Locus 7360

Sequence ID 3R_DroMel_CAF1
Location 19,490,138 – 19,490,257
Length 119
Max. P 0.910152
window11896 window11897

overview

Window 6

Location 19,490,138 – 19,490,257
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 74.98
Mean single sequence MFE -20.59
Consensus MFE -0.81
Energy contribution -0.45
Covariance contribution -0.36
Combinations/Pair 1.38
Mean z-score -1.87
Structure conservation index 0.04
SVM decision value 1.07
SVM RNA-class probability 0.910152
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19490138 119 + 27905053
AAGUCAGCGAAUAAAAUUUGUUUCAAAGUAUUGUGAUUAUGACUGCCUUACUUAAACUGUGUUAUCAAUAAGUGAUUGACAAUCACGAAAAACAAACAAAGCUCCAAGCUCGCUUAUUA
.(((.(((((......(((((((.......((((((((.((((.................))))(((((.....))))).)))))))).....)))))))((.....))))))).))). ( -20.13)
>DroSec_CAF1 89017 109 + 1
AAGUCAGCGAAUAAGAGUUGUUUCUAAGUAAUGUGAUUAUGACU-CCUUACUUAAACUGUGUUAUCAAUAAGUGAU-----AACACAAAUAUCAAACAAAGCCCCAAGCUCGUU----A
.....(((((.......((((((.(((((((.(.((.......)-)))))))))...((((((((((.....))))-----))))))......)))))).((.....)))))))----. ( -22.40)
>DroSim_CAF1 98721 109 + 1
AAGUCAGCGAAUAAAAGUUGUUUCUAAGUAUUGUGGUUAUGAUU-CCUUACUUAAGCUGUGUUAUCAAUAACUGAU-----AACACAAAUAUCAAACAAAGCCCCAAGCUCGCU----A
.....(((((.......((((((.((((((....((........-)).))))))...((((((((((.....))))-----))))))......)))))).((.....)))))))----. ( -26.10)
>DroEre_CAF1 90098 114 + 1
AAGUCGUUCAAUGAAAGUUGUUUUUAAGUCAUAUUAUUAUGACU-UCUUACUUAAAAUAUCGUAGCAAUAACUUAUAUUUAAUCACUAUAAGCAAACAAAGCUCGAAGUUUACU----U
((((....((((....)))).....((((((((....)))))))-)...)))).((((.(((.(((.....((((((.........))))))........)))))).))))...----. ( -17.52)
>DroYak_CAF1 101881 114 + 1
AAGUGACUCAAUGAAAAUAGUUUCUAAAUCAUAAUAUUAUGACU-CCUUACACAAAAUAUAGUAACAAUAAAUUUUCUUUAAUCACUAUAAGCAAACAAAGCUCCAAGUUUGCU----A
.(((((......((((((..........(((((....)))))..-..((((..........))))......)))))).....)))))...(((((((..........)))))))----. ( -16.80)
>consensus
AAGUCAGCGAAUAAAAGUUGUUUCUAAGUAAUGUGAUUAUGACU_CCUUACUUAAACUGUGUUAUCAAUAACUGAU____AAUCACAAAAAGCAAACAAAGCUCCAAGCUCGCU____A
.(((((.................................))))).......................................................(((.....)))......... ( -0.81 =  -0.45 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,490,138 – 19,490,257
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 74.98
Mean single sequence MFE -24.18
Consensus MFE -4.97
Energy contribution -5.57
Covariance contribution 0.60
Combinations/Pair 1.44
Mean z-score -1.69
Structure conservation index 0.21
SVM decision value 0.37
SVM RNA-class probability 0.709978
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19490138 119 - 27905053
UAAUAAGCGAGCUUGGAGCUUUGUUUGUUUUUCGUGAUUGUCAAUCACUUAUUGAUAACACAGUUUAAGUAAGGCAGUCAUAAUCACAAUACUUUGAAACAAAUUUUAUUCGCUGACUU
.....((((((..(((((.(((((((.......(((((((((....((((((((......))))..))))..))))))))).....(((....)))))))))))))))))))))..... ( -24.60)
>DroSec_CAF1 89017 109 - 1
U----AACGAGCUUGGGGCUUUGUUUGAUAUUUGUGUU-----AUCACUUAUUGAUAACACAGUUUAAGUAAGG-AGUCAUAAUCACAUUACUUAGAAACAACUCUUAUUCGCUGACUU
.----..((((...((((..((((((.....(((((((-----((((.....))))))))))).((((((((.(-(.......))...))))))))))))))))))..))))....... ( -26.80)
>DroSim_CAF1 98721 109 - 1
U----AGCGAGCUUGGGGCUUUGUUUGAUAUUUGUGUU-----AUCAGUUAUUGAUAACACAGCUUAAGUAAGG-AAUCAUAACCACAAUACUUAGAAACAACUUUUAUUCGCUGACUU
(----((((((...((((..((((((.....(((((((-----(((((...)))))))))))).(((((((.((-........))....)))))))))))))))))..))))))).... ( -27.20)
>DroEre_CAF1 90098 114 - 1
A----AGUAAACUUCGAGCUUUGUUUGCUUAUAGUGAUUAAAUAUAAGUUAUUGCUACGAUAUUUUAAGUAAGA-AGUCAUAAUAAUAUGACUUAAAAACAACUUUCAUUGAACGACUU
(----(((((((..........)))))))).((((((..((((((.(((....)))...))))))...((...(-(((((((....))))))))....)).....))))))........ ( -19.80)
>DroYak_CAF1 101881 114 - 1
U----AGCAAACUUGGAGCUUUGUUUGCUUAUAGUGAUUAAAGAAAAUUUAUUGUUACUAUAUUUUGUGUAAGG-AGUCAUAAUAUUAUGAUUUAGAAACUAUUUUCAUUGAGUCACUU
.----(((((((..........)))))))...(((((((...((((((......((((..........)))).(-(((((((....)))))))).......))))))....))))))). ( -22.50)
>consensus
U____AGCGAGCUUGGAGCUUUGUUUGAUUUUAGUGAUU____AUCACUUAUUGAUAACACAGUUUAAGUAAGG_AGUCAUAAUCACAUUACUUAGAAACAACUUUUAUUCGCUGACUU
.....(((((((..........)))))))..................................(((((((((................)))))))))...................... ( -4.97 =  -5.57 +   0.60)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:57 2006