Locus 6039

Sequence ID	2L_DroMel_CAF1
Location	17,006,195 – 17,006,301
Length	106
Max. P	0.717946

overview

Window 7

Location	17,006,195 – 17,006,301
Length	106
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	92.74
Mean single sequence MFE	-29.30
Consensus MFE	-22.56
Energy contribution	-23.80
Covariance contribution	1.24
Combinations/Pair	1.04
Mean z-score	-1.79
Structure conservation index	0.77
SVM decision value	0.39
SVM RNA-class probability	0.717946
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17006195 106 + 22407834
CGAGCGACUGGCAAUGAGGGCAAUGCAUCCGGCUCCUCGUGGGCUGCCAACAAUUAACAGCAUAAAUUUAAAUAUGCAAUUAACGCAACAGCUUGGAGCUGAAAA-A
...(((..(((((((((((((..........)).))))))....)))))..........(((((........)))))......)))..((((.....))))....-. ( -29.60)
>DroSec_CAF1 113842 107 + 1
CGAGCGACUGGCAAUGAGGGCAAUGCAUCCGGCUCCUCGUGGGCUGCCAACAAUUAACAGCAUAAAUUUAAAUAUGCAAUUAACGCAACAGCUUGGAGCUGAAAAAA
...(((..(((((((((((((..........)).))))))....)))))..........(((((........)))))......)))..((((.....))))...... ( -29.60)
>DroEre_CAF1 115898 105 + 1
CGGGCGACUGGCAAUGAGGGCAAUGCAUCCGGCUCCUCGUGGGCUGCCAACAAUUAACAGCAUAAAUUUAAAUAUGCAAUUAACGCAACAGCUUGGAGCUGGAAA--
(((....)))(((.((....)).))).(((((((((....((((((.......((((..(((((........)))))..)))).....)))))))))))))))..-- ( -33.00)
>DroYak_CAF1 116200 101 + 1
CG----AGUGGCAAUGAGGGCACUGCAUCCGGCUCCUCGUGGGCUGCCAACAAUUAACAGCAUAAAUUUAAAUAUGCAAUUAACGCAACAGCUUGGAGCUGAAAA--
..----((((.(......).)))).....(((((((....((((((.......((((..(((((........)))))..)))).....)))))))))))))....-- ( -26.80)
>DroAna_CAF1 106672 105 + 1
GGAGCGACUGGCAAUGAAGGCAAUGCAUCCGGAGCCUCGUGGGCUGCCGACAAUUAACAGCAUAAAUUUAAAUAUGCAAUUAACGCAACAGCUUGAUGCCCAAAA--
.........((((....((((..(((...(((((((.....)))).)))..........(((((........))))).......)))...))))..)))).....-- ( -27.50)
>consensus
CGAGCGACUGGCAAUGAGGGCAAUGCAUCCGGCUCCUCGUGGGCUGCCAACAAUUAACAGCAUAAAUUUAAAUAUGCAAUUAACGCAACAGCUUGGAGCUGAAAA__
...(((..(((((((((((((..........)).))))))....)))))..........(((((........)))))......)))..((((.....))))...... (-22.56 = -23.80 +   1.24)

alignment

secondary structure

dotplot

Window 8

Location	17,006,195 – 17,006,301
Length	106
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	92.74
Mean single sequence MFE	-28.84
Consensus MFE	-25.00
Energy contribution	-25.12
Covariance contribution	0.12
Combinations/Pair	1.09
Mean z-score	-1.18
Structure conservation index	0.87
SVM decision value	-0.03
SVM RNA-class probability	0.516626
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17006195 106 - 22407834
U-UUUUCAGCUCCAAGCUGUUGCGUUAAUUGCAUAUUUAAAUUUAUGCUGUUAAUUGUUGGCAGCCCACGAGGAGCCGGAUGCAUUGCCCUCAUUGCCAGUCGCUCG
.-....((((.....))))..((((((((.(((((........))))).)))))...(((((((.....((((.((.(......).)))))).))))))).)))... ( -27.40)
>DroSec_CAF1 113842 107 - 1
UUUUUUCAGCUCCAAGCUGUUGCGUUAAUUGCAUAUUUAAAUUUAUGCUGUUAAUUGUUGGCAGCCCACGAGGAGCCGGAUGCAUUGCCCUCAUUGCCAGUCGCUCG
......((((.....))))..((((((((.(((((........))))).)))))...(((((((.....((((.((.(......).)))))).))))))).)))... ( -27.40)
>DroEre_CAF1 115898 105 - 1
--UUUCCAGCUCCAAGCUGUUGCGUUAAUUGCAUAUUUAAAUUUAUGCUGUUAAUUGUUGGCAGCCCACGAGGAGCCGGAUGCAUUGCCCUCAUUGCCAGUCGCCCG
--..(((.(((((..((((((((((((((.(((((........))))).))))).)).)))))))......))))).))).(((.((....)).))).......... ( -29.40)
>DroYak_CAF1 116200 101 - 1
--UUUUCAGCUCCAAGCUGUUGCGUUAAUUGCAUAUUUAAAUUUAUGCUGUUAAUUGUUGGCAGCCCACGAGGAGCCGGAUGCAGUGCCCUCAUUGCCACU----CG
--..(((.(((((..((((((((((((((.(((((........))))).))))).)).)))))))......))))).))).((((((....))))))....----.. ( -29.70)
>DroAna_CAF1 106672 105 - 1
--UUUUGGGCAUCAAGCUGUUGCGUUAAUUGCAUAUUUAAAUUUAUGCUGUUAAUUGUCGGCAGCCCACGAGGCUCCGGAUGCAUUGCCUUCAUUGCCAGUCGCUCC
--....((((.....((((((((((((((.(((((........))))).))))).)).)))))))......(((...(((.((...)).)))...)))....)))). ( -30.30)
>consensus
__UUUUCAGCUCCAAGCUGUUGCGUUAAUUGCAUAUUUAAAUUUAUGCUGUUAAUUGUUGGCAGCCCACGAGGAGCCGGAUGCAUUGCCCUCAUUGCCAGUCGCUCG
....(((.(((((..((((((((((((((.(((((........))))).))))).)).)))))))......))))).))).(((.((....)).))).......... (-25.00 = -25.12 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:27 2006