Locus 7807

Sequence ID 2L_DroMel_CAF1
Location 22,043,633 – 22,043,780
Length 147
Max. P 0.981386
window12511 window12512

overview

Window 1

Location 22,043,633 – 22,043,753
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.64
Mean single sequence MFE -29.77
Consensus MFE -24.41
Energy contribution -24.52
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.92
Structure conservation index 0.82
SVM decision value 0.04
SVM RNA-class probability 0.554619
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22043633 120 - 22407834
CCAUUCGCACAUAAAAUGCGCCACAGUAUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCUGUAUUUCAAGGCAGAAACGU
...(((((.........(((((.((((..((((((...)))))).))))(((((.....)))))...)))))..........((...((.(((....)))))...))...)).))).... ( -23.40)
>DroVir_CAF1 73511 113 - 1
CCAUUCGCACAUAAAAUGCGCCGCAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCCGUAUUUCAAGCG-------U
.....(((.........(((((((((((.((((((...)))))))))))(((((.....)))))..))))))..........((...(((.((....)))))...))..)))-------. ( -29.80)
>DroGri_CAF1 82472 113 - 1
CCAUUCGCACAUAAAAUGCGCCGCAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCCGCAUUUCAAGCG-------U
.....(((.........(((((((((((.((((((...)))))))))))(((((.....)))))..))))))..........((..(.((.((....)))))...))..)))-------. ( -27.60)
>DroWil_CAF1 54380 120 - 1
CCAUUCGCACAUAAAAUGCGCCACAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCUGUUUUUCAAGCUGGUGGUGG
((((..((.........(((((.(((((.((((((...)))))))))))(((((.....)))))...)))))..........((..(((.(((....))))))..))..))..))))... ( -33.90)
>DroMoj_CAF1 88448 113 - 1
CCAUUCGCACAUAAAAUGCGCCGCAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCCGUAUUUCAAGCG-------U
.....(((.........(((((((((((.((((((...)))))))))))(((((.....)))))..))))))..........((...(((.((....)))))...))..)))-------. ( -29.80)
>DroAna_CAF1 78066 120 - 1
CCAUUCGCACAUAAAAUGCGCCACAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCCGUAUUUCAAGCCGGGUGGUU
((((((((.........(((((.(((((.((((((...)))))))))))(((((.....)))))...)))))..........((...(((.((....)))))...))..).))))))).. ( -34.10)
>consensus
CCAUUCGCACAUAAAAUGCGCCACAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAAAAGAUGGACGAGCAAAUGCCGUAUUUCAAGCG_______U
(((((............(((((.(((((.((((((...)))))))))))(((((.....)))))...)))))..........)))))(((.((....))))).................. (-24.41 = -24.52 +   0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 22,043,673 – 22,043,780
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.95
Mean single sequence MFE -27.35
Consensus MFE -24.56
Energy contribution -24.58
Covariance contribution 0.03
Combinations/Pair 1.03
Mean z-score -2.18
Structure conservation index 0.90
SVM decision value 1.89
SVM RNA-class probability 0.981386
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22043673 107 - 22407834
------------AG-UGCGAGAACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCACAGUAUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
------------.(-((((((......................))))))).......(((((.((((..((((((...)))))).))))(((((.....)))))...)))))........ ( -22.95)
>DroVir_CAF1 73544 120 - 1
GAGGAUUCUGCCAGGGACGAAAACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCGCAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
...((((..(((.................)))(((((......))))).........(((((((((((.((((((...)))))))))))(((((.....)))))..))))))..)))).. ( -29.43)
>DroGri_CAF1 82505 109 - 1
G-----------AGGGACGAAAACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCGCAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
.-----------......((..........(.(((((......))))).).......(((((((((((.((((((...)))))))))))(((((.....)))))..))))))....)).. ( -26.10)
>DroWil_CAF1 54420 108 - 1
------------AGCAAAGAACACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCACAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
------------((((..((.((.(((((((((((((......))))).(((...))).))).(((((.((((((...)))))))))))........))))).))))..))))....... ( -28.20)
>DroMoj_CAF1 88481 120 - 1
GCGGAAUCUGGCAGGGACGAAAACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCGCAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
........(((((..((((..........((((((((......))))).(((...))).))).(((((.((((((...)))))))))))..............))))..)))))...... ( -29.00)
>DroAna_CAF1 78106 108 - 1
------------GCCAACGGGAACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCACAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
------------(((...(....).....)))(((((......))))).........(((((.(((((.((((((...)))))))))))(((((.....)))))...)))))........ ( -28.40)
>consensus
____________AGGGACGAAAACAAAAAGGCGCGAAAAUCCAUUCGCACAUAAAAUGCGCCACAGUGUGCAUUAUUUUAAUGUCACUGAUAAAUCAUUUUUAUGUCGGUGCUAAAUCAA
..................((..........(.(((((......))))).).......(((((.(((((.((((((...)))))))))))(((((.....)))))...)))))....)).. (-24.56 = -24.58 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:18 2006