Locus 2751

Sequence ID	3R_DroMel_CAF1
Location	7,362,564 – 7,362,696
Length	132
Max. P	0.797053

overview

Window 1

Location	7,362,564 – 7,362,673
Length	109
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	84.53
Mean single sequence MFE	-23.36
Consensus MFE	-14.98
Energy contribution	-15.14
Covariance contribution	0.16
Combinations/Pair	1.15
Mean z-score	-1.98
Structure conservation index	0.64
SVM decision value	0.20
SVM RNA-class probability	0.630728
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7362564 109 - 27905053
GAC-AAAACUUUUGGCUUAUUUCUCUAUUGCCAGAGAGAUGUCAUAAAGUUCAGUCCGUAACACAAAUAGAGCAAUUUUCGCUUUGAAAAAAAUCGAAAAAAAUGGGUUG
(((-..((((((((((..((((((((......)))))))))))).))))))..)))...........((((((.......)))))).....((((.(......).)))). ( -22.40)
>DroSec_CAF1 38460 109 - 1
GACCAAAACUUUUGGCGUAUUUCUCUAUUGUUAGAGAGAUGUCAUAAAGUUCAGUCCAUAACACAAAUAGAGCAAUUUUCACUUUGAAAAAAAUUGAAA-AAAUGGCUUG
(((...((((((((((((...((((((....)))))).)))))).))))))..))).............((((..((((((.(((.....))).)))))-)....)))). ( -26.00)
>DroSim_CAF1 43980 109 - 1
GACCAAAACUUUUGGCGUUUUUCUCUAUUGCCAGAGAAAUGUCAUAAAGUUCAGUCCAUAACACAAAUAGAGCAAUUUUCACUUUGAAAAAAAUCGAAA-AAAUGGCUUG
(((...((((((((((((((((((........)))))))))))).))))))..))).............((((.(((((...(((((......))))))-)))).)))). ( -24.80)
>DroEre_CAF1 42148 100 - 1
-ACAAAAACUUUUGGCAUAUUUCUCUAUCGCCGGAGAGAUGUCAUAAAGCUUAGUCUAUUAGGCAAAUAGAGCAAUUUUCGCUUGGAAAAAA---------AAUGGCUUG
-............(((((((((((((......))))))))))(((...((((((....)))))).....((((.......))))........---------.)))))).. ( -19.60)
>DroYak_CAF1 43422 101 - 1
-ACAAAAAUUUUUGGCAUAUUUCUCUAUCGCCAGAGAGAUGUCAUAAAGUUUAGUCUAUGAGCCAAAUAGAGCAAUUUUCGCUUGGAAAAAA-U-------CAUGACUUG
-....(((((((((((((...(((((......))))).)))))).)))))))((((.((((........((((.......))))........-)-------))))))).. ( -23.99)
>consensus
GACAAAAACUUUUGGCAUAUUUCUCUAUUGCCAGAGAGAUGUCAUAAAGUUCAGUCCAUAACACAAAUAGAGCAAUUUUCGCUUUGAAAAAAAU_GAAA_AAAUGGCUUG
(((...(((((((((((..(((((((......)))))))))))).))))))..)))...................(((((.....))))).................... (-14.98 = -15.14 +   0.16)

alignment

secondary structure

dotplot

Window 2

Location	7,362,604 – 7,362,696
Length	92
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	89.67
Mean single sequence MFE	-19.48
Consensus MFE	-15.10
Energy contribution	-15.26
Covariance contribution	0.16
Combinations/Pair	1.16
Mean z-score	-1.80
Structure conservation index	0.78
SVM decision value	0.60
SVM RNA-class probability	0.797053
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7362604 92 - 27905053
AAGUGAAAACUUUUUAUUUCGUCGAC-AAAACUUUUGGCUUAUUUCUCUAUUGCCAGAGAGAUGUCAUAAAGUUCAGUCCGUAACACAAAUAG
((((....))))...........(((-..((((((((((..((((((((......)))))))))))).))))))..))).............. ( -20.00)
>DroSec_CAF1 38499 93 - 1
AAGUGAAAACUUUUUAUUUCGUCGACCAAAACUUUUGGCGUAUUUCUCUAUUGUUAGAGAGAUGUCAUAAAGUUCAGUCCAUAACACAAAUAG
((((....))))...........(((...((((((((((((...((((((....)))))).)))))).))))))..))).............. ( -20.60)
>DroSim_CAF1 44019 93 - 1
AAGUGAAAACUUUUUAUUUCGUCGACCAAAACUUUUGGCGUUUUUCUCUAUUGCCAGAGAAAUGUCAUAAAGUUCAGUCCAUAACACAAAUAG
((((....))))...........(((...((((((((((((((((((........)))))))))))).))))))..))).............. ( -20.50)
>DroEre_CAF1 42179 92 - 1
AAGUAAAAACUUUUUAUUUCGUC-ACAAAAACUUUUGGCAUAUUUCUCUAUCGCCGGAGAGAUGUCAUAAAGCUUAGUCUAUUAGGCAAAUAG
(((((((.....))))))).(((-(.((....)).))))((((((((((......))))))))))......((((((....))))))...... ( -16.30)
>DroYak_CAF1 43454 92 - 1
AAGUGAAAACUUUUUAUUUCGUC-ACAAAAAUUUUUGGCAUAUUUCUCUAUCGCCAGAGAGAUGUCAUAAAGUUUAGUCUAUGAGCCAAAUAG
((((....))))...........-.........((((((.(((((((((......)))))))))(((((..........)))))))))))... ( -20.00)
>consensus
AAGUGAAAACUUUUUAUUUCGUCGACAAAAACUUUUGGCAUAUUUCUCUAUUGCCAGAGAGAUGUCAUAAAGUUCAGUCCAUAACACAAAUAG
((((....))))...........(((...(((((((((((..(((((((......)))))))))))).))))))..))).............. (-15.10 = -15.26 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:01 2006