Locus 318

Sequence ID 2R_DroMel_CAF1
Location 2,110,909 – 2,111,004
Length 95
Max. P 0.996868
window644 window645

overview

Window 4

Location 2,110,909 – 2,111,004
Length 95
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 94.09
Mean single sequence MFE -19.94
Consensus MFE -17.58
Energy contribution -18.38
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.88
SVM decision value 2.76
SVM RNA-class probability 0.996868
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2110909 95 + 20766785
CACUGCU-UUUUACAGCUUCCCCCAUCUGCUCCUCCGGAGUUGGGCAAACUGUGGACAGGCAUUGAAAGCAUCCCCUAUUCACACCCCUCUCCAAU
((.((((-((((((((.((..((((...(((((...)))))))))..))))))))).))))).))............................... ( -23.00)
>DroSec_CAF1 89765 94 + 1
CACUGCU-UU-UCCAGCUUCCCCCAUCUGCUCCUCCGGAGUUGGGCAAACUGUGGACAGGCAUUGAAAGCAUCCCCUAUUCACACCCCUCUCCACU
....(((-..-...)))....((((...(((((...)))))))))......(((((.(((...((((((......)).))))....))).))))). ( -22.40)
>DroSim_CAF1 92933 94 + 1
CACUGCU-UU-UCCAGCUUCCCCCAUCUGCUCCUCCGGAGUUGGGCAAACUGUGGACAGGCAUUGAAAGCAUCCCCUAUUCACACCCCUCUCCACU
....(((-..-...)))....((((...(((((...)))))))))......(((((.(((...((((((......)).))))....))).))))). ( -22.40)
>DroEre_CAF1 88132 95 + 1
CACUGCUCUU-UCCAGCUUCCCCCAUCUGCUCCUCCGGAGUUGGGCAAACUGUGGACAACCAUUGAAAGCAUCCCCUAUUCACACCCCUCUCCACU
....(((...-...)))....((((...(((((...)))))))))......(((((.......((((((......)).))))........))))). ( -17.46)
>DroYak_CAF1 91807 91 + 1
CACU----UU-UCCAGCUUCCCCCAUCUGCUCCUUCGGAGUUGGGCAAACUGUGGACAACAAUUGACAGCAUCCCCUAUUCACACCCCCCUCCACU
....----..-...(((...........))).....((((..(((.....((((((.......((....)).......)))))))))..))))... ( -14.44)
>consensus
CACUGCU_UU_UCCAGCUUCCCCCAUCUGCUCCUCCGGAGUUGGGCAAACUGUGGACAGGCAUUGAAAGCAUCCCCUAUUCACACCCCUCUCCACU
..............(((...........))).....((((..(((.....((((((.(((...((....))...))).)))))))))..))))... (-17.58 = -18.38 +   0.80) 

alignment

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secondary structure

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dotplot

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Window 5

Location 2,110,909 – 2,111,004
Length 95
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 94.09
Mean single sequence MFE -28.80
Consensus MFE -26.68
Energy contribution -26.88
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.71
Structure conservation index 0.93
SVM decision value 2.26
SVM RNA-class probability 0.991351
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2110909 95 - 20766785
AUUGGAGAGGGGUGUGAAUAGGGGAUGCUUUCAAUGCCUGUCCACAGUUUGCCCAACUCCGGAGGAGCAGAUGGGGGAAGCUGUAAAA-AGCAGUG
...(((.(((.((.((((.((......)))))))).))).)))(((((((.(((..((((...))))......))).)))))))....-....... ( -30.70)
>DroSec_CAF1 89765 94 - 1
AGUGGAGAGGGGUGUGAAUAGGGGAUGCUUUCAAUGCCUGUCCACAGUUUGCCCAACUCCGGAGGAGCAGAUGGGGGAAGCUGGA-AA-AGCAGUG
.(((((.(((.((.((((.((......)))))))).))).)))))..(((.((((.((((...))))....)))).)))(((...-..-))).... ( -31.50)
>DroSim_CAF1 92933 94 - 1
AGUGGAGAGGGGUGUGAAUAGGGGAUGCUUUCAAUGCCUGUCCACAGUUUGCCCAACUCCGGAGGAGCAGAUGGGGGAAGCUGGA-AA-AGCAGUG
.(((((.(((.((.((((.((......)))))))).))).)))))..(((.((((.((((...))))....)))).)))(((...-..-))).... ( -31.50)
>DroEre_CAF1 88132 95 - 1
AGUGGAGAGGGGUGUGAAUAGGGGAUGCUUUCAAUGGUUGUCCACAGUUUGCCCAACUCCGGAGGAGCAGAUGGGGGAAGCUGGA-AAGAGCAGUG
.(((((.((..((.((((.((......))))))))..)).)))))..(((.((((.((((...))))....)))).)))(((...-...))).... ( -23.80)
>DroYak_CAF1 91807 91 - 1
AGUGGAGGGGGGUGUGAAUAGGGGAUGCUGUCAAUUGUUGUCCACAGUUUGCCCAACUCCGAAGGAGCAGAUGGGGGAAGCUGGA-AA----AGUG
.(((((.((.(((.(((.(((......))))))))).)).)))))(((((.(((..((((...))))......))).)))))...-..----.... ( -26.50)
>consensus
AGUGGAGAGGGGUGUGAAUAGGGGAUGCUUUCAAUGCCUGUCCACAGUUUGCCCAACUCCGGAGGAGCAGAUGGGGGAAGCUGGA_AA_AGCAGUG
..((((.(((.((.((((.((......)))))))).))).))))((((((.(((..((((...))))......))).))))))............. (-26.68 = -26.88 +   0.20) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:19 2006