Locus 826

Sequence ID	X_DroMel_CAF1
Location	2,309,906 – 2,310,070
Length	164
Max. P	0.943040

overview

Window 6

Location	2,309,906 – 2,310,013
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	82.28
Mean single sequence MFE	-30.44
Consensus MFE	-24.26
Energy contribution	-23.94
Covariance contribution	-0.32
Combinations/Pair	1.17
Mean z-score	-2.15
Structure conservation index	0.80
SVM decision value	1.33
SVM RNA-class probability	0.943040
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2309906 107 + 22224390
CAUUGUGGCCAAAAUUGCGAUGGCAA------UAUGUUGCUAGUUCCCAACAUGACGU--CCAUUGUUGCUCGUCUGGCAACAUGCCGCUUCUGUGUAUUACC-----AACUAUUACGAA
(((.(((((....(((((....))))------)((((((((((....(((((((....--.)).))))).....)))))))))))))))....))).......-----............ ( -30.10)
>DroSec_CAF1 7883 107 + 1
CAUUGUGGCCAAAAUUGCGCAGGCAA------UAUGUUGCUAGUUCCCAACAUGACGU--CCAUUGUUGCUCGUCUGGCAACAUGCCGCCGCUGUGUAUUACC-----AACUAUUACGAA
(((.(((((....(((((....))))------)((((((((((....(((((((....--.)).))))).....))))))))))...))))).))).......-----............ ( -31.90)
>DroSim_CAF1 8688 107 + 1
CAUUGUGGCCAAAAUUGCGCAGGCAA------UAUGUUGCUAGUUCCCAACAUGACGU--CCAUUGUUGCUCGUCUGGCAACAUGCCGCCGCUGUGUAUUACC-----AACUAUUACGAG
(((.(((((....(((((....))))------)((((((((((....(((((((....--.)).))))).....))))))))))...))))).))).......-----............ ( -31.90)
>DroEre_CAF1 9141 113 + 1
UUUUGUGGCUAAAAUGGCUUAGGCAUUUUACUUAUGUUGCUAGUUUCUAACAUGACGU--CUAUUGUUGUUCGUCUGGCAACAUGCCGCUGCCGUGUAUUACC-----AACUAUUACCCA
.....(((.(((.(((((...((((.........(((((((((...(.((((..(((.--....))))))).).)))))))))))))...)))))...)))))-----)........... ( -29.80)
>DroYak_CAF1 8791 116 + 1
UAUUGUGGCUUAAAU----AAGGCAUUUUACUUAUGUUGCUAGUUCCUAACAUGUUGUUUCCAUUGUUAUUUGGCUAGCAACAUGCCGCUGCUGUGUGUUACCAUUACAACUAUUACCCA
....(((((....((----(((........)))))((((((((((..(((((...((....)).)))))...))))))))))..))))).....((((.......))))........... ( -28.50)
>consensus
CAUUGUGGCCAAAAUUGCGAAGGCAA______UAUGUUGCUAGUUCCCAACAUGACGU__CCAUUGUUGCUCGUCUGGCAACAUGCCGCUGCUGUGUAUUACC_____AACUAUUACGAA
....(((((.......((....)).........((((((((((....(((((((.......)).))))).....)))))))))))))))............................... (-24.26 = -23.94 +  -0.32)

alignment

secondary structure

dotplot

Window 7

Location	2,309,978 – 2,310,070
Length	92
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	89.00
Mean single sequence MFE	-28.23
Consensus MFE	-19.18
Energy contribution	-19.22
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.04
Structure conservation index	0.68
SVM decision value	-0.01
SVM RNA-class probability	0.528716
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2309978 92 - 22224390
UAUGUG-------GCCAACACAAAUUGCAUGUUGUCAAUGGAGGCAAUCAAUGUUUGAUUGC--AGUUCGUAAUAGUU-----GGUAAUACACAGAAGCGGCAUGU
..((((-------.....))))....(((((((((..(((((.(((((((.....)))))))--..))))).....((-----(........)))..))))))))) ( -24.70)
>DroSec_CAF1 7955 94 - 1
UAUGUG-------GUCAGCACAAAUUGCAUGUUGUCAAUGGAGGCAAUCAAUGUUUGAUUGCACAGUUCGUAAUAGUU-----GGUAAUACACAGCGGCGGCAUGU
..((((-------.....))))....((((((((((.(((((.(((((((.....)))))))....)))))....(((-----(........)))))))))))))) ( -29.90)
>DroSim_CAF1 8760 94 - 1
UAUGUG-------GCCAACACAAAUUGCAUGUUGUCAAUGGAGGCAAUCAAUGUUUGAUUGCACAGCUCGUAAUAGUU-----GGUAAUACACAGCGGCGGCAUGU
..((((-------.....))))....((((((((((....((((((((((.....)))))))....)))......(((-----(........)))))))))))))) ( -30.30)
>DroEre_CAF1 9219 92 - 1
UCUGUG-------GCCAACACAAAUUGCAUGUUGUCAAUGGAGGCAAUCAAUGUUUGAUUGC--AGUGGGUAAUAGUU-----GGUAAUACACGGCAGCGGCAUGU
..((((-------.....))))...(((.(((((((.......(((((((.....)))))))--.(((..........-----.......)))))))))))))... ( -25.63)
>DroYak_CAF1 8867 104 - 1
UCUGUGGCUGGUGGCCAACACAAAUUGCAUGUUGUCAAUGGAGGCAAUCAAUGUUUGAUUGC--AGUGGGUAAUAGUUGUAAUGGUAACACACAGCAGCGGCAUGU
.((((.(((((((((((..((((......((((..(.((....(((((((.....)))))))--.)).)..)))).))))..))))..))).)))).))))..... ( -30.60)
>consensus
UAUGUG_______GCCAACACAAAUUGCAUGUUGUCAAUGGAGGCAAUCAAUGUUUGAUUGC__AGUUCGUAAUAGUU_____GGUAAUACACAGCAGCGGCAUGU
..((((............))))....(((((((((...((...(((((((.....))))))).......(((.((.(......).)).))).))...))))))))) (-19.18 = -19.22 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:44 2006