Locus 7351

Sequence ID 3L_DroMel_CAF1
Location 19,717,858 – 19,718,015
Length 157
Max. P 0.982331
window11939 window11940

overview

Window 9

Location 19,717,858 – 19,717,975
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.02
Mean single sequence MFE -30.28
Consensus MFE -20.28
Energy contribution -20.56
Covariance contribution 0.28
Combinations/Pair 1.15
Mean z-score -1.93
Structure conservation index 0.67
SVM decision value 0.53
SVM RNA-class probability 0.771614
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19717858 117 + 23771897
CUGAC--CUUGAUUUUGCUUUUUAUCGCUCCUGGAUUGGUUCUUUCGUCUGCCUUCAAUUCAACUUCUCGCCGAAACUUUUGGCCGCGGA-AAAGUUGAAUAAACUUGGCCGAAAGGCCA
.....--....((((.(((((((..(((...((((((((...............)))))))).......(((((.....))))).)))))-))))).)))).....(((((....))))) ( -31.86)
>DroSec_CAF1 26930 108 + 1
CUGAC--CUUGAUUUUGCUUUUUAUCGCUUCUGGAUUGGUUUUU----------UCAGUUCAACUUCUCGCCGAAACUUUUGGCCGCGAAAAAAGUUUAAUAAACUUGGCCGAAAGGCCA
.....--....(((..(((((((.((((...((((((((.....----------)))))))).......(((((.....))))).)))))))))))..))).....(((((....))))) ( -34.90)
>DroSim_CAF1 29121 110 + 1
CUGACCCCUUGACCUUUCUUUUUAUCGCUUCUGGAUUGGUUCUU----------UCAGUUCAAAUUCUCGCCGAAACUUUUGGCCGCGAAAAAAGUUUAAUAAACUUGACCGAAAGGCCA
.........((.((((((......((((...((((((((.....----------)))))))).......(((((.....))))).))))...(((((.....)))))....)))))).)) ( -26.50)
>DroEre_CAF1 29647 113 + 1
CUGAC--CUUGAUUCUGCCCUUUUUCGCUCCUGGGUUGGCUU---CAUCUCUCUUCGGUUCAACUUCUCGCCGA-ACUUUUGGCCGCGGA-AAAGUUUAAUAAACUUGGCCGAAAGGCCA
.....--............(((((((((.((.((((((((..---.......(....)...........))).)-))))..))..)))))-))))...........(((((....))))) ( -31.15)
>DroYak_CAF1 27675 114 + 1
CAGAC--CUUGAACUUGCUCUUUAACGCUUCUGGGUUGGCUU---CAUCUGUCUUCAGUUAAACUUAUCGCCGAAACUUUUGGGCGCGGA-AAAGUUAAGUAAACUUGGCCGAAAUGCCA
..(((--((.(((...((........))))).)))))(((..---...(((....)))..........((((.((....)).))))(((.-.(((((.....)))))..)))....))). ( -27.00)
>consensus
CUGAC__CUUGAUUUUGCUUUUUAUCGCUUCUGGAUUGGUUUUU_C_UCU__CUUCAGUUCAACUUCUCGCCGAAACUUUUGGCCGCGGA_AAAGUUUAAUAAACUUGGCCGAAAGGCCA
........................((((...((((((((...............)))))))).......(((((.....))))).))))...(((((.....)))))((((....)))). (-20.28 = -20.56 +   0.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,717,896 – 19,718,015
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.92
Mean single sequence MFE -33.02
Consensus MFE -24.34
Energy contribution -24.94
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -2.40
Structure conservation index 0.74
SVM decision value 1.91
SVM RNA-class probability 0.982331
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19717896 119 + 23771897
UCUUUCGUCUGCCUUCAAUUCAACUUCUCGCCGAAACUUUUGGCCGCGGA-AAAGUUGAAUAAACUUGGCCGAAAGGCCAGAAGUGAGCUUAAUUGACGAUGGGGUAAUUAUUACUUCUG
....(((((.((((((.(((((((((.(((((((.....)))))....))-.))))))))).....(((((....)))))))))...))......))))).((((((.....)))))).. ( -39.30)
>DroSec_CAF1 26968 110 + 1
UUUU----------UCAGUUCAACUUCUCGCCGAAACUUUUGGCCGCGAAAAAAGUUUAAUAAACUUGGCCGAAAGGCCAGAAGUGAGCUUAAUUGACGUUGGGGUAUUUAUUACUUCUG
....----------..((((((.(((((.(((((.....)))))........(((((.....)))))((((....)))))))))))))))...........((((((.....)))))).. ( -32.50)
>DroSim_CAF1 29161 110 + 1
UCUU----------UCAGUUCAAAUUCUCGCCGAAACUUUUGGCCGCGAAAAAAGUUUAAUAAACUUGACCGAAAGGCCAGAAGUGAGCUUAAUUGGCGAUGAGGUAUUUAUUACUUCUG
....----------.............(((((((.((((((((((.((....(((((.....)))))...))...))))))))))........))))))).((((((.....)))))).. ( -33.60)
>DroEre_CAF1 29685 104 + 1
UU---CAUCUCUCUUCGGUUCAACUUCUCGCCGA-ACUUUUGGCCGCGGA-AAAGUUUAAUAAACUUGGCCGAAAGGCCAGAAUUGAGCUUUAUUGUCGAUGGAGUAUU-----------
..---...((((..(((............(((((-....))))).((((.-((((((((((....((((((....)))))).)))))))))).))))))).))))....----------- ( -32.80)
>DroYak_CAF1 27713 116 + 1
UU---CAUCUGUCUUCAGUUAAACUUAUCGCCGAAACUUUUGGGCGCGGA-AAAGUUAAGUAAACUUGGCCGAAAUGCCAGGAGUGUGCUUUAUUGUCGAUUGGGUAUUUAUGACUUCUU
.(---(((..((.((((((..(...((..((....((((((((...(((.-.(((((.....)))))..))).....))))))))..))..))...)..)))))).))..))))...... ( -26.90)
>consensus
UUUU_C_UCU__CUUCAGUUCAACUUCUCGCCGAAACUUUUGGCCGCGGA_AAAGUUUAAUAAACUUGGCCGAAAGGCCAGAAGUGAGCUUAAUUGACGAUGGGGUAUUUAUUACUUCUG
......................((((((((.(((.((((((((((.(((...(((((.....)))))..)))...))))))))))........))).))).))))).............. (-24.34 = -24.94 +   0.60)

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 12:44:43 2006