Locus 1589

Sequence ID X_DroMel_CAF1
Location 4,573,375 – 4,573,501
Length 126
Max. P 0.758289
window2605 window2606

overview

Window 5

Location 4,573,375 – 4,573,466
Length 91
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 82.94
Mean single sequence MFE -18.82
Consensus MFE -13.02
Energy contribution -13.13
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -1.91
Structure conservation index 0.69
SVM decision value 0.49
SVM RNA-class probability 0.758289
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4573375 91 - 22224390
CUAACCGCACGCUUCAACUGAAUCACUUUUGAUU------CAAUCAUCUCACUUGUGAUUCCGCGUGAU-UUGCUGGCAAAUUUAAAGCCCUCUUCUC
.......(((((.......((((((....)))))------)((((((.......))))))..)))))..-.....(((.........)))........ ( -18.00)
>DroSec_CAF1 3062 91 - 1
CUACCCGCACGCUUGAACCGAAUCACUUUUGAUU------CAAUCAUCUCACUUGUGAUUCCGCGUGAU-UUGCUGGCAAAUUUAAAGCCCUCUUCUC
.......(((((.......((((((....)))))------)((((((.......))))))..)))))..-.....(((.........)))........ ( -18.30)
>DroSim_CAF1 3270 89 - 1
CUAACCGCACGCUUGAACCGAAUCACUUUUGAUU------CAAUCAUCUCACUUGUGAUUCCGCGUGAU--UGCUGGCAAAUUUAAAGCCCUC-UCUC
.......(((((.......((((((....)))))------)((((((.......))))))..)))))..--....(((.........)))...-.... ( -18.30)
>DroEre_CAF1 2990 72 - 1
CUAACCGCACGCCUGAAUUGAAUCA--------------------------CUUGUGAUUCCGUGUGAUUUUGCUGGCAAAUUUAAAGCCCUCUUGUC
.....((((((........((((((--------------------------....))))))))))))........(((.........)))........ ( -14.70)
>DroYak_CAF1 3038 97 - 1
CUAAUCGCACGCUUGAAUUGAAUCACUUUUGAUUUUGAUGCAAUCAAGUCACUUGUGAUUCCGUGUGAU-UUGCUGGCAAAUUUAAAGCCCUCUUCUC
..(((((((((........(((((((...((((((.(((...)))))))))...)))))))))))))))-)....(((.........)))........ ( -24.80)
>consensus
CUAACCGCACGCUUGAACUGAAUCACUUUUGAUU______CAAUCAUCUCACUUGUGAUUCCGCGUGAU_UUGCUGGCAAAUUUAAAGCCCUCUUCUC
.......(((((.......(((((((...(((................)))...))))))).)))))........(((.........)))........ (-13.02 = -13.13 +   0.11)

alignment

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secondary structure

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dotplot

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Window 6

Location 4,573,396 – 4,573,501
Length 105
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 76.72
Mean single sequence MFE -21.88
Consensus MFE -13.22
Energy contribution -13.37
Covariance contribution 0.15
Combinations/Pair 1.11
Mean z-score -1.64
Structure conservation index 0.60
SVM decision value 0.15
SVM RNA-class probability 0.605527
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4573396 105 + 22224390
CCAGCAA-AUCACGCGGAAUCACAAGUGAGAUGAUUG------AAUCAAAAGUGAUUCAGUUGAAGCGUGCGGUUAGCUGAAAAUUUAAUUUGUUAUAUCAAUCGAUAUCUA
.((((.(-(((.((((...(((....)))...(((((------(((((....))))))))))....)))).)))).))))...............(((((....)))))... ( -27.30)
>DroSec_CAF1 3083 105 + 1
CCAGCAA-AUCACGCGGAAUCACAAGUGAGAUGAUUG------AAUCAAAAGUGAUUCGGUUCAAGCGUGCGGGUAGCAGAAAAUUUAAUUUGUUAUAUCAAUCGAUAUCUA
((.(((.-.....((.(((((((...(((........------..)))...))))))).)).......)))))((((((((........))))))))............... ( -22.72)
>DroSim_CAF1 3290 102 + 1
CCAGCA--AUCACGCGGAAUCACAAGUGAGAUGAUUG------AAUCAAAAGUGAUUCGGUUCAAGCGUGCGGUUAGCAAAAAAUU--AUUUNNNNNNNNNNNNNNNNNNNN
...(((--(((.((((...(((....)))..((((((------(((((....)))))))).)))..)))).)))).))........--........................ ( -20.20)
>DroEre_CAF1 3011 86 + 1
CCAGCAAAAUCACACGGAAUCACAAG--------------------------UGAUUCAAUUCAGGCGUGCGGUUAGCAGAAAAUUUAAUUUGUUGUAUCAAUCGAUAUCUA
.(((((((........((((((....--------------------------))))))..........(((.....)))..........)))))))((((....)))).... ( -16.10)
>DroYak_CAF1 3059 111 + 1
CCAGCAA-AUCACACGGAAUCACAAGUGACUUGAUUGCAUCAAAAUCAAAAGUGAUUCAAUUCAAGCGUGCGAUUAGCAGAAAAUUUAAUUUGUUAUAUCAAUCGAUAUCUA
...((.(-(((.(((((((((((...(((.(((((...)))))..)))...)))))))........)))).)))).)).................(((((....)))))... ( -23.10)
>consensus
CCAGCAA_AUCACGCGGAAUCACAAGUGAGAUGAUUG______AAUCAAAAGUGAUUCAGUUCAAGCGUGCGGUUAGCAGAAAAUUUAAUUUGUUAUAUCAAUCGAUAUCUA
...((...(((.(((((((((((...(((................)))...)))))))........)))).)))..)).................................. (-13.22 = -13.37 +   0.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:10 2006