Locus 8765

Sequence ID	3L_DroMel_CAF1
Location	23,180,880 – 23,181,040
Length	160
Max. P	0.974156

overview

Window 1

Location	23,180,880 – 23,181,000
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.17
Mean single sequence MFE	-26.91
Consensus MFE	-22.70
Energy contribution	-22.30
Covariance contribution	-0.40
Combinations/Pair	1.06
Mean z-score	-1.37
Structure conservation index	0.84
SVM decision value	0.02
SVM RNA-class probability	0.543381
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 23180880 120 + 23771897
AAAAGCAAUAGUCUAUAAUAAUGGAUUGGUCAUAUGGCAACCUCCUGCCGUCUAUAAAUCCUCUUGUUCAAUCGAUGUUGAAUAUUUUCCGUAUGACGUACAAACCUGCAUCUUAAAAUU
....(((.((((((((....))))))))(((((((((((......))))...............((((((((....))))))))......))))))).........)))........... ( -26.80)
>DroGri_CAF1 31676 120 + 1
AAAAGCAAUAGUCUAUAGUAAUGGAUUGGUGAUUUGGCAACCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUU
....(((...((((...((.(((((..(..(((((((((......))))......)))))..).((((((((....))))))))...)))))...))....)))).)))........... ( -27.10)
>DroWil_CAF1 25720 120 + 1
AAAAGCAAUAGUCUAUAGUAAUGGAUUGGUGAUUUGGCAACCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUU
....(((...((((...((.(((((..(..(((((((((......))))......)))))..).((((((((....))))))))...)))))...))....)))).)))........... ( -27.10)
>DroMoj_CAF1 13757 120 + 1
AAAAGCAAUAGUCUAUAGUAAUGGAUUGGUGAUUUGGCAACCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUU
....(((...((((...((.(((((..(..(((((((((......))))......)))))..).((((((((....))))))))...)))))...))....)))).)))........... ( -27.10)
>DroPer_CAF1 52661 120 + 1
AAAAGCAAUAGUCUAUAGUAAUGGACUGGUGAUUUGGCAACCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCGUAUGACGUACAAACGUGCAUCUUAAAAUU
.....((.((((((((....)))))))).))....((((......))))(((.(((........((((((((....)))))))).......))))))((((....))))........... ( -26.46)
>consensus
AAAAGCAAUAGUCUAUAGUAAUGGAUUGGUGAUUUGGCAACCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUU
....(((.((((((((....))))))))((.....((((......))))(((.(((........((((((((....)))))))).......))))))..)).....)))........... (-22.70 = -22.30 +  -0.40)

alignment

secondary structure

dotplot

Window 2

Location	23,180,920 – 23,181,040
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.50
Mean single sequence MFE	-29.79
Consensus MFE	-27.12
Energy contribution	-27.92
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.69
Structure conservation index	0.91
SVM decision value	1.72
SVM RNA-class probability	0.974156
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 23180920 120 + 23771897
CCUCCUGCCGUCUAUAAAUCCUCUUGUUCAAUCGAUGUUGAAUAUUUUCCGUAUGACGUACAAACCUGCAUCUUAAAAUUAGGAAGUUGGACCUAUGAUGGUUUUAAGGUGCUACUCAAA
........((((.(((........((((((((....)))))))).......))))))).........((((((((((((((((........)))).....))))))))))))........ ( -25.26)
>DroGri_CAF1 31716 120 + 1
CCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUUAGGAAGUUGGACCUAUGAUGGUUUUAAGGUGCUAUUCAAA
....((((((((.(((........((((((((....)))))))).......))))))).))))....((((((((((((((((........)))).....))))))))))))........ ( -31.76)
>DroWil_CAF1 25760 120 + 1
CCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUUAGGAAGUUGGACCUAUGAUGGUUUUAAGGUGCUACUCAAA
....((((((((.(((........((((((((....)))))))).......))))))).))))..((((((((((((((((((........)))).....)))))))))))).))..... ( -32.56)
>DroMoj_CAF1 13797 120 + 1
CCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUUAGGAAGUUGGACCUAUGAUGGUUUUAAGGUGCUAAUCAAA
....((((((((.(((........((((((((....)))))))).......))))))).))))....((((((((((((((((........)))).....))))))))))))........ ( -31.76)
>DroPer_CAF1 52701 120 + 1
CCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCGUAUGACGUACAAACGUGCAUCUUAAAAUUAGGAAGUUGGACCUAUGAUGGUUUUAAGGUGCUAAUCUAA
.(((((((((((.(((....((((((((((((....)))))))).(((((.((.((.((((....)))).)).))......)))))..)))).)))))))))....)))))......... ( -27.60)
>consensus
CCACCUGCCGUCUAUAAAUCGUCUUGUUCAAUCGAUGUUGAAUAUUUUCCAUAUGACGUGCAGACGUGCAUCUUAAAAUUAGGAAGUUGGACCUAUGAUGGUUUUAAGGUGCUAAUCAAA
....((((((((.(((........((((((((....)))))))).......))))))).))))....((((((((((((((((........)))).....))))))))))))........ (-27.12 = -27.92 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:58 2006