Locus 6442

Sequence ID	3L_DroMel_CAF1
Location	17,224,300 – 17,224,418
Length	118
Max. P	0.987438

overview

Window 9

Location	17,224,300 – 17,224,418
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-26.48
Consensus MFE	-25.38
Energy contribution	-25.62
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.54
Structure conservation index	0.96
SVM decision value	1.30
SVM RNA-class probability	0.939349
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17224300 118 + 23771897
AAUCGGCAACGUGUCGCAUUUGUAGUUAGACAUAAUUGUUAAUUACCCGAAACCAUUACCACAUUAAAGGCCAUAAAAUGCAACACUAAUUGCUUUAUGCCACCUCUACGAGGCAGGG--
....(((((.((((.((((((((((((.((((....))))))))))............((........)).....)))))).))))...))))).....((.((((...))))..)).-- ( -25.10)
>DroSec_CAF1 107745 120 + 1
AAUCGGCAACGUGUCGCAUUUGUAGUUAGACAUAAUUGUUAAUUACCCGAAACCAUUACCACAUUAAAGGCCAUAAAAUGCAACACUAAUUGCUUUAUGCCACCUCUACGAGGCAGGGUC
....(((((.((((.((((((((((((.((((....))))))))))............((........)).....)))))).))))...)))))....(((.((((...))))...))). ( -26.40)
>DroSim_CAF1 101465 120 + 1
AAUCGGCAACGUGUCGCAUUUGUAGUUAGACAUAAUUGUUAAUUACCCGAAACCAUUACCACAUUAAAGGCCAUAAAAUGCAACACUAAUUGCUUUAUGCCACCUCUACGAGGCAGGGUC
....(((((.((((.((((((((((((.((((....))))))))))............((........)).....)))))).))))...)))))....(((.((((...))))...))). ( -26.40)
>DroEre_CAF1 111446 120 + 1
AAUCGGCAACGUGUCGCAUUUGUAGUUAGACAUAAUUGUUAAUUACCCGAAACCAUUACCACAUUAAAGGCCAUAAAAUGCAACACUAAUUGCUUUAUGCCACCUCUACGAGGCAGGGCA
....(((((.((((.((((((((((((.((((....))))))))))............((........)).....)))))).))))...)))))...((((.((((...))))...)))) ( -29.40)
>DroYak_CAF1 114152 120 + 1
AAUCGGCAACGUGUCGCAUUUGUAGUUAGACAUAAUUGUUAAUUACCCGAAACCAUUACCACAUUAAAGGCCAUAAAAUGCAACACUAAUUGCUUUAUGCCACCUCUACGAGGCAGGACA
....(((((.((((.((((((((((((.((((....))))))))))............((........)).....)))))).))))...)))))...((((.((((...))))..)).)) ( -25.10)
>consensus
AAUCGGCAACGUGUCGCAUUUGUAGUUAGACAUAAUUGUUAAUUACCCGAAACCAUUACCACAUUAAAGGCCAUAAAAUGCAACACUAAUUGCUUUAUGCCACCUCUACGAGGCAGGGCA
....(((((.((((.((((((((((((.((((....))))))))))............((........)).....)))))).))))...)))))....(((.((((...))))...))). (-25.38 = -25.62 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	17,224,300 – 17,224,418
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-33.58
Consensus MFE	-32.80
Energy contribution	-32.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.74
Structure conservation index	0.98
SVM decision value	2.08
SVM RNA-class probability	0.987438
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17224300 118 - 23771897
--CCCUGCCUCGUAGAGGUGGCAUAAAGCAAUUAGUGUUGCAUUUUAUGGCCUUUAAUGUGGUAAUGGUUUCGGGUAAUUAACAAUUAUGUCUAACUACAAAUGCGACACGUUGCCGAUU
--..(..((((...))))..)......(((((..(((((((((((....(((........)))..(((((..(.(((((.....))))).)..))))).))))))))))))))))..... ( -32.80)
>DroSec_CAF1 107745 120 - 1
GACCCUGCCUCGUAGAGGUGGCAUAAAGCAAUUAGUGUUGCAUUUUAUGGCCUUUAAUGUGGUAAUGGUUUCGGGUAAUUAACAAUUAUGUCUAACUACAAAUGCGACACGUUGCCGAUU
....(..((((...))))..)......(((((..(((((((((((....(((........)))..(((((..(.(((((.....))))).)..))))).))))))))))))))))..... ( -32.80)
>DroSim_CAF1 101465 120 - 1
GACCCUGCCUCGUAGAGGUGGCAUAAAGCAAUUAGUGUUGCAUUUUAUGGCCUUUAAUGUGGUAAUGGUUUCGGGUAAUUAACAAUUAUGUCUAACUACAAAUGCGACACGUUGCCGAUU
....(..((((...))))..)......(((((..(((((((((((....(((........)))..(((((..(.(((((.....))))).)..))))).))))))))))))))))..... ( -32.80)
>DroEre_CAF1 111446 120 - 1
UGCCCUGCCUCGUAGAGGUGGCAUAAAGCAAUUAGUGUUGCAUUUUAUGGCCUUUAAUGUGGUAAUGGUUUCGGGUAAUUAACAAUUAUGUCUAACUACAAAUGCGACACGUUGCCGAUU
((((..(((((...)))))))))....(((((..(((((((((((....(((........)))..(((((..(.(((((.....))))).)..))))).))))))))))))))))..... ( -35.80)
>DroYak_CAF1 114152 120 - 1
UGUCCUGCCUCGUAGAGGUGGCAUAAAGCAAUUAGUGUUGCAUUUUAUGGCCUUUAAUGUGGUAAUGGUUUCGGGUAAUUAACAAUUAUGUCUAACUACAAAUGCGACACGUUGCCGAUU
(((.(..((((...))))..).)))..(((((..(((((((((((....(((........)))..(((((..(.(((((.....))))).)..))))).))))))))))))))))..... ( -33.70)
>consensus
GACCCUGCCUCGUAGAGGUGGCAUAAAGCAAUUAGUGUUGCAUUUUAUGGCCUUUAAUGUGGUAAUGGUUUCGGGUAAUUAACAAUUAUGUCUAACUACAAAUGCGACACGUUGCCGAUU
....(..((((...))))..)......(((((..(((((((((((....(((........)))..(((((..(.(((((.....))))).)..))))).))))))))))))))))..... (-32.80 = -32.80 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:55 2006