Locus 7376

Sequence ID	3L_DroMel_CAF1
Location	19,805,518 – 19,805,635
Length	117
Max. P	0.915160

overview

Window 0

Location	19,805,518 – 19,805,635
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.54
Mean single sequence MFE	-38.34
Consensus MFE	-29.87
Energy contribution	-29.67
Covariance contribution	-0.20
Combinations/Pair	1.05
Mean z-score	-2.00
Structure conservation index	0.78
SVM decision value	0.97
SVM RNA-class probability	0.893071
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19805518 117 + 23771897
UUAUCUACUGCCAUUCCAGUGUGGCUUCUUUAUUGCAUGUG--UUUUCAUGUGCAUGGGUAUUUGCGUCUCCGCCGCCAAUGACGUCACAAUAGAAAAGCUAACCGAAUGGGGUGG-CAG
.......(((((((((((...((((((.(((((((((((..--(......)..))))(((....(((....))).)))..........))))))).))))))......))))))))-))) ( -41.00)
>DroSec_CAF1 14114 108 + 1
UUAUCUACUGCCAUUCCAGUGUGGCUUCUUUAU------------UUCAUGUGCAUGGGUAUUUGCGUCUCCGCCGCCAGUGACGUCACAAUAGAAAAGCUCACCGAAUGGGGUGGCCAG
.......(((((((((((..(((((((.(((((------------(..((((.(((.(((....(((....))).))).)))))))...)))))).)))).)))....)))))))).))) ( -34.90)
>DroSim_CAF1 35099 108 + 1
UUAUCUACUGCCAUUCCAGUGUGGCUUCUUUAU------------UUCAUGUGCAUGGGUAUUUGCGUCUCCGCCGCCAGUGACGUCACAAUAGAAAAGCUCACCGAAUGGGGUGGCCAG
.......(((((((((((..(((((((.(((((------------(..((((.(((.(((....(((....))).))).)))))))...)))))).)))).)))....)))))))).))) ( -34.90)
>DroEre_CAF1 7888 120 + 1
UUAUCUGCUGCCAUUCCAGUGUGGCUUCUUUAUUUCAUGUGCAUUUACAUGUGCAUGGGUAUUUGCGUCUCCGCCGCCAGUGACGUCACAAUAGAAAAGCUCAUCGAAUGGGGUGGGCAG
....((((..((((((((..(((((((.((((((.((((..(((....)))..))))(((....(((....))).))).(((....))))))))).)))).)))....)))))))))))) ( -40.30)
>DroYak_CAF1 16476 120 + 1
UUAUCUGCUGCCAUUCCAGUGUGGCUUCUUUAUUUCAUGUGUGUUUUCAUGUGCAUGGGUAUUUGCGUCUCCGCCGCCAGUGACGUCACAAUAGAAAAGCUCAUCGACUGGGGUGGGCAG
....((((..(((((((((((((((((.((((((.((((..(((....)))..))))(((....(((....))).))).(((....))))))))).)))).)))..)))))))))))))) ( -40.60)
>consensus
UUAUCUACUGCCAUUCCAGUGUGGCUUCUUUAUU_CAUGUG__UUUUCAUGUGCAUGGGUAUUUGCGUCUCCGCCGCCAGUGACGUCACAAUAGAAAAGCUCACCGAAUGGGGUGGCCAG
.......(((((((((((..(((((((.(((((................((((.(((..((((.(((.......))).)))).)))))))))))).)))).)))....)))))))).))) (-29.87 = -29.67 +  -0.20)

alignment

secondary structure

dotplot

Window 1

Location	19,805,518 – 19,805,635
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.54
Mean single sequence MFE	-34.26
Consensus MFE	-27.15
Energy contribution	-27.75
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.79
SVM decision value	1.10
SVM RNA-class probability	0.915160
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19805518 117 - 23771897
CUG-CCACCCCAUUCGGUUAGCUUUUCUAUUGUGACGUCAUUGGCGGCGGAGACGCAAAUACCCAUGCACAUGAAAA--CACAUGCAAUAAAGAAGCCACACUGGAAUGGCAGUAGAUAA
(((-(((..(((....((..((((((.((((((...(((((.((..(((....))).....)).))).))(((....--..))))))))).)))))).))..)))..))))))....... ( -34.60)
>DroSec_CAF1 14114 108 - 1
CUGGCCACCCCAUUCGGUGAGCUUUUCUAUUGUGACGUCACUGGCGGCGGAGACGCAAAUACCCAUGCACAUGAA------------AUAAAGAAGCCACACUGGAAUGGCAGUAGAUAA
...((((..(((....(((.((((((.(((((((.(((.....)))(((....)))...........))))....------------))).)))))))))..)))..))))......... ( -33.10)
>DroSim_CAF1 35099 108 - 1
CUGGCCACCCCAUUCGGUGAGCUUUUCUAUUGUGACGUCACUGGCGGCGGAGACGCAAAUACCCAUGCACAUGAA------------AUAAAGAAGCCACACUGGAAUGGCAGUAGAUAA
...((((..(((....(((.((((((.(((((((.(((.....)))(((....)))...........))))....------------))).)))))))))..)))..))))......... ( -33.10)
>DroEre_CAF1 7888 120 - 1
CUGCCCACCCCAUUCGAUGAGCUUUUCUAUUGUGACGUCACUGGCGGCGGAGACGCAAAUACCCAUGCACAUGUAAAUGCACAUGAAAUAAAGAAGCCACACUGGAAUGGCAGCAGAUAA
((((.....((((((.(((.((((((.(((((((.(((.....)))(((....)))...))).((((..(((....)))..)))).)))).))))))))...).))))))..)))).... ( -33.80)
>DroYak_CAF1 16476 120 - 1
CUGCCCACCCCAGUCGAUGAGCUUUUCUAUUGUGACGUCACUGGCGGCGGAGACGCAAAUACCCAUGCACAUGAAAACACACAUGAAAUAAAGAAGCCACACUGGAAUGGCAGCAGAUAA
(((((((..(((((.(.((.((((((.(((((((.(((.....)))(((....))).......)))...((((........)))).)))).))))))))))))))..)))..)))).... ( -36.70)
>consensus
CUGCCCACCCCAUUCGGUGAGCUUUUCUAUUGUGACGUCACUGGCGGCGGAGACGCAAAUACCCAUGCACAUGAAAA__CACAUG_AAUAAAGAAGCCACACUGGAAUGGCAGUAGAUAA
(((.(((..(((....(((.((((((.(((((((.(((.....)))(((....)))...........))))................))).)))))))))..)))..))))))....... (-27.15 = -27.75 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:23 2006