Locus 3805

Sequence ID	X_DroMel_CAF1
Location	10,097,732 – 10,097,830
Length	98
Max. P	0.715772

overview

Window 7

Location	10,097,732 – 10,097,830
Length	98
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	77.54
Mean single sequence MFE	-26.17
Consensus MFE	-15.54
Energy contribution	-18.30
Covariance contribution	2.76
Combinations/Pair	1.11
Mean z-score	-1.79
Structure conservation index	0.59
SVM decision value	0.39
SVM RNA-class probability	0.715772
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10097732 98 + 22224390
AUGCACCUGUGCGCUGAUGGGGU-UUACCUGGCAGGUCGAUUAAUGACUUGGCCUUAAUGAAAAAUUAACCAUUUUAAUUUGAGGCCAACGCAGAAGCA
.(((..(((((..(((..(((..-...)))..)))((((.....))))((((((((((...(((((.....)))))...)))))))))))))))..))) ( -30.50)
>DroSec_CAF1 15746 98 + 1
AUGCACCUGUGCGCUGGUGGGUU-UUACCUGGCAGGUCGAUUAAUGACUUUGCCUUAAUGAAAAAUUAACCAUUUUAAUUUGAGGCCAACGCAGAAGCA
.(((..(((((..(((.((((..-...)))).)))((((.....))))...(((((((...(((((.....)))))...)))))))...)))))..))) ( -26.10)
>DroEre_CAF1 20057 98 + 1
AUGCACCUGUGUGCUGGUGGGGC-UUACCUUGCAGGUCGAUUAAUGACUUGGCCUUAAUGAAAAAUUAAGCAUUUUAAUUUGAGGCCAACGCAAAAGCA
.(.((((........)))).)((-((...((((((((((.....))))))((((((((...(((((.....)))))...))))))))...)))))))). ( -29.30)
>DroYak_CAF1 13281 99 + 1
AUGCACCUGUGUGCUGGUGGGGUUUUAGCUGGCAGGUCGAUUAAUGACAUGGCCUUAAUGAAAAAUUAACCAUUUUAAUUUGAGGUCAACGAAGAAGCA
.(((((((((..(((((.......)))))..))))))............(((((((((...(((((.....)))))...)))))))))........))) ( -26.30)
>DroAna_CAF1 25530 74 + 1
AUGCAC-UGCCCCCUAAUGGG------------------------GACUUGGUCCUCAUAAAAAAUUAAACAUCUUGGCUUGAGGCCAUGCCAACAGCC
..(((.-...((((....)))------------------------)...(((.(((((......................)))))))))))........ ( -18.65)
>consensus
AUGCACCUGUGCGCUGGUGGGGU_UUACCUGGCAGGUCGAUUAAUGACUUGGCCUUAAUGAAAAAUUAACCAUUUUAAUUUGAGGCCAACGCAGAAGCA
..((..(((((..(((.((((......)))).)))..............(((((((((...(((((.....)))))...))))))))).)))))..)). (-15.54 = -18.30 +   2.76)

alignment

secondary structure

dotplot

Window 8

Location	10,097,732 – 10,097,830
Length	98
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	77.54
Mean single sequence MFE	-23.96
Consensus MFE	-11.21
Energy contribution	-12.04
Covariance contribution	0.83
Combinations/Pair	1.23
Mean z-score	-1.97
Structure conservation index	0.47
SVM decision value	0.38
SVM RNA-class probability	0.714934
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10097732 98 - 22224390
UGCUUCUGCGUUGGCCUCAAAUUAAAAUGGUUAAUUUUUCAUUAAGGCCAAGUCAUUAAUCGACCUGCCAGGUAA-ACCCCAUCAGCGCACAGGUGCAU
.((((.(((((((((((........(((((........)))))..(((...(((.......)))..)))))))..-.......))))))).)))).... ( -23.00)
>DroSec_CAF1 15746 98 - 1
UGCUUCUGCGUUGGCCUCAAAUUAAAAUGGUUAAUUUUUCAUUAAGGCAAAGUCAUUAAUCGACCUGCCAGGUAA-AACCCACCAGCGCACAGGUGCAU
.((((.((((((((...........(((((........)))))..((((..(((.......))).)))).((...-...)).)))))))).)))).... ( -26.40)
>DroEre_CAF1 20057 98 - 1
UGCUUUUGCGUUGGCCUCAAAUUAAAAUGCUUAAUUUUUCAUUAAGGCCAAGUCAUUAAUCGACCUGCAAGGUAA-GCCCCACCAGCACACAGGUGCAU
.((((((((.(((((((......(((((.....)))))......)))))))(((.......)))..))))...))-)).......((((....)))).. ( -24.90)
>DroYak_CAF1 13281 99 - 1
UGCUUCUUCGUUGACCUCAAAUUAAAAUGGUUAAUUUUUCAUUAAGGCCAUGUCAUUAAUCGACCUGCCAGCUAAAACCCCACCAGCACACAGGUGCAU
.(((.....(((((((............)))))))..........(((...(((.......)))..)))))).............((((....)))).. ( -19.20)
>DroAna_CAF1 25530 74 - 1
GGCUGUUGGCAUGGCCUCAAGCCAAGAUGUUUAAUUUUUUAUGAGGACCAAGUC------------------------CCCAUUAGGGGGCA-GUGCAU
........(((((((((((....(((((.....)))))...))))).))..(((------------------------(((....)))))).-)))).. ( -26.30)
>consensus
UGCUUCUGCGUUGGCCUCAAAUUAAAAUGGUUAAUUUUUCAUUAAGGCCAAGUCAUUAAUCGACCUGCCAGGUAA_ACCCCACCAGCGCACAGGUGCAU
.((.((((.((((((((......(((((.....)))))......))))))............(((.....)))..............)).)))).)).. (-11.21 = -12.04 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:07 2006