))))).. ( -19.00)
>DroEre_CAF1 103717 120 + 1
AAAAUAAAAGCAAAGUAAAGGAAACAAAAAUCAUAAAAACAAUAACCAAAAGUAAUCAAAAAGUGGAGCACUUUACUUUUGUUUGUUCUUACCACACAGGGAAAGUAAAGUGGGGUAACA
.(((((((((.(((((...(....)....................(((....(.....)....)))...))))).)))))))))....(((((.(((............))).))))).. ( -19.00)
>DroYak_CAF1 106185 120 + 1
AAAAUAAAAGCAAAGUAAAGGAAACAAAAAUCAUAAAAACAAUAACCGAAAGUAAUCAAAAAGUGGAGCACUUUACUUUUGUUUGUCCUCACCACACAGGGAAAAUAAAGUGGGGUAACA
.(((((((((.(((((...(....).....................(....).................))))).)))))))))..((((((.................))))))..... ( -18.43)
>consensus
AAAAUAAAAGCAAAGUAAAGGAAACAAAAAUCAUAAAAACAAUAACCAAAAGUAAUCAAAAAGUGGAGCACUUUACUUUUGUUUGUCCUUACCACACAGGGAAAAUAAAGUGGGGUAACA
.(((((((((.(((((...(....)....................(((....(.....)....)))...))))).)))))))))....(((((.(((............))).))))).. (-18.38 = -18.42 +   0.04)

alignment

secondary structure

dotplot

Window 5

Location	17,137,778 – 17,137,898
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.67
Mean single sequence MFE	-19.06
Consensus MFE	-18.42
Energy contribution	-18.30
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.45
Structure conservation index	0.97
SVM decision value	0.96
SVM RNA-class probability	0.890602
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17137778 120 - 22407834
UGUUACCCCACUUUAUUUUCCCUGUGUGGUAAGGACAAACAAAAGUAAAGUGCUCCACUUUUUGAUUACUUUUGGUUAUUGUUUUUAUGAUUUUUGUUUCCUUUACUUUGCUUUUAUUUU
..(((((.(((............))).)))))(((..(((((((((((((((...)))))).((((((....))))))...........))))))))))))................... ( -18.90)
>DroSec_CAF1 106174 120 - 1
UGUUACCCCACUUUAUUUUCCCUGUGUGGUAAGGACAAACAAAAGUAAAGUGCUCCACUUUUUGAUUACUUUUGGUUAUUGUUUUUAUGAUUUUUGUUUCCUUUACUUUGCUUUUAUUUU
..(((((.(((............))).)))))(((..(((((((((((((((...)))))).((((((....))))))...........))))))))))))................... ( -18.90)
>DroSim_CAF1 118401 120 - 1
UGUUACCCCACUUUAUUUUCCCUGUGUGGUAAGGACAAACAAAAGUAAAGUGCUCCACUUUUUGAUUACUUUUGGUUAUUGUUUUUAUGAUUUUUGUUUCCUUUACUUUGCUUUUAUUUU
..(((((.(((............))).)))))(((..(((((((((((((((...)))))).((((((....))))))...........))))))))))))................... ( -18.90)
>DroEre_CAF1 103717 120 - 1
UGUUACCCCACUUUACUUUCCCUGUGUGGUAAGAACAAACAAAAGUAAAGUGCUCCACUUUUUGAUUACUUUUGGUUAUUGUUUUUAUGAUUUUUGUUUCCUUUACUUUGCUUUUAUUUU
..(((((.(((............))).)))))((((((((((((((((((((...))))......)))))))))(((((.......))))).)))))))..................... ( -19.20)
>DroYak_CAF1 106185 120 - 1
UGUUACCCCACUUUAUUUUCCCUGUGUGGUGAGGACAAACAAAAGUAAAGUGCUCCACUUUUUGAUUACUUUCGGUUAUUGUUUUUAUGAUUUUUGUUUCCUUUACUUUGCUUUUAUUUU
(.(((((.(((............))).))))).)......((((((((((((...........((......))((..((.(((.....)))....))..))..))))))))))))..... ( -19.40)
>consensus
UGUUACCCCACUUUAUUUUCCCUGUGUGGUAAGGACAAACAAAAGUAAAGUGCUCCACUUUUUGAUUACUUUUGGUUAUUGUUUUUAUGAUUUUUGUUUCCUUUACUUUGCUUUUAUUUU
..(((((.(((............))).)))))((((((((((((((((((((...))))......)))))))))(((((.......))))).)))))))..................... (-18.42 = -18.30 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:31 2006