Locus 3152

Sequence ID 3L_DroMel_CAF1
Location 9,165,848 – 9,165,952
Length 104
Max. P 0.999326
window4915 window4916

overview

Window 5

Location 9,165,848 – 9,165,952
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 71.15
Mean single sequence MFE -26.45
Consensus MFE -15.38
Energy contribution -15.17
Covariance contribution -0.21
Combinations/Pair 1.35
Mean z-score -2.48
Structure conservation index 0.58
SVM decision value 3.51
SVM RNA-class probability 0.999326
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9165848 104 + 23771897
GCGCUCAAACACACACACGCAUGCACAUGUGAGUGGCCGCCAUACAUAUCCACACAUAUGACCAUUAAGGACGUGCAUUAUAUAGGCCCGCAUGUGCGCUCUAA
((((..............))..(((((((((...((((......(((((......))))).((.....))..............)))))))))))))))..... ( -27.34)
>DroSec_CAF1 20864 97 + 1
GCGCGCACACA--CACACGCACGCACAUAUGAGUGGCC-----AUAUAUCCAAACAUAUGCCCAUUAAGAACGUGCAUUAUAUAGGCCCGCAUGUGCGCUCUAA
..(((((((..--.....(((((........(((((.(-----((((........))))).))))).....))))).........(....).)))))))..... ( -26.82)
>DroAna_CAF1 22560 83 + 1
GUGGGCAGACA--U------------AUAUGUAUGAGG-----AUAUA--UGUACAUAUAUCCAUUAAGGAUAUGCAUUAUAUAGGCCCGCAUGUGCGCUCUUA
((((((..(((--(------------((((.(....).-----)))))--)))...(((((((.....)))))))..........))))))............. ( -25.20)
>consensus
GCGCGCAAACA__CACACGCA_GCACAUAUGAGUGGCC_____AUAUAUCCAAACAUAUGACCAUUAAGGACGUGCAUUAUAUAGGCCCGCAUGUGCGCUCUAA
((((.....................((((((.((((.............)))).))))))..........((((((.............))))))))))..... (-15.38 = -15.17 +  -0.21)

alignment

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secondary structure

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dotplot

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Window 6

Location 9,165,848 – 9,165,952
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 71.15
Mean single sequence MFE -32.30
Consensus MFE -14.19
Energy contribution -16.70
Covariance contribution 2.51
Combinations/Pair 1.21
Mean z-score -3.02
Structure conservation index 0.44
SVM decision value 1.31
SVM RNA-class probability 0.940207
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9165848 104 - 23771897
UUAGAGCGCACAUGCGGGCCUAUAUAAUGCACGUCCUUAAUGGUCAUAUGUGUGGAUAUGUAUGGCGGCCACUCACAUGUGCAUGCGUGUGUGUGUUUGAGCGC
...(((((((((((((.(((((((((.(((((((((.....))....)))))))..)))))).))).((.((......))))...)))))))))))))...... ( -35.50)
>DroSec_CAF1 20864 97 - 1
UUAGAGCGCACAUGCGGGCCUAUAUAAUGCACGUUCUUAAUGGGCAUAUGUUUGGAUAUAU-----GGCCACUCAUAUGUGCGUGCGUGUG--UGUGUGCGCGC
.....(((((((((((.((.......((((((((......(((.(((((((....))))))-----).))).....))))))))..)).))--))))))))).. ( -40.80)
>DroAna_CAF1 22560 83 - 1
UAAGAGCGCACAUGCGGGCCUAUAUAAUGCAUAUCCUUAAUGGAUAUAUGUACA--UAUAU-----CCUCAUACAUAU------------A--UGUCUGCCCAC
.......((....))((((.......((..((((((.....))))))..))(((--(((((-----........))))------------)--)))..)))).. ( -20.60)
>consensus
UUAGAGCGCACAUGCGGGCCUAUAUAAUGCACGUCCUUAAUGGACAUAUGUAUGGAUAUAU_____GGCCACUCAUAUGUGC_UGCGUGUG__UGUCUGCGCGC
.....((((.((..((((((............((((.....))))((((((....)))))).....))))...(((((((....)))))))..))..)).)))) (-14.19 = -16.70 +   2.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:50 2006