Locus 6158

Sequence ID	2R_DroMel_CAF1
Location	19,375,611 – 19,375,706
Length	95
Max. P	0.819668

overview

Window 8

Location	19,375,611 – 19,375,706
Length	95
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.62
Mean single sequence MFE	-31.28
Consensus MFE	-23.50
Energy contribution	-24.53
Covariance contribution	1.03
Combinations/Pair	1.05
Mean z-score	-2.21
Structure conservation index	0.75
SVM decision value	0.68
SVM RNA-class probability	0.819668
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19375611 95 + 20766785
-----GUAAGCUAAUACUCCAAGGAUAUUGGGGAUUGUAAACCUACAAAAGCGAGUGCCUGGCCAGUUCAUGGGGCAUCAGCUUGGAGUAGGUGGUUCCG
-----.....((((((.((....))))))))(((......((((((..((((..(((((...(((.....))))))))..))))...))))))...))). ( -31.70)
>DroSec_CAF1 2492 95 + 1
-----GUGAGAUAAUACUCCAAGGAUACUGGGGAUUGUGAACCUACAAAAGCGAGUGCCUAGCCAGUUCGUGGGGCAUCAGUUUGGAGUAGGUGGUUCCG
-----(.((((((((.(((((.(....)))))))))))..((((((..((((..((((((.((......)).))))))..))))...))))))..)))). ( -29.50)
>DroSim_CAF1 2543 95 + 1
-----GUGAGCUAAUACUCCAGGGAUACUGGGGAUUGUGAACCUACAAAAGCGAGUGCCUGGCCAGUUCGUGGGGCAUCAGCUUGGAGUAGGUGGUUCCG
-----(.(((((....((((((.....)))))).......((((((..((((..((((((.((......)).))))))..))))...)))))))))))). ( -40.30)
>DroEre_CAF1 2763 95 + 1
-----AUGAGGAAACACUCCAAGGAUACUAAGGAUAGUAGACCUACAAAAGCGAGUGCCUGGCCAGUUCGUGGGGCAUCAGCUUGGAGUAGGUGGUUCCG
-----....((((.((((((.(((.(((((....)))))..)))....((((..((((((.((......)).))))))..))))))))).)....)))). ( -34.80)
>DroYak_CAF1 2548 95 + 1
-----AUGAGAAAAUUCUUCAUGGAUACUAAGGAUUGUGAACCUACAAAAGCGAGUGCCUGGCCAGUUCGUGGGGCAUCAGCUUGGAGUAGGUGGUUCCG
-----((((((....)).)))).........(((......((((((..((((..((((((.((......)).))))))..))))...))))))...))). ( -31.00)
>DroAna_CAF1 1832 97 + 1
AAAAAAUUGGAAAAUAUUUCAAAAUAAA---UCAACAAAAACCUACAGAAGCGAGUGCCUGGCCAGCUCAUGGGGCAUCAGCUUGGAAUAUGUCGUCCCG
........(((..(((((((........---...........(....)((((..(((((...(((.....))))))))..)))))))))))....))).. ( -20.40)
>consensus
_____AUGAGAAAAUACUCCAAGGAUACUGGGGAUUGUAAACCUACAAAAGCGAGUGCCUGGCCAGUUCGUGGGGCAUCAGCUUGGAGUAGGUGGUUCCG
...............................(((......((((((..((((..((((((.((......)).))))))..))))...))))))...))). (-23.50 = -24.53 +   1.03)

alignment

secondary structure

dotplot

Window 9

Location	19,375,611 – 19,375,706
Length	95
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.62
Mean single sequence MFE	-23.20
Consensus MFE	-17.09
Energy contribution	-17.48
Covariance contribution	0.39
Combinations/Pair	1.09
Mean z-score	-1.48
Structure conservation index	0.74
SVM decision value	0.07
SVM RNA-class probability	0.568879
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19375611 95 - 20766785
CGGAACCACCUACUCCAAGCUGAUGCCCCAUGAACUGGCCAGGCACUCGCUUUUGUAGGUUUACAAUCCCCAAUAUCCUUGGAGUAUUAGCUUAC-----
.(((.........)))((((((((((....((((((.((.((((....))))..)).))))))......((((.....)))).))))))))))..----- ( -24.10)
>DroSec_CAF1 2492 95 - 1
CGGAACCACCUACUCCAAACUGAUGCCCCACGAACUGGCUAGGCACUCGCUUUUGUAGGUUCACAAUCCCCAGUAUCCUUGGAGUAUUAUCUCAC-----
.((.....))((((((((((((.........(((((.((.((((....))))..)).)))))........))))....)))))))).........----- ( -21.43)
>DroSim_CAF1 2543 95 - 1
CGGAACCACCUACUCCAAGCUGAUGCCCCACGAACUGGCCAGGCACUCGCUUUUGUAGGUUCACAAUCCCCAGUAUCCCUGGAGUAUUAGCUCAC-----
.(((.........))).(((((((((.....(((((.((.((((....))))..)).))))).......((((.....)))).)))))))))...----- ( -26.30)
>DroEre_CAF1 2763 95 - 1
CGGAACCACCUACUCCAAGCUGAUGCCCCACGAACUGGCCAGGCACUCGCUUUUGUAGGUCUACUAUCCUUAGUAUCCUUGGAGUGUUUCCUCAU-----
.(((...((((((...((((.(((((((((.....)))...)))).))))))..)))))).(((((....))))))))...(((......)))..----- ( -26.60)
>DroYak_CAF1 2548 95 - 1
CGGAACCACCUACUCCAAGCUGAUGCCCCACGAACUGGCCAGGCACUCGCUUUUGUAGGUUCACAAUCCUUAGUAUCCAUGAAGAAUUUUCUCAU-----
.(((...((((((...((((.(((((((((.....)))...)))).))))))..))))))..((........)).)))((((.((....))))))----- ( -22.10)
>DroAna_CAF1 1832 97 - 1
CGGGACGACAUAUUCCAAGCUGAUGCCCCAUGAGCUGGCCAGGCACUCGCUUCUGUAGGUUUUUGUUGA---UUUAUUUUGAAAUAUUUUCCAAUUUUUU
.(((((((((.(..((((((.(((((((((.....)))...)))).)))))).....))..).)))))(---(((......))))...))))........ ( -18.70)
>consensus
CGGAACCACCUACUCCAAGCUGAUGCCCCACGAACUGGCCAGGCACUCGCUUUUGUAGGUUCACAAUCCCCAGUAUCCUUGGAGUAUUAUCUCAC_____
.(((...((((((...((((.(((((((((.....)))...)))).))))))..))))))......)))............................... (-17.09 = -17.48 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:19 2006