Locus 6521

Sequence ID 3L_DroMel_CAF1
Location 17,272,328 – 17,272,439
Length 111
Max. P 0.998913
window10569 window10570

overview

Window 9

Location 17,272,328 – 17,272,439
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.58
Mean single sequence MFE -36.94
Consensus MFE -20.62
Energy contribution -21.56
Covariance contribution 0.94
Combinations/Pair 1.04
Mean z-score -2.96
Structure conservation index 0.56
SVM decision value 3.28
SVM RNA-class probability 0.998913
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17272328 111 + 23771897
GGACGUGAGGAAGGGCAGGGAAAGGA---------CCUGAGACCUGGGCAAAAAGCAAGCGAGGGGUGAAUAGCUUUAAAGCUGAUGCAUAAAAUAUUGCGUAUACGCCCCAUUAUGCCA
...(....)..(((.((((.......---------))))...))).((((....(....)..((((((..(((((....)))))(((((........)))))...))))))....)))). ( -37.00)
>DroSec_CAF1 155844 111 + 1
AGACGUGAGGAGGGGCAGGGGAAGGA---------CCUGAGACCUGGGCAAAUAGCAAGCGAGGGGUGAAUAGCUUUAAAGCUGAUGCAUAAAAUAUUGCGUAUACGCCCCAUUAUGCCA
...(....).(((..((((.......---------))))...))).((((....(....)..((((((..(((((....)))))(((((........)))))...))))))....)))). ( -37.50)
>DroSim_CAF1 150881 111 + 1
GGACGUGAGGAGGAGCAGGGGAAGGA---------CCUGAGACCUGGGCAAAUAGCAAGCGAGGGGUGAAUAGCUUUAAAGCUGAUGCAUAAAAUAUUGCGUAUACGCCCCAUUAUGCCA
...(....).(((..((((.......---------))))...))).((((....(....)..((((((..(((((....)))))(((((........)))))...))))))....)))). ( -36.40)
>DroEre_CAF1 158684 85 + 1
GGAUGUGAGAAGGGGACGG-----------------------------------GCAGCGGCAGGGGCAGGAGCUUUAAAGCUGAUGCAUAAUAUAUUGCGUAUACGCCCCAUUAUGCCC
...........(....)((-----------------------------------(((......(((((...((((....)))).(((((........)))))....)))))....))))) ( -29.00)
>DroYak_CAF1 163499 114 + 1
GGACGUGAAUGGGAGAAGGA--GGCUCCUCCUCCUCCUG----CUGGGUAAAAAGCAUGCGAGGGGUGAAUAGCUUUAAAGCUGAUGCAUAAUAUAUUGCGUAUACGCCCCAUUAUGCCC
((.(((((..(((((.((((--(....))))).)))))(----((........)))......((((((..(((((....)))))(((((........)))))...)))))).))))))). ( -44.80)
>consensus
GGACGUGAGGAGGGGCAGGG_AAGGA_________CCUGAGACCUGGGCAAAAAGCAAGCGAGGGGUGAAUAGCUUUAAAGCUGAUGCAUAAAAUAUUGCGUAUACGCCCCAUUAUGCCA
((.(((((...........................((........))...............((((((..(((((....)))))(((((........)))))...)))))).))))))). (-20.62 = -21.56 +   0.94)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,272,328 – 17,272,439
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.58
Mean single sequence MFE -26.89
Consensus MFE -15.20
Energy contribution -15.24
Covariance contribution 0.04
Combinations/Pair 1.07
Mean z-score -1.72
Structure conservation index 0.57
SVM decision value 0.16
SVM RNA-class probability 0.611048
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17272328 111 - 23771897
UGGCAUAAUGGGGCGUAUACGCAAUAUUUUAUGCAUCAGCUUUAAAGCUAUUCACCCCUCGCUUGCUUUUUGCCCAGGUCUCAGG---------UCCUUUCCCUGCCCUUCCUCACGUCC
.((((....((((.(.....(((........)))...((((....))))...).)))).....))))........(((...((((---------.......)))).....)))....... ( -21.90)
>DroSec_CAF1 155844 111 - 1
UGGCAUAAUGGGGCGUAUACGCAAUAUUUUAUGCAUCAGCUUUAAAGCUAUUCACCCCUCGCUUGCUAUUUGCCCAGGUCUCAGG---------UCCUUCCCCUGCCCCUCCUCACGUCU
.(((......(((((.(((.((((.............((((....)))).............))))))).)))))(((...((((---------.......))))..)))......))). ( -24.07)
>DroSim_CAF1 150881 111 - 1
UGGCAUAAUGGGGCGUAUACGCAAUAUUUUAUGCAUCAGCUUUAAAGCUAUUCACCCCUCGCUUGCUAUUUGCCCAGGUCUCAGG---------UCCUUCCCCUGCUCCUCCUCACGUCC
.(((......(((((.(((.((((.............((((....)))).............))))))).)))))(((...((((---------.......))))..)))......))). ( -24.37)
>DroEre_CAF1 158684 85 - 1
GGGCAUAAUGGGGCGUAUACGCAAUAUAUUAUGCAUCAGCUUUAAAGCUCCUGCCCCUGCCGCUGC-----------------------------------CCGUCCCCUUCUCACAUCC
(((((....(((((......(((........)))...((((....))))...)))))......)))-----------------------------------))................. ( -25.10)
>DroYak_CAF1 163499 114 - 1
GGGCAUAAUGGGGCGUAUACGCAAUAUAUUAUGCAUCAGCUUUAAAGCUAUUCACCCCUCGCAUGCUUUUUACCCAG----CAGGAGGAGGAGGAGCC--UCCUUCUCCCAUUCACGUCC
((((((((((..(((....)))....))))))))...((((....)))).......)).....((((........))----))((((((((((....)--)))))))))........... ( -39.00)
>consensus
UGGCAUAAUGGGGCGUAUACGCAAUAUUUUAUGCAUCAGCUUUAAAGCUAUUCACCCCUCGCUUGCUAUUUGCCCAGGUCUCAGG_________UCCUU_CCCUGCCCCUCCUCACGUCC
.((((....((((.......(((........)))...((((....)))).....)))).....))))..................................................... (-15.20 = -15.24 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:37 2006