Locus 7650

Sequence ID	X_DroMel_CAF1
Location	19,062,034 – 19,062,244
Length	210
Max. P	0.998932

overview

Window 6

Location	19,062,034 – 19,062,148
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.13
Mean single sequence MFE	-42.64
Consensus MFE	-38.34
Energy contribution	-38.22
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-2.22
Structure conservation index	0.90
SVM decision value	3.29
SVM RNA-class probability	0.998932
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19062034 114 + 22224390
AACGAAGCGAAAGUGAUGGCCUCACGUUGGGCGCCAUUUGGUGAAUCAGA------UAGUUCCACGUUGGGCGCCACCUAAUGGACCAGAUAAAUGGAUCGAUAGGAGGCCAAGGCGUUA
((((..((....))..(((((((..((((((((((...((..((((....------..))))..))...)))))).((....)).(((......)))..))))..)))))))...)))). ( -42.80)
>DroSec_CAF1 13917 114 + 1
AACGAAGCGAAAGUGAUGGCCCCACGUUGGGCGCCAUUUGCUGGUUCAGA------UAGUCCCACGUUGGGCGCCACCUAAUGGACCAGAUAAAUGGAUCGAUAGGAGGCCAAGGCGUUG
((((..((....))..(((((((..(((((...(((((((((((((((..------..(((((.....))).)).......)))))))).))))))).))))).)).)))))...)))). ( -43.80)
>DroSim_CAF1 15366 114 + 1
AACGAAGCGAAAGUGAUGGCCCCACGUUGGGCGCCAUUUGCUGGAUCAGA------UAGUCGCACGUUGGGCGCCACCUAAUGGACCAGAUAAAUGGAUCGAUAGGAGGCCAAGGCGUUG
((((..((....))..(((((((..(((((...(((((((((((.((.(.------....)...(((((((.....))))))))))))).))))))).))))).)).)))))...)))). ( -41.10)
>DroEre_CAF1 14248 120 + 1
AACGAAGCGAAAGUGAUGGCCCCACGUUGGGCGCCAUUUGGUGGACCAGAGCAAAGUAGUCCCACGUUGGGCGCCACUUAAUGGAGCAGAUAAAUGGAUCGAUAGGAGGCCAAGGCGUUA
((((..((....))..(((((((.(((((((((((...((..((((............))))..))...))))))...))))).....(((......)))....)).)))))...)))). ( -39.30)
>DroYak_CAF1 15414 114 + 1
AACGAAGCGAAAGUGAUGGCCCCACGUUGGGCGCCACUUGUUGGACCUGA------UAGUCCCACGUUGGGCGCCACCUAAUGGACCAGAUAAAUGGAUCGAUAGGAGGCCAAGGCGUUA
((((..((....))..(((((........((((((...(((.((((....------..)))).)))...)))))).((((.(((.(((......))).))).)))).)))))...)))). ( -46.20)
>consensus
AACGAAGCGAAAGUGAUGGCCCCACGUUGGGCGCCAUUUGCUGGAUCAGA______UAGUCCCACGUUGGGCGCCACCUAAUGGACCAGAUAAAUGGAUCGAUAGGAGGCCAAGGCGUUA
((((..((....))..(((((........((((((...((..((((............))))..))...)))))).((((.(((.(((......))).))).)))).)))))...)))). (-38.34 = -38.22 +  -0.12)

alignment

secondary structure

dotplot

Window 7

Location	19,062,148 – 19,062,244
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	92.81
Mean single sequence MFE	-30.54
Consensus MFE	-24.66
Energy contribution	-24.62
Covariance contribution	-0.04
Combinations/Pair	1.15
Mean z-score	-1.55
Structure conservation index	0.81
SVM decision value	0.41
SVM RNA-class probability	0.725546
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19062148 96 + 22224390
CCUGCGGAGCAUGGUGUCACGAUCCGGUCGAUUGGGAAAACAAUAGAAUUGCAGUGUGCAAUCACUGCAUUUGGAUCUGUCUCAAGACAUGUCGCA
...(((..(((((.((..(((((((((((.((((......)))).))..(((((((......))))))).))))))).))..))...)))))))). ( -32.70)
>DroSec_CAF1 14031 96 + 1
CCUGCGGAGCAGGGUGUCACGAUCCGGCCGAUUGGGAAAACAAUAGAAUUGCAGUGUGCAAUCACUGCAUUUGGAUCUGUCUCAAGACAUGUCGCA
(((((...)))))(((.((.(((((((...((((......)))).....(((((((......))))))).)))))))((((....)))))).))). ( -33.90)
>DroSim_CAF1 15480 96 + 1
CCUGCGGAGCAGGGUGUCACGAUCCGGCCGAUUGGGAAAACAAUAGAAUUGCAGUGUGCAAUCACUGCAUUUGGAUCUGUCUCAAGACAUGUCGCA
(((((...)))))(((.((.(((((((...((((......)))).....(((((((......))))))).)))))))((((....)))))).))). ( -33.90)
>DroEre_CAF1 14368 96 + 1
CCUGCGGAGCAGAGUGUCGCGAUCUGGCCGAUUCGGAAAACAAUAGAAUUGCAGUGCGCAAUCACUGCAUUUGGAUAUGUCUCAACAGAUGUCGCA
.((((...))))......((((((((.(((...)))...(((((..((.(((((((......))))))).))..)).))).....))))..)))). ( -24.90)
>DroYak_CAF1 15528 96 + 1
CCUGCCAAGCAGUGUGUCACGAUCCGGCCGAUUGGAAAAACAAUAGAAUUGCAGUGUGCAAUCACUGCAUCUGGAUCUGUUCCAAGAGAUGUCGCA
.((((...))))((((.((.(((((((...((((......)))).....(((((((......))))))).)))))))...((.....)))).)))) ( -27.30)
>consensus
CCUGCGGAGCAGGGUGUCACGAUCCGGCCGAUUGGGAAAACAAUAGAAUUGCAGUGUGCAAUCACUGCAUUUGGAUCUGUCUCAAGACAUGUCGCA
...((((.......((..(((((((((...((((......)))).....(((((((......))))))).))))))).))..)).......)))). (-24.66 = -24.62 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:18 2006