Locus 8078

Sequence ID X_DroMel_CAF1
Location 20,114,623 – 20,114,779
Length 156
Max. P 0.989698
window13260 window13261

overview

Window 0

Location 20,114,623 – 20,114,743
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.78
Mean single sequence MFE -30.70
Consensus MFE -28.29
Energy contribution -27.97
Covariance contribution -0.33
Combinations/Pair 1.11
Mean z-score -1.01
Structure conservation index 0.92
SVM decision value 0.57
SVM RNA-class probability 0.786489
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20114623 120 - 22224390
UAUGUGGCGUUUAUGUAGCUGCAACGUAGAGUAAAAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAUCAUGCGAAAUCUGGGAGUCUGAUGCCGUUGAUGUCGCUCC
...((((((((.((((((((((........))).(((((((((((((((.....))))...))))))))))))))).(((((.((...........)).))))).))).))))))))... ( -33.70)
>DroSec_CAF1 15271 101 - 1
UAUGUGGUGUUUAUGUAGCUGCAACGUAGAGUAAAAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAUCAUGCGAAAUCUGGGAGUCAG-------------------
....(((((....(((((((...((.....))....)))))))...)))))........(((((.(((((((((.........)))))).))))))))...------------------- ( -27.30)
>DroEre_CAF1 11697 116 - 1
-GUGUGGUGUUUAUGCAGCUC---CGUAGAGUAAGAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAUUAUGCGAAAUCUGAGAGUCUGAUGCCGUUGAUGUCGCUCC
-..((((((.....((.((((---....))))..(((((((((((((((.....))))...)))))))))))))...))))))((((.(((...(.((.....)))...))).))))... ( -31.10)
>consensus
UAUGUGGUGUUUAUGUAGCUGCAACGUAGAGUAAAAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAUCAUGCGAAAUCUGGGAGUCUGAUGCCGUUGAUGUCGCUCC
....(((((....(((((((...((.....))....)))))))...)))))........(((((.(((((((((.........)))))).))))))))...................... (-28.29 = -27.97 +  -0.33)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 20,114,663 – 20,114,779
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.27
Mean single sequence MFE -33.63
Consensus MFE -30.02
Energy contribution -29.87
Covariance contribution -0.15
Combinations/Pair 1.16
Mean z-score -2.94
Structure conservation index 0.89
SVM decision value 2.18
SVM RNA-class probability 0.989698
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20114663 116 - 22224390
GGUAUCUGUCAUCCAUUAAACACCAUAUA----UAUGUUGUAUGUGGCGUUUAUGUAGCUGCAACGUAGAGUAAAAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAU
((((...(((......(((((.(((((((----(.....)))))))).)))))(((((((...((.....))....))))))))))))))....((((((((....))))))))...... ( -33.70)
>DroSec_CAF1 15292 120 - 1
GGUAUCUGUCAUCCAUUAUACACCAUAUACAUGUAUGUAGUAUGUGGUGUUUAUGUAGCUGCAACGUAGAGUAAAAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAU
(((((((((....(((...(((((((((((.........)))))))))))..))).((((...((.....))....))))))))).))))....((((((((....))))))))...... ( -35.90)
>DroEre_CAF1 11737 104 - 1
GGUAUCCGUCAUCCAUUGCACACUGCAU-------------GUGUGGUGUUUAUGCAGCUC---CGUAGAGUAAGAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAU
((((...(((...(((..((((.....)-------------)))..)))....(((((((.---(.........).))))))))))))))....((((((((....))))))))...... ( -31.30)
>consensus
GGUAUCUGUCAUCCAUUAAACACCAUAUA____UAUGU_GUAUGUGGUGUUUAUGUAGCUGCAACGUAGAGUAAAAAGCUGCAGAUUGCCAAAUGUAAAACUCUGCAGUUUUGCUAUCAU
((((...(((......((.(((((((((((.........))))))))))).))(((((((...((.....))....))))))))))))))....((((((((....))))))))...... (-30.02 = -29.87 +  -0.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:56 2006