Locus 186

Sequence ID 4_DroMel_CAF1
Location 1,116,379 – 1,116,573
Length 194
Max. P 0.842382
window302 window303

overview

Window 2

Location 1,116,379 – 1,116,496
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.61
Mean single sequence MFE -22.02
Consensus MFE -17.01
Energy contribution -16.20
Covariance contribution -0.81
Combinations/Pair 1.24
Mean z-score -1.38
Structure conservation index 0.77
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1116379 117 + 1281640
AGUUAAUGAUCGUACAACCUCAAGAUCUUAUUCACAUUGAAAUUGAAGCACUAUUGGUGUACGAUUACAACGCUC-ACAUUAUCAGGAUAUA--AAAAAAAGGUGAUAGUAAUUCAGCAC
.(((..((((((((((.((...((..(((.(((.....)))....)))..))...)))))))))))).)))(((.-..(((((((.......--.........))))))).....))).. ( -20.89)
>DroSec_CAF1 27791 117 + 1
AGUUGAUGAUCGUACAACCUCAAGAUCUUAUUUACAUUCAAAUUGAAGCACAAUUGGUGUACGAUUACAACGCUC-ACAUUAUAAGGAUAUA--AAAAAAAUGUGAUAGUAAUCCAGCAC
.((((.((((((((((.((....((............)).(((((.....)))))))))))))))))))))..((-(((((...........--.....))))))).............. ( -23.99)
>DroSim_CAF1 15457 117 + 1
AGUUGAUGAUCGUACAACCUCAAGAUCUUAUUUACAUUCAAAUUGAAGCACAAUUGGUGUACGAUUACAACGCUC-ACAUUAUAAGGAUAUA--AAAAAAAUGUGAUAGUAAUCCAGCAC
.((((.((((((((((.((....((............)).(((((.....)))))))))))))))))))))..((-(((((...........--.....))))))).............. ( -23.99)
>DroEre_CAF1 28709 119 + 1
AAUUGAUGAUUGUGCGACAUCAAGAUCUGAUUCGUAUUCAAAUUGAAGUACAAUUGGUGUACGAUUACAACGCUCCUUAUAAUCACGAUAUAUAAAA-AAAUGUUAUAGUAACUCAGCAC
.((((.((((((((((..((((.....))))((((((...(((((.....)))))...))))))......))).....)))))))))))........-...................... ( -19.20)
>consensus
AGUUGAUGAUCGUACAACCUCAAGAUCUUAUUCACAUUCAAAUUGAAGCACAAUUGGUGUACGAUUACAACGCUC_ACAUUAUAAGGAUAUA__AAAAAAAUGUGAUAGUAAUCCAGCAC
.((((.((((((((((...((((.......((((.........))))......))))))))))))))))))(((..((((((((.................)))))).)).....))).. (-17.01 = -16.20 +  -0.81) 

alignment

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secondary structure

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dotplot

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Window 3

Location 1,116,458 – 1,116,573
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.99
Mean single sequence MFE -29.98
Consensus MFE -20.17
Energy contribution -21.05
Covariance contribution 0.88
Combinations/Pair 1.17
Mean z-score -2.72
Structure conservation index 0.67
SVM decision value 0.76
SVM RNA-class probability 0.842382
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1116458 115 - 1281640
GUGGUUUCUGGCUUCACCCGACUUACGUUGUACUCACGGAGUAAUCUGUGUUCCCAUAUAUUUGUGGUUAC--AAAGUC-GUGCUGAAUUACUAUCACCUUUUUUU--UAUAUCCUGAUA
(((((...(((.((((.(((((((....((((..((((((....))))))...(((((....))))).)))--))))))-).).)))))))..)))))........--............ ( -26.60)
>DroSec_CAF1 27870 116 - 1
GUGGUUUCUGGCUUCAGCCGACUUAAGUUGUACUCACGGAGUAAUCUUUGUUCCCAUAUAUUUGUGGUUAC--AAAGUCGGUGCUGGAUUACUAUCACAUUUUUUU--UAUAUCCUUAUA
(((((.((..((....(((((((((((...(((((...)))))..)))(((..(((((....)))))..))--)))))))))))..)).....)))))........--............ ( -34.50)
>DroSim_CAF1 15536 116 - 1
GUGGUUUCUGGCUUCAGCCGACUUAAAUUGUACUCACGGAGUAAUCUUUGUUCCCAUAUAUUUGUGGUAAC--AAAGUCGGUGCUGGAUUACUAUCACAUUUUUUU--UAUAUCCUUAUA
(((((.((..((....((((((((......(((((...))))).....((((.(((((....))))).)))--)))))))))))..)).....)))))........--............ ( -33.20)
>DroEre_CAF1 28789 119 - 1
GUGGUUUCUGCCUUCACUCGAUUUAAGUUGUACUAAUGGAGUAAUCUGUGUUCCCAUACAUUUGUGGUUACACCGAUUCGGUGCUGAGUUACUAUAACAUUU-UUUUAUAUAUCGUGAUU
..(((....))).((((.........((((((.((((..(((((((.((((..(((((....)))))..)))).)))....))))..)))).))))))((..-....)).....)))).. ( -25.60)
>consensus
GUGGUUUCUGGCUUCACCCGACUUAAGUUGUACUCACGGAGUAAUCUGUGUUCCCAUAUAUUUGUGGUUAC__AAAGUCGGUGCUGAAUUACUAUCACAUUUUUUU__UAUAUCCUGAUA
(((((.......((((((((((((...........(((((....)))))((..(((((....)))))..))...)))))))..))))).....)))))...................... (-20.17 = -21.05 +   0.88) 

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 09:38:41 2006