Locus 663

Sequence ID	2L_DroMel_CAF1
Location	1,964,699 – 1,964,799
Length	100
Max. P	0.999762

overview

Window 5

Location	1,964,699 – 1,964,799
Length	100
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	96.81
Mean single sequence MFE	-31.66
Consensus MFE	-29.26
Energy contribution	-29.66
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.62
Structure conservation index	0.92
SVM decision value	3.92
SVM RNA-class probability	0.999706
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1964699 100 + 22407834
AUGGACGAAAGCGAAAGGGCAGAGAUAAAAAAUCGCCACGACUGCAAAUGGGUAAAUUACUCCAUUUAGGGCUGUCGUGGGUUAAGCCAGGGUUGUCUG-G
..((((((...(....)(((...(((.....))).(((((((.(((((((((((...))).))))))...)).))))))).....)))....)))))).-. ( -33.30)
>DroSec_CAF1 7169 100 + 1
AUGGACGAAAGCGAAAGGGCAGAGAUAAAAAAUCGCCACGACUGCAAAUGGGUAAAUUACUCCAUUUAGGGCUGUCGUGGGUUAGGCCAGGGGUGUCUG-G
..(((((....(....)(((...(((.....))).(((((((.(((((((((((...))).))))))...)).))))))).....))).....))))).-. ( -31.80)
>DroSim_CAF1 11323 100 + 1
AUGGACGAAAGCGAAAGGGCAGAGAUAAAAAAUCGCCACGACUGCAAAUGGGUAAAUUACUCCAUUUAGGGCUGUCGUGGGUUAAGCCUGGGGUGUCUG-G
..(((((....(....)(((...(((.....))).(((((((.(((((((((((...))).))))))...)).))))))).....))).....))))).-. ( -31.50)
>DroEre_CAF1 16316 100 + 1
ACGGACGAAAGCGAAAGGGCAGAGAUAAAAAAUCGCCACGACUGCAAAUGGGUAAAUUACUCCAUUUAGGGCUGUCGUGGGUUAAGCAGGGGCUGUCUG-G
.(((((.....(....)(((...(((.....))).(((((((.(((((((((((...))).))))))...)).)))))))...........))))))))-. ( -32.10)
>DroYak_CAF1 14216 101 + 1
AUGGACGAAAGCGAAAGGGCAGAGAUAAAAAAUCGCCACGACUGCAAAUGGGUAAAUUACUCCAUUUAGGGCUGUCGUGGGUUAAGCAAGGGGUGUCUGUG
(((((((....(....).((...(((.....))).(((((((.(((((((((((...))).))))))...)).))))))).....))......))))))). ( -29.60)
>consensus
AUGGACGAAAGCGAAAGGGCAGAGAUAAAAAAUCGCCACGACUGCAAAUGGGUAAAUUACUCCAUUUAGGGCUGUCGUGGGUUAAGCCAGGGGUGUCUG_G
..(((((....(....)(((...(((.....))).(((((((.(((((((((((...))).))))))...)).))))))).....))).....)))))... (-29.26 = -29.66 +   0.40)

alignment

secondary structure

dotplot

Window 6

Location	1,964,699 – 1,964,799
Length	100
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	96.81
Mean single sequence MFE	-23.64
Consensus MFE	-22.97
Energy contribution	-22.97
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.32
Structure conservation index	0.97
SVM decision value	4.02
SVM RNA-class probability	0.999762
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1964699 100 - 22407834
C-CAGACAACCCUGGCUUAACCCACGACAGCCCUAAAUGGAGUAAUUUACCCAUUUGCAGUCGUGGCGAUUUUUUAUCUCUGCCCUUUCGCUUUCGUCCAU
(-(((......)))).......((((((.((...((((((.(((...))))))))))).))))))((((..................)))).......... ( -23.97)
>DroSec_CAF1 7169 100 - 1
C-CAGACACCCCUGGCCUAACCCACGACAGCCCUAAAUGGAGUAAUUUACCCAUUUGCAGUCGUGGCGAUUUUUUAUCUCUGCCCUUUCGCUUUCGUCCAU
(-(((......)))).......((((((.((...((((((.(((...))))))))))).))))))((((..................)))).......... ( -23.97)
>DroSim_CAF1 11323 100 - 1
C-CAGACACCCCAGGCUUAACCCACGACAGCCCUAAAUGGAGUAAUUUACCCAUUUGCAGUCGUGGCGAUUUUUUAUCUCUGCCCUUUCGCUUUCGUCCAU
.-...........(((.....(((((((.((...((((((.(((...))))))))))).))))))).(((.....)))...)))................. ( -23.50)
>DroEre_CAF1 16316 100 - 1
C-CAGACAGCCCCUGCUUAACCCACGACAGCCCUAAAUGGAGUAAUUUACCCAUUUGCAGUCGUGGCGAUUUUUUAUCUCUGCCCUUUCGCUUUCGUCCGU
.-..((.(((....((.....(((((((.((...((((((.(((...))))))))))).))))))).(((.....)))...))......))).))...... ( -23.80)
>DroYak_CAF1 14216 101 - 1
CACAGACACCCCUUGCUUAACCCACGACAGCCCUAAAUGGAGUAAUUUACCCAUUUGCAGUCGUGGCGAUUUUUUAUCUCUGCCCUUUCGCUUUCGUCCAU
....(((...............((((((.((...((((((.(((...))))))))))).))))))((((..................))))....)))... ( -22.97)
>consensus
C_CAGACACCCCUGGCUUAACCCACGACAGCCCUAAAUGGAGUAAUUUACCCAUUUGCAGUCGUGGCGAUUUUUUAUCUCUGCCCUUUCGCUUUCGUCCAU
....(((...............((((((.((...((((((.(((...))))))))))).))))))((((..................))))....)))... (-22.97 = -22.97 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:19 2006