Locus 2453

Sequence ID	3L_DroMel_CAF1
Location	6,932,557 – 6,932,696
Length	139
Max. P	0.683786

overview

Window 0

Location	6,932,557 – 6,932,656
Length	99
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	69.49
Mean single sequence MFE	-20.29
Consensus MFE	-6.77
Energy contribution	-6.80
Covariance contribution	0.03
Combinations/Pair	1.44
Mean z-score	-1.94
Structure conservation index	0.33
SVM decision value	0.31
SVM RNA-class probability	0.683786
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6932557 99 + 23771897
UAGCUCCUUUGGGAUGGUUCCUCCUGGUGGGUAGACACCAACUCCUCUACCUAUACACA-CAACUAAUCCUUGUUGUCCAUUAACCAAUCCCCAGCUCAU
.((((.....(((((((((.......(((((((((..........)))))))))....(-((((........))))).....)))).))))).))))... ( -26.50)
>DroSec_CAF1 2146 99 + 1
UUGCUUCUUUGGGAUGGUUCCUCCUGGUGGGUAAACACCAACUCCUCUACCUACACAAA-CAACUAAUCCUUGUUGCUAAUGAUCCAUUCUCCAGCUCAU
..(((.....(((((((.((....(((((((((..............))))))).))..-((((........)))).....)).)))))))..))).... ( -20.84)
>DroSim_CAF1 2150 99 + 1
UUGCUCCUUUGGGAUGGUUCCUCCUGGUGGGUAAAUGCCAACUCCACUACCUACACAAA-CAACUAAUCCUUGUUGCUAAUAAUCCAUUCCCCAGCUCAU
..(((.....(((((((.......(((((((((..............))))))).))..-((((........))))........)))))))..))).... ( -21.24)
>DroEre_CAF1 2386 95 + 1
UUGCUCCACUGGGAUGGUUCCUCCUGGUGUGUCAAAACUCGCCUCCUUAGCUCCAUAAG-CCACUAACCAUUGUUGCC----ACCCAUUUCCUAGCUUAU
..(((....((((.((((..(....((((.((....)).))))......(((.....))-)...........)..)))----)))))......))).... ( -20.00)
>DroYak_CAF1 2385 96 + 1
UUGCUCCAUUGGGAUGGUUCCUCCUGGUGGGUCAAAACUUGCGCCCGUAGCUGCAUAAUAUUACUAAUCAUUGUUGCC----ACCCAUUCCCUAGCUUAU
..(((....((((.((((..(...((((.(((.......(((((.....)).))).......))).))))..)..)))----)))))......))).... ( -22.14)
>DroAna_CAF1 2171 87 + 1
UCACUGGUCUUGGAUGGUUCCUGCUGGUAUCCUAAAACUAAAUCCCUUUCUUAUUCUCU-GGUCUAACUAUU------------UUGUUUCCUAGCUUAU
..((..((...(((....))).))..)).............................((-((...(((....------------..)))..))))..... ( -11.00)
>consensus
UUGCUCCUUUGGGAUGGUUCCUCCUGGUGGGUAAAAACCAACUCCCCUACCUACACAAA_CAACUAAUCAUUGUUGCC____ACCCAUUCCCCAGCUCAU
..(((.....(((((((.......((((........))))......................((........))..........)))))))..))).... ( -6.77 =  -6.80 +   0.03)

alignment

secondary structure

dotplot

Window 1

Location	6,932,597 – 6,932,696
Length	99
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	74.13
Mean single sequence MFE	-19.77
Consensus MFE	-14.13
Energy contribution	-14.05
Covariance contribution	-0.08
Combinations/Pair	1.31
Mean z-score	-0.91
Structure conservation index	0.71
SVM decision value	0.24
SVM RNA-class probability	0.650834
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6932597 99 + 23771897
AC--UCCUCUACCUAUACACA-CAACUAAUCCUUGUUGUCCAUUAACCAAUCCCCAGCUCAUACCGGCCACCACUUUUGGCUUGGGCUGCUGGCAAGUGAAG
..--.............((((-((((........)))))..............(((((.....(((((((.......)))).)))...)))))...)))... ( -23.10)
>DroSec_CAF1 2186 99 + 1
AC--UCCUCUACCUACACAAA-CAACUAAUCCUUGUUGCUAAUGAUCCAUUCUCCAGCUCAUACCGGCCACCACUUUUGGCUUGGGCUGCUGGCAAGUUAAG
..--.................-.............((((((..((.....))..(((((((....(((((.......)))))))))))).))))))...... ( -19.50)
>DroSim_CAF1 2190 99 + 1
AC--UCCACUACCUACACAAA-CAACUAAUCCUUGUUGCUAAUAAUCCAUUCCCCAGCUCAUACCGGCCACCACUUUUGGCUUGGGCUGCUGGCAAGUAAAG
..--.........(((.....-((((........))))...............(((((.....(((((((.......)))).)))...)))))...)))... ( -19.90)
>DroEre_CAF1 2426 95 + 1
GC--CUCCUUAGCUCCAUAAG-CCACUAACCAUUGUUGCC----ACCCAUUUCCUAGCUUAUUCCCGCCACCACAUUUGGCUUGGGCUGCUGGCAAGUGAAG
..--................(-(.((........)).)).----...(((((.(((((.....(((((((.......))))..)))..))))).)))))... ( -19.70)
>DroYak_CAF1 2425 96 + 1
GC--GCCCGUAGCUGCAUAAUAUUACUAAUCAUUGUUGCC----ACCCAUUCCCUAGCUUAUUCCGGCCACCACAUUUGGCUUGGGCUGCUGGCAGGUGAAG
..--(((.(((((.(((((((..........)))).))).----...................(((((((.......)))).)))))))).)))........ ( -22.10)
>DroPer_CAF1 29182 89 + 1
GCAGUCUUCAAAUUAUA--UU-GUUUUAACCAAU----------UCCUAUUUCUUAGCUCAUACCCGCUACCACAUUUGGCCUGGGCUGCUGGCAGGUAAAG
(((((((((((((...(--((-(.......))))----------..........((((........))))....))))))...)))))))............ ( -14.30)
>consensus
AC__UCCUCUACCUACACAAA_CAACUAAUCAUUGUUGCC____ACCCAUUCCCCAGCUCAUACCGGCCACCACAUUUGGCUUGGGCUGCUGGCAAGUGAAG
...............................................((((..(((((.....(((((((.......)))).)))...)))))..))))... (-14.13 = -14.05 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:38 2006