Locus 3866

Sequence ID	2R_DroMel_CAF1
Location	12,785,937 – 12,786,039
Length	102
Max. P	0.990833

overview

Window 6

Location	12,785,937 – 12,786,039
Length	102
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	90.00
Mean single sequence MFE	-24.05
Consensus MFE	-19.41
Energy contribution	-19.77
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-2.29
Structure conservation index	0.81
SVM decision value	0.31
SVM RNA-class probability	0.683627
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12785937 102 + 20766785
GUGUACUGCCAAAUUAAUUAGCCAAGUCAAAUGGAUGACAAUGAGAAUUAAUUAGGCAAGUCAAAACUCCAUUUUUGGAGCAGAGAUUU--ACUCGAAGAAUAA--
.((.((((((.((((((((..(...((((......))))...)..)))))))).))).)))))...(((((....)))))..(((....--.))).........-- ( -24.60)
>DroSec_CAF1 130564 102 + 1
GAGUACUACCAAAUUAAUUAGCCAAGUCAAAUGGAUGACAAUGAGAAUUAAUUAGGCAAGUCAAAACUCCAUUUUUGGAGCAGCGAUUU--ACUCGAAGAAUAA--
((((....((.((((((((..(...((((......))))...)..)))))))).)).(((((....(((((....)))))....)))))--)))).........-- ( -23.20)
>DroSim_CAF1 135728 102 + 1
GUGUACUGCCAAAUUAAUUAGCCAAGUCAAAUGGAUGACAAUGAGAAUUAAUUAGGCAAGUCAAAACUCCAUUUUUGGAGCAGCGAUUU--ACUCGAAGAAUAA--
(.(((.((((.((((((((..(...((((......))))...)..)))))))).))))((((....(((((....)))))....)))))--)).).........-- ( -23.60)
>DroEre_CAF1 131194 93 + 1
GUGUACUACCAAAUUAAUUAGCCAAGUCAGAUGGAUGACAAUAAGAAUUAAUUAGGCAAGUCAAAACUCCAUUUUUGGAGCAGCG-----------CAGAAUAA--
(((((((.((.((((((((......((((......))))......)))))))).))..))).....(((((....)))))..)))-----------).......-- ( -20.90)
>DroYak_CAF1 137157 102 + 1
GUGUACUGCCAAAUUAAUUAGCCAAGUCAGAUGGAUGACAAUGAGAAUUAAUUGGGCAAGUCAAAACUCCAUUUUUGGAGCGGCGUUUU--ACCUGUAGAAUAA--
......((((.((((((((..(...((((......))))...)..)))))))).)))).(((....(((((....))))).)))(((((--(....))))))..-- ( -25.80)
>DroAna_CAF1 120633 106 + 1
GUGUACUGCCAAAUUAAUUAGCCAAGUCAGAUGGAUGACAAUGAGAAUUAAUUAGGCAAGUCAAAACUCUAUUUUUGGAGCAGUUUCUUCGGCUGGAAGAAUAAGC
.((.((((((.((((((((..(...((((......))))...)..)))))))).))).)))))...(((((....)))))....((((((.....))))))..... ( -26.20)
>consensus
GUGUACUGCCAAAUUAAUUAGCCAAGUCAAAUGGAUGACAAUGAGAAUUAAUUAGGCAAGUCAAAACUCCAUUUUUGGAGCAGCGAUUU__ACUCGAAGAAUAA__
.((.((((((.((((((((......((((......))))......)))))))).))).)))))...(((((....))))).......................... (-19.41 = -19.77 +   0.36)

alignment

secondary structure

dotplot

Window 7

Location	12,785,937 – 12,786,039
Length	102
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	90.00
Mean single sequence MFE	-25.15
Consensus MFE	-21.43
Energy contribution	-21.23
Covariance contribution	-0.19
Combinations/Pair	1.08
Mean z-score	-3.22
Structure conservation index	0.85
SVM decision value	2.23
SVM RNA-class probability	0.990833
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12785937 102 - 20766785
--UUAUUCUUCGAGU--AAAUCUCUGCUCCAAAAAUGGAGUUUUGACUUGCCUAAUUAAUUCUCAUUGUCAUCCAUUUGACUUGGCUAAUUAAUUUGGCAGUACAC
--...........((--(..((...((((((....))))))...)).(((((.((((((((..(...((((......))))...)..)))))))).)))))))).. ( -26.00)
>DroSec_CAF1 130564 102 - 1
--UUAUUCUUCGAGU--AAAUCGCUGCUCCAAAAAUGGAGUUUUGACUUGCCUAAUUAAUUCUCAUUGUCAUCCAUUUGACUUGGCUAAUUAAUUUGGUAGUACUC
--.........((((--(..(((..((((((....))))))..))).(((((.((((((((..(...((((......))))...)..)))))))).)))))))))) ( -28.00)
>DroSim_CAF1 135728 102 - 1
--UUAUUCUUCGAGU--AAAUCGCUGCUCCAAAAAUGGAGUUUUGACUUGCCUAAUUAAUUCUCAUUGUCAUCCAUUUGACUUGGCUAAUUAAUUUGGCAGUACAC
--...........((--(..(((..((((((....))))))..))).(((((.((((((((..(...((((......))))...)..)))))))).)))))))).. ( -27.10)
>DroEre_CAF1 131194 93 - 1
--UUAUUCUG-----------CGCUGCUCCAAAAAUGGAGUUUUGACUUGCCUAAUUAAUUCUUAUUGUCAUCCAUCUGACUUGGCUAAUUAAUUUGGUAGUACAC
--........-----------((..((((((....))))))..))(((.(((.((((((((......((((......))))......)))))))).)))))).... ( -21.00)
>DroYak_CAF1 137157 102 - 1
--UUAUUCUACAGGU--AAAACGCCGCUCCAAAAAUGGAGUUUUGACUUGCCCAAUUAAUUCUCAUUGUCAUCCAUCUGACUUGGCUAAUUAAUUUGGCAGUACAC
--..........(((--.....)))((((((....))))))..(((((.(((.((((((((..(...((((......))))...)..)))))))).)))))).)). ( -25.40)
>DroAna_CAF1 120633 106 - 1
GCUUAUUCUUCCAGCCGAAGAAACUGCUCCAAAAAUAGAGUUUUGACUUGCCUAAUUAAUUCUCAUUGUCAUCCAUCUGACUUGGCUAAUUAAUUUGGCAGUACAC
((...((((((.....))))))...))..(((((......)))))(((.(((.((((((((..(...((((......))))...)..)))))))).)))))).... ( -23.40)
>consensus
__UUAUUCUUCGAGU__AAAUCGCUGCUCCAAAAAUGGAGUUUUGACUUGCCUAAUUAAUUCUCAUUGUCAUCCAUCUGACUUGGCUAAUUAAUUUGGCAGUACAC
.........................((((((....))))))....(((.(((.((((((((..(...((((......))))...)..)))))))).)))))).... (-21.43 = -21.23 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:00 2006