Locus 1932

Sequence ID	2L_DroMel_CAF1
Location	5,236,414 – 5,236,512
Length	98
Max. P	0.948284

overview

Window 1

Location	5,236,414 – 5,236,512
Length	98
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	94.06
Mean single sequence MFE	-36.20
Consensus MFE	-27.40
Energy contribution	-27.32
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-3.02
Structure conservation index	0.76
SVM decision value	1.38
SVM RNA-class probability	0.948284
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5236414 98 + 22407834
GGGCCAAAGGCUGAUGAUUUUUAUACGGCGGCAACAACUGCAAUGCAACUAAGUUGUUGUUGCCCCAACCGAUCG-UUCUUGGUU---GUUUUUGUUGGCCU
(((((((...................(((((((((((((............))))))))))))).(((((((...-...))))))---)......))))))) ( -36.90)
>DroSec_CAF1 13664 98 + 1
GGGCCAAAGGCUGAUGAUUUUUAUACGGCGGCGGCCACUGCAGUGCAACUCAGUUGUUGUUGCCCCAACCGAUCG-UUCUUGGUU---GUUUUUGUUGGCCU
(((((((...................(((((((((.((((.((.....)))))).))))))))).(((((((...-...))))))---)......))))))) ( -36.40)
>DroSim_CAF1 14546 98 + 1
GGGCCAAAGGCUGAUGAUUUUUAUACGGCGGCGGCAACUGCAAUGCAACUUAGUUGUUGUUGCCCCAACCGAUCG-UUCUUGGUU---GUUUUUGUUGGCCU
(((((((..((((((((...)))).))))((.((((((.(((((........))))).))))))))((((((...-...))))))---.......))))))) ( -36.70)
>DroEre_CAF1 6317 99 + 1
GGGCCAAAGGCUGAUGAUUUUUAUACGGCGGCGG---CUGCAAUGCAACUUAGUUGUUGUUGCCCCAACCGAUCGGUUCUUGGUUGUUGUUUUUGUUGGCCU
(((((((..((((((((...)))).))))(((((---(.(((((........))))).)))))).(((((((.......))))))).........))))))) ( -34.20)
>DroYak_CAF1 15648 95 + 1
GGGCCAAAGGCUGAUGAUUUUUAUACGGCGGCGG---CUGCAAUGCAACUUAGUUGUUGUUGCCACAACCGAUCG-UUCUUGGUU---GUUUUUGUUGGCCU
(((((((..((((((((...)))).))))(((((---(.(((((........))))).))))))((((((((...-...))))))---)).....))))))) ( -36.80)
>consensus
GGGCCAAAGGCUGAUGAUUUUUAUACGGCGGCGGC_ACUGCAAUGCAACUUAGUUGUUGUUGCCCCAACCGAUCG_UUCUUGGUU___GUUUUUGUUGGCCU
(((((((..((((((((...)))).))))((((((....(((((........))))).))))))..((((((.......))))))..........))))))) (-27.40 = -27.32 +  -0.08)

alignment

secondary structure

dotplot

Window 2

Location	5,236,414 – 5,236,512
Length	98
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	94.06
Mean single sequence MFE	-26.66
Consensus MFE	-20.96
Energy contribution	-21.00
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.24
Structure conservation index	0.79
SVM decision value	1.20
SVM RNA-class probability	0.929672
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5236414 98 - 22407834
AGGCCAACAAAAAC---AACCAAGAA-CGAUCGGUUGGGGCAACAACAACUUAGUUGCAUUGCAGUUGUUGCCGCCGUAUAAAAAUCAUCAGCCUUUGGCCC
.((((((......(---((((.....-.....))))).(((..((((((((..((......))))))))))..)))...................)))))). ( -28.90)
>DroSec_CAF1 13664 98 - 1
AGGCCAACAAAAAC---AACCAAGAA-CGAUCGGUUGGGGCAACAACAACUGAGUUGCACUGCAGUGGCCGCCGCCGUAUAAAAAUCAUCAGCCUUUGGCCC
.((((((......(---((((.....-.....)))))((((.......((((((.....)).))))(((....)))...............)))))))))). ( -28.60)
>DroSim_CAF1 14546 98 - 1
AGGCCAACAAAAAC---AACCAAGAA-CGAUCGGUUGGGGCAACAACAACUAAGUUGCAUUGCAGUUGCCGCCGCCGUAUAAAAAUCAUCAGCCUUUGGCCC
.((((((.......---......((.-...))(((.(.(((((((((......)))((...)).)))))).).)))...................)))))). ( -25.30)
>DroEre_CAF1 6317 99 - 1
AGGCCAACAAAAACAACAACCAAGAACCGAUCGGUUGGGGCAACAACAACUAAGUUGCAUUGCAG---CCGCCGCCGUAUAAAAAUCAUCAGCCUUUGGCCC
.((((((.........(((((...........)))))((((..((((......))))...(((.(---(....)).)))............)))))))))). ( -25.20)
>DroYak_CAF1 15648 95 - 1
AGGCCAACAAAAAC---AACCAAGAA-CGAUCGGUUGUGGCAACAACAACUAAGUUGCAUUGCAG---CCGCCGCCGUAUAAAAAUCAUCAGCCUUUGGCCC
.((((((.....((---((((.....-.....))))))(((..((((......))))...(((.(---(....)).)))............))).)))))). ( -25.30)
>consensus
AGGCCAACAAAAAC___AACCAAGAA_CGAUCGGUUGGGGCAACAACAACUAAGUUGCAUUGCAGU_GCCGCCGCCGUAUAAAAAUCAUCAGCCUUUGGCCC
.((((((................((.....))((((((.(((((.........)))))((.((.(......).)).))..........)))))).)))))). (-20.96 = -21.00 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:13 2006