Locus 5752

Sequence ID 2R_DroMel_CAF1
Location 18,210,040 – 18,210,159
Length 119
Max. P 0.646463
window9214 window9215

overview

Window 4

Location 18,210,040 – 18,210,159
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 86.50
Mean single sequence MFE -27.18
Consensus MFE -21.74
Energy contribution -22.68
Covariance contribution 0.94
Combinations/Pair 1.10
Mean z-score -1.56
Structure conservation index 0.80
SVM decision value 0.23
SVM RNA-class probability 0.646463
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18210040 119 + 20766785
AUCGAGCUUCACCUCUGGAGGUGAUCUGCUCCAGCUGUAGUUGCAUCUGGAAGUGGGGUUCAAUUUAACAUGUUUUCAUAAACUUUUAAAAUAACCUUUAUUGUAAAAUAUAAUCAUCG
...(((((((((.((..((.(..(.((((.......)))))..).))..)).)))))))))........(((((((((((((..((......))..)))).)).)))))))........ ( -28.60)
>DroSec_CAF1 7909 118 + 1
GCCGAGCUUCACCUCUGGAGGUGAUCUGCUCCAGCUGUAGUUGCAUCUGGAUGUGGAGUUCAGAUUAACAUGUUUUCAAAAACUAUUAAA-AGCCCUUUAAACUAAAAUAUAAUAAUCA
...(((((((((.((..((.(..(.((((.......)))))..).))..)).))))))))).(((((..(((((((..............-.............)))))))..))))). ( -30.93)
>DroSim_CAF1 7907 118 + 1
GCCGAGCUUCACCUCUGGAGGUGAUCUGCUCCAGCUGUAGUUGCAUCUGAAAGUGGGGUUCAGAUUAACAUGUUUUCAAAAACUAUUAAA-UAACCUUUAAACUAAAAUAUAAAAAUCG
((.((((.((((((....))))))...))))..))....((((.(((((((.......))))))))))).....................-............................ ( -24.90)
>DroEre_CAF1 7890 118 + 1
GUCGAGCUUCACCUCUGGAGGUGAUCUGCUCCAGCUGCAGUUGCAUCUGAAAGUUGCAUUCAAAUGAACAUGUUUUUAACAGCUAUUAAA-UAACCUUUAUAUUAAAAAAUAAUCUUUG
...((((.((((((....))))))...)))).((((((((......)))...(((.(((....))))))..........)))))......-............................ ( -24.30)
>consensus
GCCGAGCUUCACCUCUGGAGGUGAUCUGCUCCAGCUGUAGUUGCAUCUGAAAGUGGGGUUCAAAUUAACAUGUUUUCAAAAACUAUUAAA_UAACCUUUAAACUAAAAUAUAAUAAUCG
...(((((((((.((((((.(..(.((((.......)))))..).)))))).))))))))).......................................................... (-21.74 = -22.68 +   0.94)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,210,040 – 18,210,159
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 86.50
Mean single sequence MFE -27.13
Consensus MFE -17.86
Energy contribution -19.18
Covariance contribution 1.31
Combinations/Pair 1.06
Mean z-score -1.53
Structure conservation index 0.66
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18210040 119 - 20766785
CGAUGAUUAUAUUUUACAAUAAAGGUUAUUUUAAAAGUUUAUGAAAACAUGUUAAAUUGAACCCCACUUCCAGAUGCAACUACAGCUGGAGCAGAUCACCUCCAGAGGUGAAGCUCGAU
(((....................((((..(((((..((((....))))...)))))...)))).....(((((.((......)).)))))((...((((((....)))))).))))).. ( -23.80)
>DroSec_CAF1 7909 118 - 1
UGAUUAUUAUAUUUUAGUUUAAAGGGCU-UUUAAUAGUUUUUGAAAACAUGUUAAUCUGAACUCCACAUCCAGAUGCAACUACAGCUGGAGCAGAUCACCUCCAGAGGUGAAGCUCGGC
.......................(((((-.((((((((((....)))).))))))((((.........(((((.((......)).))))).))))((((((....)))))))))))... ( -26.60)
>DroSim_CAF1 7907 118 - 1
CGAUUUUUAUAUUUUAGUUUAAAGGUUA-UUUAAUAGUUUUUGAAAACAUGUUAAUCUGAACCCCACUUUCAGAUGCAACUACAGCUGGAGCAGAUCACCUCCAGAGGUGAAGCUCGGC
.................((((((..(((-(...))))..)))))).....(((.(((((((.......)))))))..)))....((((.(((...((((((....)))))).))))))) ( -26.40)
>DroEre_CAF1 7890 118 - 1
CAAAGAUUAUUUUUUAAUAUAAAGGUUA-UUUAAUAGCUGUUAAAAACAUGUUCAUUUGAAUGCAACUUUCAGAUGCAACUGCAGCUGGAGCAGAUCACCUCCAGAGGUGAAGCUCGAC
...((((.((((((......)))))).)-)))..(((((((.........(((((((((((.......)))))))).))).)))))))((((...((((((....)))))).))))... ( -31.70)
>consensus
CGAUGAUUAUAUUUUAGUAUAAAGGUUA_UUUAAUAGUUUUUGAAAACAUGUUAAUCUGAACCCCACUUCCAGAUGCAACUACAGCUGGAGCAGAUCACCUCCAGAGGUGAAGCUCGAC
............(((((.((((..(((..(((((......))))))))...)))).))))).........(((.((......)).)))((((...((((((....)))))).))))... (-17.86 = -19.18 +   1.31)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:31 2006