Locus 6112

Sequence ID 2L_DroMel_CAF1
Location 17,110,606 – 17,110,726
Length 120
Max. P 0.982136
window9733 window9734

overview

Window 3

Location 17,110,606 – 17,110,726
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 99.67
Mean single sequence MFE -22.96
Consensus MFE -21.92
Energy contribution -22.12
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.95
SVM decision value 1.91
SVM RNA-class probability 0.982136
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17110606 120 + 22407834
UCAACUAAAUAAAUAAAAAGUGAAUUUUUAAUUAAAAGUUAAGUGGCAACUCAUUUAAAUUAAUGUUGACUCAAGCGUCAUAGCAAAACAGUUGGAGAGUCAAGCGUUGAAAAUGGGGAA
..((((...(((.((((((.....)))))).)))..)))).........(((((((...(((((((((((((..((......))....(....)..))))).)))))))))))))))... ( -23.00)
>DroSec_CAF1 74710 120 + 1
UCAACUAAAUAAAUAAAAAGUGAAUUUUUAAUUAAAAGUUAAGUGGCAACUCAUUUAAAUUAAUGUUGACUCAAGCGUCAUAGCAAAACAGUUGGAGAGUCAAGCGUUGAAAAUGGGGAA
..((((...(((.((((((.....)))))).)))..)))).........(((((((...(((((((((((((..((......))....(....)..))))).)))))))))))))))... ( -23.00)
>DroSim_CAF1 88311 120 + 1
UCAACUAAAUAAAUAAAAAGUGAAUUUUUAAUUAAAAGUUAAGUGGCAACUCAUUUAAAUUAAUGUUGACUCAAGCGUCAUAGCAAAACAGUUGGAGAGUCAAGCGUUGAAAAUGGGGAA
..((((...(((.((((((.....)))))).)))..)))).........(((((((...(((((((((((((..((......))....(....)..))))).)))))))))))))))... ( -23.00)
>DroEre_CAF1 76189 119 + 1
UCAACUAAAUAAAUAAAAAGUGAAUUUUUAAUUAAAAGUUAAGUGGCAACUCAUUUAAAUUAAUGUUGACUCAAGCGUCAUAGCAAAACAGUUGGAGAGUCAAGCGUUGAAAAUGG-GAA
..((((...(((.((((((.....)))))).)))..)))).........(((((((...(((((((((((((..((......))....(....)..))))).))))))))))))))-).. ( -22.80)
>DroYak_CAF1 76597 120 + 1
UCAACUAAAUAAAUAAAAAGUGAAUUUUUAAUUAAAAGUUAAGUGGCAACUCAUUUAAAUUAAUGUUGACUCAAGCGUCAUAGCAAAACAGUUGGAGAGUCAAGCGUUGAAAAUGGGGAA
..((((...(((.((((((.....)))))).)))..)))).........(((((((...(((((((((((((..((......))....(....)..))))).)))))))))))))))... ( -23.00)
>consensus
UCAACUAAAUAAAUAAAAAGUGAAUUUUUAAUUAAAAGUUAAGUGGCAACUCAUUUAAAUUAAUGUUGACUCAAGCGUCAUAGCAAAACAGUUGGAGAGUCAAGCGUUGAAAAUGGGGAA
..((((...(((.((((((.....)))))).)))..)))).........(((((((...(((((((((((((..((......))....(....)..))))).)))))))))))))))... (-21.92 = -22.12 +   0.20)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,110,606 – 17,110,726
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.67
Mean single sequence MFE -17.30
Consensus MFE -17.30
Energy contribution -17.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.44
Structure conservation index 1.00
SVM decision value 0.77
SVM RNA-class probability 0.845904
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17110606 120 - 22407834
UUCCCCAUUUUCAACGCUUGACUCUCCAACUGUUUUGCUAUGACGCUUGAGUCAACAUUAAUUUAAAUGAGUUGCCACUUAACUUUUAAUUAAAAAUUCACUUUUUAUUUAUUUAGUUGA
...........((((..(((((((......((((.......))))...)))))))((((......)))).))))....((((((..(((.((((((.....)))))).)))...)))))) ( -17.30)
>DroSec_CAF1 74710 120 - 1
UUCCCCAUUUUCAACGCUUGACUCUCCAACUGUUUUGCUAUGACGCUUGAGUCAACAUUAAUUUAAAUGAGUUGCCACUUAACUUUUAAUUAAAAAUUCACUUUUUAUUUAUUUAGUUGA
...........((((..(((((((......((((.......))))...)))))))((((......)))).))))....((((((..(((.((((((.....)))))).)))...)))))) ( -17.30)
>DroSim_CAF1 88311 120 - 1
UUCCCCAUUUUCAACGCUUGACUCUCCAACUGUUUUGCUAUGACGCUUGAGUCAACAUUAAUUUAAAUGAGUUGCCACUUAACUUUUAAUUAAAAAUUCACUUUUUAUUUAUUUAGUUGA
...........((((..(((((((......((((.......))))...)))))))((((......)))).))))....((((((..(((.((((((.....)))))).)))...)))))) ( -17.30)
>DroEre_CAF1 76189 119 - 1
UUC-CCAUUUUCAACGCUUGACUCUCCAACUGUUUUGCUAUGACGCUUGAGUCAACAUUAAUUUAAAUGAGUUGCCACUUAACUUUUAAUUAAAAAUUCACUUUUUAUUUAUUUAGUUGA
...-.......((((..(((((((......((((.......))))...)))))))((((......)))).))))....((((((..(((.((((((.....)))))).)))...)))))) ( -17.30)
>DroYak_CAF1 76597 120 - 1
UUCCCCAUUUUCAACGCUUGACUCUCCAACUGUUUUGCUAUGACGCUUGAGUCAACAUUAAUUUAAAUGAGUUGCCACUUAACUUUUAAUUAAAAAUUCACUUUUUAUUUAUUUAGUUGA
...........((((..(((((((......((((.......))))...)))))))((((......)))).))))....((((((..(((.((((((.....)))))).)))...)))))) ( -17.30)
>consensus
UUCCCCAUUUUCAACGCUUGACUCUCCAACUGUUUUGCUAUGACGCUUGAGUCAACAUUAAUUUAAAUGAGUUGCCACUUAACUUUUAAUUAAAAAUUCACUUUUUAUUUAUUUAGUUGA
...........((((..(((((((......((((.......))))...)))))))((((......)))).))))....((((((..(((.((((((.....)))))).)))...)))))) (-17.30 = -17.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:10 2006