Locus 6171

Sequence ID 2L_DroMel_CAF1
Location 17,206,421 – 17,206,522
Length 101
Max. P 0.873451
window9861 window9862

overview

Window 1

Location 17,206,421 – 17,206,522
Length 101
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 72.91
Mean single sequence MFE -19.49
Consensus MFE -8.55
Energy contribution -9.25
Covariance contribution 0.70
Combinations/Pair 1.27
Mean z-score -2.05
Structure conservation index 0.44
SVM decision value 0.88
SVM RNA-class probability 0.873451
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17206421 101 + 22407834
CUUGCUAGA---AAUG-------UUCAAUUGGUGGCAUUUUAAUUAACCUUUCAAUUGUUUAUGCAUCUAAUGGUUUGACAUUGAUGCAUUUGUUAUUUGUUAAUCUUUCG
.......((---((.(-------((.(((..((((((...(((((........)))))...(((((((.((((......))))))))))).))))))..)))))).)))). ( -19.10)
>DroSec_CAF1 49708 97 + 1
C----UAGC---AAUG-------UUCAAUUGGUGGCAUUUUAAUUAACCUUUGAAUUGUUUAUGCAUCUAAUGGUUUGACAUUGAUGCAAUUGUUAUUUGUUAAUCUUUCG
.----((((---((((-------(((((..(((.............))).))))))......((((((.((((......)))))))))))))))))............... ( -21.32)
>DroSim_CAF1 51531 97 + 1
C----UAGC---AAUG-------UUCAAUUGGUGGCAUUUUAAUUAACCUUUGAAUUGUUUAUGCAUCUAAUGGUUUGACAUUGAUGCAAUUGUUAUUUGUUAAUCUUUCG
.----((((---((((-------(((((..(((.............))).))))))......((((((.((((......)))))))))))))))))............... ( -21.32)
>DroEre_CAF1 50045 94 + 1
C----UUGCAUUACUG-------UUCAAUUGGUGGCAUUUUAAUUAACCUUUGAAUUAUUUAUGCAUCUAAUUGUUUGCAAUUGAUGCAAUUGC-AUUUCUGAGUC-----
.----((((((((.((-------(.(((((((..((((..(((((........)))))...))))..)))))))...)))..))))))))....-...........----- ( -21.70)
>DroYak_CAF1 50141 100 + 1
C----UCGCAUUACUG-------UUCAAUUGGUGGCAUUUUAAUUAACCUUUGAAUUAUUUAUGCAUCUAAUUGUUAGCAAUUGAUGCAAUUGUUAUUUGUUAAUCUUUAA
.----..((((....(-------(((((..(((.............))).)))))).....))))...(((..((((((((.((((......)))).))))))))..))). ( -20.22)
>DroAna_CAF1 124677 88 + 1
C----AAGC---CAUUUUUCAUUUUUCACUGCGAGCAUUUUAAUGAAUAUUUAACAUAUUCAUACUCUAAGUUCUCGGGACUUGUUUCAAUUGUU----------------
(----((((---(......((........))((((.((((..((((((((.....)))))))).....)))).)))))).))))...........---------------- ( -13.30)
>consensus
C____UAGC___AAUG_______UUCAAUUGGUGGCAUUUUAAUUAACCUUUGAAUUAUUUAUGCAUCUAAUGGUUUGAAAUUGAUGCAAUUGUUAUUUGUUAAUCUUUCG
..............................(((((((.(((((.......))))).......((((((.((((......))))))))))..)))))))............. ( -8.55 =  -9.25 +   0.70)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,206,421 – 17,206,522
Length 101
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 72.91
Mean single sequence MFE -15.34
Consensus MFE -6.47
Energy contribution -7.55
Covariance contribution 1.08
Combinations/Pair 1.18
Mean z-score -1.98
Structure conservation index 0.42
SVM decision value 0.55
SVM RNA-class probability 0.779568
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17206421 101 - 22407834
CGAAAGAUUAACAAAUAACAAAUGCAUCAAUGUCAAACCAUUAGAUGCAUAAACAAUUGAAAGGUUAAUUAAAAUGCCACCAAUUGAA-------CAUU---UCUAGCAAG
.((((................(((((((((((......)))).)))))))...((((((...(((..........)))..))))))..-------..))---))....... ( -18.90)
>DroSec_CAF1 49708 97 - 1
CGAAAGAUUAACAAAUAACAAUUGCAUCAAUGUCAAACCAUUAGAUGCAUAAACAAUUCAAAGGUUAAUUAAAAUGCCACCAAUUGAA-------CAUU---GCUA----G
(....)............((((((((((((((......)))).)))))..............(((..........)))...)))))..-------....---....----. ( -13.90)
>DroSim_CAF1 51531 97 - 1
CGAAAGAUUAACAAAUAACAAUUGCAUCAAUGUCAAACCAUUAGAUGCAUAAACAAUUCAAAGGUUAAUUAAAAUGCCACCAAUUGAA-------CAUU---GCUA----G
(....)............((((((((((((((......)))).)))))..............(((..........)))...)))))..-------....---....----. ( -13.90)
>DroEre_CAF1 50045 94 - 1
-----GACUCAGAAAU-GCAAUUGCAUCAAUUGCAAACAAUUAGAUGCAUAAAUAAUUCAAAGGUUAAUUAAAAUGCCACCAAUUGAA-------CAGUAAUGCAA----G
-----..........(-(((..(((((((((((....))))).)))))).......(((((.(((.............)))..)))))-------......)))).----. ( -16.62)
>DroYak_CAF1 50141 100 - 1
UUAAAGAUUAACAAAUAACAAUUGCAUCAAUUGCUAACAAUUAGAUGCAUAAAUAAUUCAAAGGUUAAUUAAAAUGCCACCAAUUGAA-------CAGUAAUGCGA----G
..................(((((((((((((((....))))).)))))..............(((..........)))...)))))..-------...........----. ( -14.00)
>DroAna_CAF1 124677 88 - 1
----------------AACAAUUGAAACAAGUCCCGAGAACUUAGAGUAUGAAUAUGUUAAAUAUUCAUUAAAAUGCUCGCAGUGAAAAAUGAAAAAUG---GCUU----G
----------------...........((((((.((((..........((((((((.....)))))))).......))))((.(....).))......)---))))----) ( -14.73)
>consensus
CGAAAGAUUAACAAAUAACAAUUGCAUCAAUGUCAAACAAUUAGAUGCAUAAACAAUUCAAAGGUUAAUUAAAAUGCCACCAAUUGAA_______CAUU___GCUA____G
..................((((((((((((((......)))).)))))..............(((..........)))...)))))......................... ( -6.47 =  -7.55 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:17 2006