Locus 1272

Sequence ID 3L_DroMel_CAF1
Location 3,674,530 – 3,674,634
Length 104
Max. P 0.664581
window1988

overview

Window 8

Location 3,674,530 – 3,674,634
Length 104
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.90
Mean single sequence MFE -30.86
Consensus MFE -18.47
Energy contribution -18.33
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -2.19
Structure conservation index 0.60
SVM decision value 0.28
SVM RNA-class probability 0.664581
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3674530 104 + 23771897
------------UAU--GUUCAGGCCAC-UUCUAAAGUGGCUAAUUGUGUUAGAGCAUAAUUUACACGUUGUGUUUUCGGUUGCCCCC-AACAAGGCACAUGGACAUGUGCCUGCCACAA
------------...--.....((((((-(.....)))))))..(((((..((((((((((......))))))))))..((((....)-))).((((((((....))))))))..))))) ( -34.10)
>DroVir_CAF1 78201 100 + 1
------------CAA-ACUAAAGCCAAC-UUCUAAAGUGGCUAAUUGUGUUAUGGCAUAAUUUACACGUUGUGUUUUCGGUUGCCACU-AACAAGGCGC-UGGACAUGUGC----CACUA
------------...-.....(((((.(-(.....))))))).....((((((((((......((((...)))).......))))).)-)))).(((((-.......))))----).... ( -27.92)
>DroGri_CAF1 49681 100 + 1
------------GAG-ACUAAAGCCAAC-UUCUAAAGUGGCUAAUUGUGUUAUGGCAUAAUUUACACGUUGUGUUUUCGGUUGCCAUG-AACAAGGCGC-UGGACAUGUGC----CACUA
------------...-.....(((((.(-(.....)))))))..((((.((((((((......((((...)))).......)))))))-)))))(((((-.......))))----).... ( -29.92)
>DroWil_CAF1 90095 112 + 1
GGCGCAGGUAACUAG--GUACAGUCAGCAGUCUAAAGUGGCUAAUUGUGUUAUAGCAUAAUUUACACGUUGUGUUUUCGGUUGCCAGU-UACAAGGCGC-UGGACAUGUGC----CACAA
((((((.(((.....--.))).((((((.((((.((.((((.(((((......((((((((......))))))))..))))))))).)-)...))))))-).))).)))))----).... ( -35.00)
>DroMoj_CAF1 80643 101 + 1
------------CAAAAGUAAAGCCAAC-UUCUAAAGUGGCUAAUUGUGUUAUGGCAUAAUUUACACGUUGUGUUUUCGGUUGCCACG-AACAAGGCGC-UGGACAUGUGC----CACUA
------------....(((..(((((.(-(.....)))))))..((((.(..(((((......((((...)))).......)))))..-)))))(((((-.......))))----)))). ( -27.12)
>DroPer_CAF1 135264 96 + 1
----------------------AGCCAC-UUCUAAAGUGGCUAAUUGUGUUAGAGCAUAAUUUACACGUUGUGUUUUCGGUUGCCCCCUAACAAGGCGC-UGGACAUGUGCCUGCCACAA
----------------------((((((-(.....)))))))..(((((.(((.(((((....((((...)))).((((((.(((.........)))))-))))..)))))))).))))) ( -31.10)
>consensus
____________CAA__GUAAAGCCAAC_UUCUAAAGUGGCUAAUUGUGUUAUAGCAUAAUUUACACGUUGUGUUUUCGGUUGCCACC_AACAAGGCGC_UGGACAUGUGC____CACAA
....................................(((...((((((((....))))))))..)))...((((((...((.(((.........)))))..))))))(((.....))).. (-18.47 = -18.33 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:32 2006