Locus 5781

Sequence ID 2L_DroMel_CAF1
Location 16,395,883 – 16,396,040
Length 157
Max. P 0.983973
window9162 window9163

overview

Window 2

Location 16,395,883 – 16,396,000
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.39
Mean single sequence MFE -23.93
Consensus MFE -22.65
Energy contribution -22.93
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -0.86
Structure conservation index 0.95
SVM decision value 0.01
SVM RNA-class probability 0.537608
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16395883 117 + 22407834
---GUUGUUCCUAAACUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUA
---.........((((......))))..((((.(.....(((((((..........)))))))...).))))......(((((((.....(((((((....))))))).))))))).... ( -25.20)
>DroSec_CAF1 20294 117 + 1
---GUUGUUCCUACACUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUA
---.........................((((.(.....(((((((..........)))))))...).))))......(((((((.....(((((((....))))))).))))))).... ( -24.80)
>DroSim_CAF1 18808 117 + 1
---GUUGUUCCUACACUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUA
---.........................((((.(.....(((((((..........)))))))...).))))......(((((((.....(((((((....))))))).))))))).... ( -24.80)
>DroEre_CAF1 16796 116 + 1
---GUUGUUCCUGCUCUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUU-UUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCCUUGGCAAAUGGAAUGCCA
---.........((..............((((.(.....(((((((..........))))))).-.).))))......(((((((.....(((((........))))).))))))))).. ( -20.80)
>DroYak_CAF1 20850 117 + 1
---GUUGUUCCUGCCCUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUA
---.........((..............((((.(.....(((((((..........)))))))...).))))......(((((((.....(((((((....))))))).))))))))).. ( -25.60)
>DroAna_CAF1 15901 120 + 1
GCUGUUGUUCUUGGAUUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUAUCCCAGCCGCUCUUCGAUGGCAAAUGGAAUGCUA
((((..((...((((......((((....(((.(.....(((((((..........)))))))...).))))))).....)))).))..)))).((..(((.((.....)).))).)).. ( -22.40)
>consensus
___GUUGUUCCUACACUGUUUUGUUUUAUUGUGAUUUUUAUGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUA
............................((((.(.....(((((((..........)))))))...).))))......(((((((.....(((((((....))))))).))))))).... (-22.65 = -22.93 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,395,920 – 16,396,040
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.61
Mean single sequence MFE -34.20
Consensus MFE -30.55
Energy contribution -30.75
Covariance contribution 0.20
Combinations/Pair 1.18
Mean z-score -2.17
Structure conservation index 0.89
SVM decision value 1.96
SVM RNA-class probability 0.983973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16395920 120 + 22407834
UGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUAUUGUGUGUCGCUUGCUUUUCUUCGGGGUUAAUAGCCAUAA
((((((..........))))))....((((...((((((..((.......(((((((....)))))))...((((.((....(((...)))..)).))))...))..))))))))))... ( -32.90)
>DroSec_CAF1 20331 120 + 1
UGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUAUUGUGUGUCGCUCGCUUUUCUCCGGGGCUAAUAGCCAUAA
((((((..........))))))....((((...((((((((((.......(((((((....)))))))...(((..((....))(((.....))).....)))))))))))))))))... ( -35.50)
>DroSim_CAF1 18845 120 + 1
UGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUAUUGUGUGUCGCUUGCUUUUCUCCGGGGCUAAUAGCCAUAA
((((((..........))))))....((((...((((((((((.......(((((((....)))))))...((((.((....(((...)))..)).))))...))))))))))))))... ( -35.80)
>DroEre_CAF1 16833 117 + 1
UGCCAGUCGUUUUGUUUUGGCAUU-UUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCCUUGGCAAAUGGAAUGCCAUUGU--GUCGCUUGCCUUUCUUCGGGGCUAAUAGCCAUAA
((((((..........))))))..-.((((...((((((((((.......(((((........)))))(((((....)))))..--.................))))))))))))))... ( -31.20)
>DroYak_CAF1 20887 120 + 1
UGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUAUUGUGUGUCGUUCGCUUUUCUCCGGGGCUAAUAGCCAUAA
((((((..........))))))....((((...((((((((((.......(((((((....)))))))....((((((........).)))))..........))))))))))))))... ( -35.80)
>DroAna_CAF1 15941 120 + 1
UGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUAUCCCAGCCGCUCUUCGAUGGCAAAUGGAAUGCUAUUGUAUUUCGUUUGCUUUCCUGUAGGGCUAAUAGCUUUAG
((((((..........)))))).....(((.....................)))(((((..((.((((((((((((((....)))))))))))))).))....)))))............ ( -34.00)
>consensus
UGCCAGUCGUUUUGUUUUGGCAUUUUUGGCAAAUAUUAGUUCCAUACUCCUGUCAUCGUCCGAUGGCAAAUGGAAUGCUAUUGUGUGUCGCUUGCUUUUCUCCGGGGCUAAUAGCCAUAA
((((((..........))))))....((((...((((((..((.......(((((((....)))))))...((((.((...((.....))...)).))))...))..))))))))))... (-30.55 = -30.75 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:40 2006