Locus 1681

Sequence ID	2L_DroMel_CAF1
Location	4,573,139 – 4,573,235
Length	96
Max. P	0.680386

overview

Window 8

Location	4,573,139 – 4,573,235
Length	96
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	84.65
Mean single sequence MFE	-21.48
Consensus MFE	-15.58
Energy contribution	-16.18
Covariance contribution	0.60
Combinations/Pair	1.16
Mean z-score	-1.68
Structure conservation index	0.73
SVM decision value	0.16
SVM RNA-class probability	0.611967
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4573139 96 + 22407834
-CGCACAAAACAUUUGCAAAUAUUGUCCUCACAUCAACAAAAUAGCCGUCAACCGGCAAGUUCGUUGCCUGAGUCUUUUGUUUGCA--AAAA-ACAGCAU
-...........((((((((((..(..((((...((((.((...((((.....))))...)).))))..))))..)..))))))))--))..-....... ( -24.30)
>DroSec_CAF1 17965 98 + 1
-CGCACAAACCAUUCGCAAAUAUUGUCCUCACAUCAACAAAGUAGCCGUCAACCGGCAAGUUCGUUGCCUGAGUCUUUGGUUUGCGAAAAAA-AGAGCAU
-.((........(((((((((...(..((((...((((.((.(.((((.....)))).).)).))))..))))..)...)))))))))....-...)).. ( -25.86)
>DroSim_CAF1 15091 98 + 1
-CGCACAAAACAUUCGCAAAUAUUGUCCUCACAUCAACAAAGUAACCGUCAACCGGCAAGUUCGUUGCCUGAGUCUUUUGUUUGCGAAAAAA-AGAGCGU
-(((........((((((((((..(..((((...((((.((.(..(((.....)))..).)).))))..))))..)..))))))))))....-...))). ( -24.46)
>DroEre_CAF1 20467 87 + 1
CCGCGCAAACCAUUUGUAAAAAUUGUCCUCAGAACAACAAAGUAUUCGUCAACCGGCAAGUUUGUUGCCUGAGUUUUUUGUUUGAAA-------------
.....(((((.((((....))))....(((((..(((((((.(..(((.....)))..).))))))).)))))......)))))...------------- ( -15.20)
>DroYak_CAF1 18117 100 + 1
UCGCGCAAACCAUUUGCAAAUAUUGUCCUCAAAACAACAAAGUAUCCGUCAACCGGCAAGUUCGUUGCCUGAGUCUUUUGUUUGAGAAAAAAUAAAGCAU
..((((((.....))))...((((...(((((....((((((.((...(((...(((((.....)))))))))).)))))))))))....))))..)).. ( -17.60)
>consensus
_CGCACAAACCAUUUGCAAAUAUUGUCCUCACAUCAACAAAGUAGCCGUCAACCGGCAAGUUCGUUGCCUGAGUCUUUUGUUUGCGAAAAAA_AGAGCAU
............((((((((((..(..((((...((((.((.(..(((.....)))..).)).))))..))))..)..))))))))))............ (-15.58 = -16.18 +   0.60)

alignment

secondary structure

dotplot

Window 9

Location	4,573,139 – 4,573,235
Length	96
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	84.65
Mean single sequence MFE	-26.49
Consensus MFE	-20.25
Energy contribution	-22.09
Covariance contribution	1.84
Combinations/Pair	1.12
Mean z-score	-1.70
Structure conservation index	0.76
SVM decision value	0.30
SVM RNA-class probability	0.680386
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4573139 96 - 22407834
AUGCUGU-UUUU--UGCAAACAAAAGACUCAGGCAACGAACUUGCCGGUUGACGGCUAUUUUGUUGAUGUGAGGACAAUAUUUGCAAAUGUUUUGUGCG-
..((...-..((--((((((.......((((.((((((((...((((.....))))...))))))).).)))).......))))))))........)).- ( -28.66)
>DroSec_CAF1 17965 98 - 1
AUGCUCU-UUUUUUCGCAAACCAAAGACUCAGGCAACGAACUUGCCGGUUGACGGCUACUUUGUUGAUGUGAGGACAAUAUUUGCGAAUGGUUUGUGCG-
..((.(.-.(..((((((((.......((((.((((((((...((((.....))))...))))))).).)))).......))))))))..)...).)).- ( -32.04)
>DroSim_CAF1 15091 98 - 1
ACGCUCU-UUUUUUCGCAAACAAAAGACUCAGGCAACGAACUUGCCGGUUGACGGUUACUUUGUUGAUGUGAGGACAAUAUUUGCGAAUGUUUUGUGCG-
.(((.(.-....((((((((.......((((.((((((((...((((.....))))...))))))).).)))).......))))))))......).)))- ( -31.54)
>DroEre_CAF1 20467 87 - 1
-------------UUUCAAACAAAAAACUCAGGCAACAAACUUGCCGGUUGACGAAUACUUUGUUGUUCUGAGGACAAUUUUUACAAAUGGUUUGCGCGG
-------------...(((((......(((((((((((((.....((.....)).....))))))).))))))...........(....))))))..... ( -17.50)
>DroYak_CAF1 18117 100 - 1
AUGCUUUAUUUUUUCUCAAACAAAAGACUCAGGCAACGAACUUGCCGGUUGACGGAUACUUUGUUGUUUUGAGGACAAUAUUUGCAAAUGGUUUGCGCGA
.(((.......................(((((((((((((....(((.....)))....))))))).))))))..........((((.....))))))). ( -22.70)
>consensus
AUGCUCU_UUUUUUCGCAAACAAAAGACUCAGGCAACGAACUUGCCGGUUGACGGAUACUUUGUUGAUGUGAGGACAAUAUUUGCAAAUGGUUUGUGCG_
..((........((((((((.......((((.((((((((...((((.....))))...))))))).).)))).......))))))))........)).. (-20.25 = -22.09 +   1.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:18 2006