Locus 5458

Sequence ID	X_DroMel_CAF1
Location	14,196,758 – 14,196,871
Length	113
Max. P	0.934131

overview

Window 9

Location	14,196,758 – 14,196,871
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	95.40
Mean single sequence MFE	-29.82
Consensus MFE	-26.34
Energy contribution	-26.46
Covariance contribution	0.12
Combinations/Pair	1.09
Mean z-score	-1.35
Structure conservation index	0.88
SVM decision value	0.54
SVM RNA-class probability	0.774902
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14196758 113 + 22224390
GCGUGUCCUGGGCCAUAGUUCAAUUUUAAGCAUCGGAGACAGCAGAAGCAUUUUUGCUUCGCAUUCUUUUUGGUUGUUGAUGUUGACCAUGGCAUGUUUGACAAUUUCCACUU
...((((....(((((.((.((((....(((((((((((..((.((((((....))))))))....))))))).))))...)))))).)))))......)))).......... ( -30.60)
>DroSec_CAF1 106881 113 + 1
GCGUGUCCUGGGCUAUAGUUCAAUUUUAAGCAUCGGAGACAGCAGAAGCAUUUUUGCUUCACAUUCUUUUUGGUUGUUGAUGUUGACCAUGGCAUGUUUGGCAAUUUCCACUU
(((((((.(((((....)).........((((((...((((((.((((((....)))))).((.......))))))))))))))..))).))))))).(((......)))... ( -30.50)
>DroSim_CAF1 84552 113 + 1
GCGUGUCCUGGGCCAUAGUUCAAUUUUAAGCAUCGGAGACAGCAGAAGCAUUUUUGCUUCGCAUUCUUUUUGGUUGUUGAUGUUGACCAUGGCAUGUUUGACAAUUUCCACUU
...((((....(((((.((.((((....(((((((((((..((.((((((....))))))))....))))))).))))...)))))).)))))......)))).......... ( -30.60)
>DroEre_CAF1 95882 110 + 1
---UGUCCUGGGCCAUAGUUCAAUUUUAAGCAUCGGAGACUGCAGAAGCAUUUCUGCCCCGCAUUCUUUUUGCUUGUUGAUGUUGACCAUGGCAUGUUUGACAAUUUCCACUU
---((((....(((((.((.((((..((((((..(((((.(((.(..(((....)))..)))).))))).)))))).....)))))).)))))......)))).......... ( -29.10)
>DroYak_CAF1 97980 113 + 1
GCGUGUCCAGGGCCAUAGUUCAAUUUUAAGCAUCGGAGACAGCAGAAGCAUUUUUGUUUCGCAUUCUUUUUGGUUGUUGAUGUUGACCAUGGCAUGUUUGACAAUUUCCACUU
...((((((..(((((.((.((((....(((((((((((..((.((((((....))))))))....))))))).))))...)))))).))))).))...)))).......... ( -28.30)
>consensus
GCGUGUCCUGGGCCAUAGUUCAAUUUUAAGCAUCGGAGACAGCAGAAGCAUUUUUGCUUCGCAUUCUUUUUGGUUGUUGAUGUUGACCAUGGCAUGUUUGACAAUUUCCACUU
...((((....(((((.((.((((....(((((((((((.....((((((....))))))......))))))).))))...)))))).)))))......)))).......... (-26.34 = -26.46 +   0.12)

alignment

secondary structure

dotplot

Window 0

Location	14,196,758 – 14,196,871
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	95.40
Mean single sequence MFE	-25.34
Consensus MFE	-22.46
Energy contribution	-22.58
Covariance contribution	0.12
Combinations/Pair	1.11
Mean z-score	-1.57
Structure conservation index	0.89
SVM decision value	1.23
SVM RNA-class probability	0.934131
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14196758 113 - 22224390
AAGUGGAAAUUGUCAAACAUGCCAUGGUCAACAUCAACAACCAAAAAGAAUGCGAAGCAAAAAUGCUUCUGCUGUCUCCGAUGCUUAAAAUUGAACUAUGGCCCAGGACACGC
..........((((......((((((((..................(((..((((((((....)))))).))..))).((((.......)))).))))))))....))))... ( -25.90)
>DroSec_CAF1 106881 113 - 1
AAGUGGAAAUUGCCAAACAUGCCAUGGUCAACAUCAACAACCAAAAAGAAUGUGAAGCAAAAAUGCUUCUGCUGUCUCCGAUGCUUAAAAUUGAACUAUAGCCCAGGACACGC
..(((((..((((((.........))).)))..)).....((...........((((((....)))))).(((((...((((.......))))....)))))...)).))).. ( -20.50)
>DroSim_CAF1 84552 113 - 1
AAGUGGAAAUUGUCAAACAUGCCAUGGUCAACAUCAACAACCAAAAAGAAUGCGAAGCAAAAAUGCUUCUGCUGUCUCCGAUGCUUAAAAUUGAACUAUGGCCCAGGACACGC
..........((((......((((((((..................(((..((((((((....)))))).))..))).((((.......)))).))))))))....))))... ( -25.90)
>DroEre_CAF1 95882 110 - 1
AAGUGGAAAUUGUCAAACAUGCCAUGGUCAACAUCAACAAGCAAAAAGAAUGCGGGGCAGAAAUGCUUCUGCAGUCUCCGAUGCUUAAAAUUGAACUAUGGCCCAGGACA---
..........((((......(((((((((((.......(((((...(((.(((((((((....))).)))))).)))....)))))....))).))))))))....))))--- ( -34.30)
>DroYak_CAF1 97980 113 - 1
AAGUGGAAAUUGUCAAACAUGCCAUGGUCAACAUCAACAACCAAAAAGAAUGCGAAACAAAAAUGCUUCUGCUGUCUCCGAUGCUUAAAAUUGAACUAUGGCCCUGGACACGC
..........((((......(((((((((((((((......((...((((.(((.........)))))))..)).....)))).......))).))))))))....))))... ( -20.11)
>consensus
AAGUGGAAAUUGUCAAACAUGCCAUGGUCAACAUCAACAACCAAAAAGAAUGCGAAGCAAAAAUGCUUCUGCUGUCUCCGAUGCUUAAAAUUGAACUAUGGCCCAGGACACGC
..........((((......((((((((..................(((..((((((((....)))))).))..))).((((.......)))).))))))))....))))... (-22.46 = -22.58 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:22 2006