Locus 643

Sequence ID 3L_DroMel_CAF1
Location 1,905,860 – 1,905,955
Length 95
Max. P 0.969900
window984

overview

Window 4

Location 1,905,860 – 1,905,955
Length 95
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 74.31
Mean single sequence MFE -33.03
Consensus MFE -18.68
Energy contribution -18.18
Covariance contribution -0.49
Combinations/Pair 1.48
Mean z-score -2.13
Structure conservation index 0.57
SVM decision value 1.65
SVM RNA-class probability 0.969900
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1905860 95 - 23771897
CAGGGGCUU---GGCUCAAUAAUUUAAACAUGAUUAGGCCUGGCUGUGUUUUUACAGCC-UGCAGGAUCAGCGGUGAAACGCCCCGAGGACUUA----------GGCCA
....(((((---(((((.............(((((..((..(((((((....)))))))-.))..)))))(((......)))...)))...)))----------)))). ( -33.80)
>DroVir_CAF1 33159 83 - 1
CCGAGGCUC--AGAUACAAUAAUUUAAACAUGAUUAGGUCUGGUUGUGUUUUUACAGCCGUGCAAGG-----------CCGCCUCAAGGGCUUA----------AG---
..(((((..--........(((((.......)))))((((((((((((....))))))).....)))-----------))))))).........----------..--- ( -24.20)
>DroPse_CAF1 31574 94 - 1
CGGGGGUUU-CAGGCCCAAUAAUUUAAACAUGAUUAGGUCUGGUUGUGUUUUUACAGCC-UGCCAGCUCAUCGGAGCACCGCCCUGAGGGCUUA----------G---A
.((((((..-...))))...................(((..(((((((....)))))))-.))).((((....)))).))((((...))))...----------.---. ( -32.10)
>DroWil_CAF1 43005 98 - 1
CUUGGGCUCUGAGCCUCAAUAAUUUAAACAUGAUUAGGUCUGGUUGUGUUUUUACAGCC-UGCCUGAAAACCAG------GGCUCGAGGGCUUAUAU----CGGGACCA
(((((((((((....(((............)))((((((..(((((((....)))))))-.))))))....)))------))))))))(((((....----.))).)). ( -33.80)
>DroYak_CAF1 29041 95 - 1
CAGGGGCUU---GGCUCAAUAAUUUAAACAUGAUUAGGUCUGGUUGUGUUUUUACAGCC-UGCAGGAUCAGCGGCGAAACGCCCCGAGGACUUA----------GGCCA
....(((((---(((((.............(((((..((..(((((((....)))))))-.))..)))))(.((((...)))).))))...)))----------)))). ( -30.70)
>DroAna_CAF1 33184 106 - 1
CUAGGGCUC--GGGCUCAAUAAUUUAAACAUGAUUAGGUCUGGUUGUGUUUUCACAGCC-UGCCAGCUCAGCGGAGCAACGCCCCGAGGGCUUAUGGUGUCCUAGCCCA
...(((((.--((((.(.((((..............(((..(((((((....)))))))-.))).((((....))))...((((...)))))))).).)))).))))). ( -43.60)
>consensus
CAGGGGCUC__AGGCUCAAUAAUUUAAACAUGAUUAGGUCUGGUUGUGUUUUUACAGCC_UGCAAGAUCAGCGG_G_AACGCCCCGAGGGCUUA__________GGCCA
..(((((.....((((...(((((.......))))))))).(((((((....))))))).....................)))))........................ (-18.68 = -18.18 +  -0.49) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:27 2006