Locus 6811

Sequence ID	3L_DroMel_CAF1
Location	18,299,918 – 18,300,052
Length	134
Max. P	0.963243

overview

Window 6

Location	18,299,918 – 18,300,036
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.38
Mean single sequence MFE	-25.87
Consensus MFE	-22.78
Energy contribution	-22.67
Covariance contribution	-0.11
Combinations/Pair	1.04
Mean z-score	-1.25
Structure conservation index	0.88
SVM decision value	0.05
SVM RNA-class probability	0.556561
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18299918 118 + 23771897
-CUCAGGCCAUGACUCCUGCUCGGGUGCCUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUUAUACCU-AUUCC
-...((((....((....(((..(((((...(((((......)).)))((((......)))).............)))))..)))(((((....)))))))..)))).......-..... ( -26.10)
>DroSec_CAF1 83692 118 + 1
-CUCAGGCCAUGACUCCUGCUCGGGUGCCUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU-AUUCC
-...((((....((....(((..(((((...(((((......)).)))((((......)))).............)))))..)))(((((....)))))))..)))).......-..... ( -26.10)
>DroSim_CAF1 93075 118 + 1
-CUCAGGCCAUGACUCCUGCUCGGGUGCCUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU-AUUCC
-...((((....((....(((..(((((...(((((......)).)))((((......)))).............)))))..)))(((((....)))))))..)))).......-..... ( -26.10)
>DroEre_CAF1 80555 118 + 1
-CUCAGGCCAUGACUCCUGCUUGGCUGCCUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUUCCC-AUUCC
-...((((....((....(((((((.......)))........(((((.(((..................))).)))))..))))(((((....)))))))..)))).......-..... ( -24.67)
>DroYak_CAF1 89984 118 + 1
-CUCAGGCCAUGACUCCAGCUUGGCUGCCUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU-AUUCC
-...((((........((((..((....))..)))).......(((((.(((..................))).)))))....(((((((....)))))))..)))).......-..... ( -26.77)
>DroAna_CAF1 81355 120 + 1
ACCCAGGCCGUGACUCCUGCUCCUUUGAAUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAGUCCCCGCUCC
.....(((.(.((((...((......((((.........))))(((((.(((..................))).)))))....(((((((....)))))))..))...)))).).))).. ( -25.47)
>consensus
_CUCAGGCCAUGACUCCUGCUCGGGUGCCUUUGCUGUUUAUUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU_AUUCC
....((((...(((....((..((....))..)).))).....(((((.(((..................))).)))))....(((((((....)))))))..))))............. (-22.78 = -22.67 +  -0.11)

alignment

secondary structure

dotplot

Window 7

Location	18,299,957 – 18,300,052
Length	95
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	80.41
Mean single sequence MFE	-18.71
Consensus MFE	-16.87
Energy contribution	-16.87
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.37
Structure conservation index	0.90
SVM decision value	1.55
SVM RNA-class probability	0.963243
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18299957 95 + 23771897
UUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUUAUACCU-AUUCCCAUU------------CCUAUUCCGAAU
((((((((.(((..................))).)))))....(((((((....))))))).............-.........------------........))). ( -17.67)
>DroSec_CAF1 83731 95 + 1
UUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU-AUUCCCAUU------------CCUAUUCCGAAU
((((((((.(((..................))).)))))....(((((((....))))))).............-.........------------........))). ( -17.67)
>DroSim_CAF1 93114 94 + 1
UUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU-AUUCCCAUU-------------CUAUUCCGAAU
((((((((.(((..................))).)))))....(((((((....))))))).............-.........-------------.......))). ( -17.67)
>DroYak_CAF1 90023 107 + 1
UUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU-AUUCCCAUUCCUAUAACCAUUCCUAUUCCGAAU
((((((((.(((..................))).)))))....(((((((....))))))).............-.............................))). ( -17.67)
>DroAna_CAF1 81395 101 + 1
UUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAGUCCCCGCUCC-------ACAUCCAUUUCUAUUCGGGGU
...(((((.(((..................))).)))))....(((((((....)))))))..........(((((....-------...............))))). ( -23.18)
>DroPer_CAF1 102539 73 + 1
UUCGCGCAUAAUUCACUCAUUAAUCAUUACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUGUGCCGCCAUGG-----------------------------------
...((((((.....................((((((...))))))(((((....)))))))))))........----------------------------------- ( -18.40)
>consensus
UUCGCGCAUAAUUCACUCAUUAAUCAUAACGUUUUGCGCCAAAGCGUCAGACUUCUGACGUAUGCCUCAUACCU_AUUCCCAUU____________CCUAUUCCGAAU
...(((((.(((..................))).)))))....(((((((....)))))))............................................... (-16.87 = -16.87 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:26 2006