Locus 2031

Sequence ID	2L_DroMel_CAF1
Location	5,493,803 – 5,493,895
Length	92
Max. P	0.730706

overview

Window 1

Location	5,493,803 – 5,493,895
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	83.08
Mean single sequence MFE	-26.23
Consensus MFE	-19.23
Energy contribution	-19.53
Covariance contribution	0.31
Combinations/Pair	1.23
Mean z-score	-2.08
Structure conservation index	0.73
SVM decision value	0.42
SVM RNA-class probability	0.730706
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5493803 92 + 22407834
UUGUCGGUUGCUGUUGUAACUGCUUAAGUGCAACAAUUUUAUUUGCAGCAGCAGUGCAUGCAACUCAACUUGAACUUGAGGCAUGCGA--GUUG-
...((..((((((((((((.(((......)))..........)))))))))))).((((((..(((((.......)))))))))))))--....- ( -28.40)
>DroPse_CAF1 133203 87 + 1
CUG------GUUGUUGUAGCUGCUUAAGUGCAACAAUUUUAUUUGUGGCAGCAGUGCAUGCAACUCAACUUGAACUUGGGGCAUGUGA--GUGCC
.((------(((((((((.(((((.....((.((((......)))).))))))))))).))))).))............(((((....--))))) ( -24.30)
>DroSim_CAF1 124428 91 + 1
UUGUCGGUUGCUGUUGUAACUGCUUAAGUGCAACAAUUUUAUUUGCAGCAGCAGUGCAUGCAACUCAACUUGAACUUGAGGCAUGCGA--GUA--
...((..((((((((((((.(((......)))..........)))))))))))).((((((..(((((.......)))))))))))))--...-- ( -28.40)
>DroWil_CAF1 166888 90 + 1
CGU--UGUUGUUGUUGUAACCACUUAAAUGCAACAAUUUUAUUUGUUACAGCAACGCAUGCAA--CAACUUGAACUUGAGGAAUGUUUAUGUAC-
.((--(((((((((((((((.....((((......)))).....))))))))))))...))))--).((.(((((.........))))).))..- ( -22.90)
>DroAna_CAF1 122693 85 + 1
U-------GGCUGUUGUAACUGCUUAAGUGCAACAAUUUUAUUUGUGGCAGCCGUGCAUGCAACUCAACUUGAACUUGAGGCAUGCGA--GUAG-
.-------(((((((.....(((......)))((((......))))))))))).(((((((..(((((.......)))))))))))).--....- ( -28.30)
>DroPer_CAF1 133744 87 + 1
CUG------GUUGUUGUAGCUGCUUAAGUGCAACAAUUUUAUUUGUGGCAGCAGUGCAUGCAACUCAACUUGAACUUGAGGCAUGUGA--GUGCC
..(------(((((((((.((.....))))))))))))........((((....(((((((..(((((.......)))))))))))).--.)))) ( -25.10)
>consensus
CUG_____UGCUGUUGUAACUGCUUAAGUGCAACAAUUUUAUUUGUGGCAGCAGUGCAUGCAACUCAACUUGAACUUGAGGCAUGCGA__GUAC_
.........((((((((...(((......)))((((......)))).))))))))((((((..(((((.......)))))))))))......... (-19.23 = -19.53 +   0.31)

alignment

secondary structure

dotplot

Window 2

Location	5,493,803 – 5,493,895
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	83.08
Mean single sequence MFE	-22.10
Consensus MFE	-13.15
Energy contribution	-12.68
Covariance contribution	-0.47
Combinations/Pair	1.26
Mean z-score	-2.34
Structure conservation index	0.60
SVM decision value	0.02
SVM RNA-class probability	0.544289
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5493803 92 - 22407834
-CAAC--UCGCAUGCCUCAAGUUCAAGUUGAGUUGCAUGCACUGCUGCUGCAAAUAAAAUUGUUGCACUUAAGCAGUUACAACAGCAACCGACAA
-....--..(((((((((((.......)))))..))))))((((((..(((((.........)))))....)))))).................. ( -24.00)
>DroPse_CAF1 133203 87 - 1
GGCAC--UCACAUGCCCCAAGUUCAAGUUGAGUUGCAUGCACUGCUGCCACAAAUAAAAUUGUUGCACUUAAGCAGCUACAACAAC------CAG
((((.--.....))))..........((((((((((..((...))(((.((((......)))).))).....)))))).))))...------... ( -21.50)
>DroSim_CAF1 124428 91 - 1
--UAC--UCGCAUGCCUCAAGUUCAAGUUGAGUUGCAUGCACUGCUGCUGCAAAUAAAAUUGUUGCACUUAAGCAGUUACAACAGCAACCGACAA
--...--..(((((((((((.......)))))..))))))((((((..(((((.........)))))....)))))).................. ( -24.00)
>DroWil_CAF1 166888 90 - 1
-GUACAUAAACAUUCCUCAAGUUCAAGUUG--UUGCAUGCGUUGCUGUAACAAAUAAAAUUGUUGCAUUUAAGUGGUUACAACAACAACA--ACG
-...................(((...((((--(((..(((.....((((((((......)))))))).....)))....)))))))...)--)). ( -16.80)
>DroAna_CAF1 122693 85 - 1
-CUAC--UCGCAUGCCUCAAGUUCAAGUUGAGUUGCAUGCACGGCUGCCACAAAUAAAAUUGUUGCACUUAAGCAGUUACAACAGCC-------A
-....--..(((((((((((.......)))))..))))))..(((((..((((......))))(((......))).......)))))-------. ( -24.40)
>DroPer_CAF1 133744 87 - 1
GGCAC--UCACAUGCCUCAAGUUCAAGUUGAGUUGCAUGCACUGCUGCCACAAAUAAAAUUGUUGCACUUAAGCAGCUACAACAAC------CAG
((((.--.....))))..........((((((((((..((...))(((.((((......)))).))).....)))))).))))...------... ( -21.90)
>consensus
_GUAC__UCACAUGCCUCAAGUUCAAGUUGAGUUGCAUGCACUGCUGCCACAAAUAAAAUUGUUGCACUUAAGCAGUUACAACAACA_____CAA
..........................((((((((((..((...))(((.((((......)))).))).....)))))).))))............ (-13.15 = -12.68 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:37 2006