Locus 366

Sequence ID 3L_DroMel_CAF1
Location 1,059,820 – 1,059,916
Length 96
Max. P 0.974519
window539 window540

overview

Window 9

Location 1,059,820 – 1,059,916
Length 96
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 77.95
Mean single sequence MFE -26.72
Consensus MFE -12.62
Energy contribution -13.68
Covariance contribution 1.06
Combinations/Pair 1.08
Mean z-score -2.41
Structure conservation index 0.47
SVM decision value 0.89
SVM RNA-class probability 0.875379
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1059820 96 + 23771897
UG----GGCAGUGGUGUGCGUGGGUGUGCGA----------UGGUGUGCGGGGAGUACGCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
((----((((.(((((.(((((.((((((.(----------(..((((((.......))))))..)).))))))..........)))))....)))))......)))))) ( -34.00)
>DroSec_CAF1 34368 106 + 1
UG----GGCAGUGGUGUGCGUGGGUGUGCGAGGGUGUGCGAGGGUGUGCGGGGUGUACGCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
((----((((.(((((.((((((((((...(..((((((.(..(((((((.......)))))))..).))))))..).))))).)))))....)))))......)))))) ( -33.30)
>DroSim_CAF1 36082 86 + 1
UG----GGCAGUGGUGUGCGUGGGU--------------------GUGCGGGGUGUACGCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
((----((((.((((((((...(((--------------------(((((.......))))))))...))))..((((((((...)))))))).))))......)))))) ( -24.40)
>DroEre_CAF1 37459 77 + 1
UG----GGCAGUGGUGUGCGUGGG-----------------------------UGUACGCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
((----((((.(((((((((((..-----------------------------..)))))))...((((((.(((((...))))).))))))..))))......)))))) ( -21.30)
>DroYak_CAF1 36052 86 + 1
UG----GGCAGUGGUGUGCGAGGGU--------------------GUGUGUGGUGUACGCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
((----((((.((((((((.(..((--------------------(((((((...)))))))))..).))))..((((((((...)))))))).))))......)))))) ( -24.60)
>DroAna_CAF1 33570 100 + 1
UUCUAUACCAUCCAUGUGUGUGGGUGUGUC--GGUGUUCGGGAGUGUGUG--------GCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
((((..(((((((((....))))))).)).--((((........((((((--------.((.....)).))))))(((((((...))))))).)))).))))........ ( -22.70)
>consensus
UG____GGCAGUGGUGUGCGUGGGU____________________GUGCGGGGUGUACGCACGUUAUGGCACAUAAUAAUAUUAUAUGUUAUUUACCAAGAAAAUGCUUA
......((((.(((((((((((.................................)))))))...((((((.(((((...))))).))))))..))))......)))).. (-12.62 = -13.68 +   1.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,059,820 – 1,059,916
Length 96
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 77.95
Mean single sequence MFE -15.71
Consensus MFE -10.83
Energy contribution -11.06
Covariance contribution 0.22
Combinations/Pair 1.12
Mean z-score -2.41
Structure conservation index 0.69
SVM decision value 1.73
SVM RNA-class probability 0.974519
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1059820 96 - 23771897
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGCGUACUCCCCGCACACCA----------UCGCACACCCACGCACACCACUGCC----CA
...(((......((((......((((((((...)))))))).......(((((.......)))))))))----------..((........)).......))).----.. ( -18.00)
>DroSec_CAF1 34368 106 - 1
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGCGUACACCCCGCACACCCUCGCACACCCUCGCACACCCACGCACACCACUGCC----CA
...(((......((((.....................(((((......(((((.......)))))......))))).....((........))..)))).))).----.. ( -17.80)
>DroSim_CAF1 36082 86 - 1
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGCGUACACCCCGCAC--------------------ACCCACGCACACCACUGCC----CA
...(((......((((......((((((((...)))))))).......((((((...........--------------------....)))))))))).))).----.. ( -15.16)
>DroEre_CAF1 37459 77 - 1
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGCGUACA-----------------------------CCCACGCACACCACUGCC----CA
...(((......((((......((((((((...)))))))).......((((((...-----------------------------...)))))))))).))).----.. ( -16.70)
>DroYak_CAF1 36052 86 - 1
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGCGUACACCACACAC--------------------ACCCUCGCACACCACUGCC----CA
...(((......((((......((((((((...)))))))).......(((((............--------------------.....))))))))).))).----.. ( -14.03)
>DroAna_CAF1 33570 100 - 1
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGC--------CACACACUCCCGAACACC--GACACACCCACACACAUGGAUGGUAUAGAA
........(((((((((.((((.(........).)))).)))))....((((--------((........((.....)--)......(((......))).)))))))))) ( -12.60)
>consensus
UAAGCAUUUUCUUGGUAAAUAACAUAUAAUAUUAUUAUGUGCCAUAACGUGCGUACACCCCGCAC____________________ACCCACGCACACCACUGCC____CA
............((((......((((((((...)))))))).......(((((.....................................)))))))))........... (-10.83 = -11.06 +   0.22)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:11 2006