Locus 3389

Sequence ID 3L_DroMel_CAF1
Location 9,929,513 – 9,929,611
Length 98
Max. P 0.628330
window5297

overview

Window 7

Location 9,929,513 – 9,929,611
Length 98
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 77.29
Mean single sequence MFE -28.55
Consensus MFE -20.58
Energy contribution -20.84
Covariance contribution 0.25
Combinations/Pair 1.19
Mean z-score -1.03
Structure conservation index 0.72
SVM decision value 0.19
SVM RNA-class probability 0.628330
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9929513 98 - 23771897
GCCAUCGACAGGUUGUCCAGCUUCAACUUGUUCCUCUGCUGCCGAUCGAUGGCCUCUAGCAUUUGCUGCAGCACCUGUUG--GC--CCAA-GAACAU--CAUUAG
((((((((..((.....((((................))))))..))))))))..((((((..(((....)))..)))))--).--....-......--...... ( -27.19)
>DroVir_CAF1 81559 95 - 1
GCCAUCGAUAGGUUGUCCAGCUUCAAUUUGUUGCGCUGCUGACGAUCGAUGGCCUCCAGCAUUUGCUGCAGCACCUGCAAUAUGGACGAU-GGCCA---------
(((((((...(((((((((((..(((....))).))))..))))))).......((((((....))(((((...)))))...))))))))-)))..--------- ( -34.50)
>DroEre_CAF1 84273 98 - 1
GCCAUCGACAGGUUGUCCAGCUUCAACUUGUUCCUCUGCUGCCGAUCGAUGGCCUCCAGCAUCUGCUGCAGCACCUGGAA--GC--CCGA-AAACAC--CAUUAG
....(((((((((((........))))))))(((..((((((.(...((((........))))..).))))))...))).--..--.)))-......--...... ( -27.10)
>DroWil_CAF1 124706 90 - 1
GCCAUCGAUAGGUUGUCCAAUUUCAAUUUGUUGCGUUGCUGCCGAUCGAUGGCCUCCAACAUUUGCUGCAGCACCUGGGG--AC-------GAAAA-A-----GG
(((((((((.(((.(((((((........)))).)..)).))).)))))))))(((((.....(((....)))..)))))--..-------.....-.-----.. ( -27.80)
>DroMoj_CAF1 82453 93 - 1
GCCAUCGACAGAUUGUCCAGCUUCAAUUUGUUGCGCUGCUGCCGAUCGAUGGCCUCCAGCAUUUGCUGCAGCACCUGAAAC------GACAUGCCA-----C-AA
(((((((((((((((........)))))))(((.((....)))))))))))))((.((((....)))).))..........------.........-----.-.. ( -26.50)
>DroPer_CAF1 82800 102 - 1
GCCAUCGACAGGUUGUCCAGCUUCAAUUUAUUCCGCUGCUGUCGAUCGAUGGCCUCCAGCAUCUGCUGCAGUACCUGACAUAAG--AGAG-GAACAGAGUGCUAG
((((((((..((..(..((((.............)))))..))..))))))))...((((....)))).((((((((.(.....--...)-...))).))))).. ( -28.22)
>consensus
GCCAUCGACAGGUUGUCCAGCUUCAAUUUGUUCCGCUGCUGCCGAUCGAUGGCCUCCAGCAUUUGCUGCAGCACCUGAAA__AC__CGAA_GAACA_______AG
((((((((..(((....((((.............))))..)))..))))))))((.((((....)))).)).................................. (-20.58 = -20.84 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:56 2006