Locus 495

Sequence ID 3R_DroMel_CAF1
Location 1,872,393 – 1,872,526
Length 133
Max. P 0.831653
window798 window799

overview

Window 8

Location 1,872,393 – 1,872,502
Length 109
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 85.42
Mean single sequence MFE -32.22
Consensus MFE -23.58
Energy contribution -24.08
Covariance contribution 0.50
Combinations/Pair 1.10
Mean z-score -2.20
Structure conservation index 0.73
SVM decision value -0.02
SVM RNA-class probability 0.521434
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1872393 109 + 27905053
UUUAAUUUCGGGACAGC----GGCUGAGUCAAGAAACGGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACA
.........(((((.((----(((((..((.......))..)))))))((((((...(((((((((((((....)))))))).))))).)).))))..))))).......... ( -34.50)
>DroPse_CAF1 22199 109 + 1
UUUAAUUUCGAGACAGCGGGCGGCUGAGUCAAGCAAUGGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA----
...............(((((..(((......)))........((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))..))))).---- ( -35.10)
>DroWil_CAF1 26657 96 + 1
UUUAAUUUCAAGACAGC-----------------AACGGCUGAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCACACACAAA
.........((((((((-----------------....)))(((((((....))...(((((((((((((....)))))))).)))))))))).....))))).......... ( -27.00)
>DroYak_CAF1 36661 109 + 1
UUUAAUUUCGGGACAGC----GGCUGAGUCAAGAAACGGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACA
.........(((((.((----(((((..((.......))..)))))))((((((...(((((((((((((....)))))))).))))).)).))))..))))).......... ( -34.50)
>DroAna_CAF1 21324 109 + 1
UUUAAUUUCGCGACAGA----GGCUGGUUCAAGAAAUGGAAUGACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCCCACACACACA
....(((((..(((...----.....)))...)))))((...((((..((((((...(((((((((((((....)))))))).))))).)).)))).)))).))......... ( -27.10)
>DroPer_CAF1 22493 109 + 1
UUUAAUUUCGAGACAGCGGGCGGCUGAGUCAAGCAAUGGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA----
...............(((((..(((......)))........((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))..))))).---- ( -35.10)
>consensus
UUUAAUUUCGAGACAGC____GGCUGAGUCAAGAAACGGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACACACACA
.........((((((((.....)))).................(((..((((((...(((((((((((((....)))))))).))))).)).)))).)))))))......... (-23.58 = -24.08 +   0.50) 

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 1,872,426 – 1,872,526
Length 100
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 83.60
Mean single sequence MFE -27.06
Consensus MFE -22.75
Energy contribution -22.17
Covariance contribution -0.58
Combinations/Pair 1.12
Mean z-score -1.97
Structure conservation index 0.84
SVM decision value 0.72
SVM RNA-class probability 0.831653
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1872426 100 + 27905053
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACACACAAGCACAAGCACACACGCAC------------A----
......(((..((((((...(((((((((((((....)))))))).))))).)).))))..(((......))).......)))....((......))..------------.---- ( -23.80)
>DroPse_CAF1 22236 98 + 1
GGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA------CAGUCAUACGCAUAUACGUAC------------AGGAA
((((.((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))))))....------...((.((((......)))).------------..)). ( -28.60)
>DroSec_CAF1 30499 104 + 1
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACACACAAGCACAGGCACACACGCAC------------AUGCA
.((..((((..((((((...(((((((((((((....)))))))).))))).)).)))).)))).))..............(((...((......))..------------.))). ( -27.60)
>DroSim_CAF1 31116 104 + 1
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACACACAAGCGCAGGCACACACGCAC------------AUGCA
......(((..((((((...(((((((((((((....)))))))).))))).)).))))..(((......))).......)))(((.((......))..------------.))). ( -28.20)
>DroEre_CAF1 30957 112 + 1
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACCAACACA--CAAGCACAGGCA--CAGGCACAGCCACACACACAUGCA
((...((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))....))......--...(((......--..(((...))).........))). ( -27.63)
>DroPer_CAF1 22530 98 + 1
GGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA------CAAUCAUACACAUAUACGUAC------------AGGAA
((((.((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))))))....------...((.(((........))).------------..)). ( -26.50)
>consensus
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACA__CAAGCACAGGCACACACGCAC____________AUGCA
.....((((..((((((...(((((((((((((....)))))))).))))).)).)))).)))).......................((......))................... (-22.75 = -22.17 +  -0.58) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:35 2006