Locus 1506

Sequence ID	2R_DroMel_CAF1
Location	5,705,611 – 5,705,715
Length	104
Max. P	0.963297

overview

Window 0

Location	5,705,611 – 5,705,715
Length	104
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	78.09
Mean single sequence MFE	-35.33
Consensus MFE	-22.73
Energy contribution	-21.90
Covariance contribution	-0.83
Combinations/Pair	1.29
Mean z-score	-2.32
Structure conservation index	0.64
SVM decision value	1.55
SVM RNA-class probability	0.963297
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5705611 104 + 20766785
AUG----CUGUACGUCCUGGCC---GUCGGCAUUUAGCGGCCGUUUAAUGGCCAUCUAAUUAACUGGUCGGAGAGCACUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAACG-------
(((----(((.(((.......)---))))))))((((.((((((...))))))..)))).....(((((((......)))))))..((((((.....))))))........------- ( -33.30)
>DroPse_CAF1 30197 98 + 1
AUG----CUG----------------GCGGAAUUUAGCGGCCGCUUUAUGGCCAUCUAAUUAGCUGGUCGGAAGGCACUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAGCGCACCGAG
...----...----------------.(((......(((((((((((.((((((.((....)).)))))).)))))...))))...((((((.....)))))).....))...))).. ( -33.00)
>DroEre_CAF1 33700 104 + 1
AUG----CGGUACGUUCUGGCC---GUUGCCAUUUAGCGGUCGUUUUAUGGCCAUCUAAUUAUAUGGUCGGAGAGUUCUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAACG-------
..(----((((........)))---)).(((((..(((....)))..)))))............(((((((......)))))))..((((((.....))))))........------- ( -32.10)
>DroYak_CAF1 34300 104 + 1
AUG----CUGCACGUCCCGGCC---GACGGCAUUUAGCGGCCGUUUUAUGGCCAUCUAAUUAUAUGGUCGGAGAGUUCUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAACG-------
..(----((((.((((......---))))))....)))((((((...))))))...........(((((((......)))))))..((((((.....))))))........------- ( -34.60)
>DroAna_CAF1 35869 118 + 1
AUGGCUACUGCGGGUACAGAUCCGGAGCGGCAUUUAGCGGCCGUUUUAUGCCCGUCUAAUUAACUGGUCGGAGAGCAGUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAACACACUGAG
.((((((((((((((....))))((((((((........))))))))....(((.(((......))).)))...))))))))))..((((((.....))))))............... ( -46.00)
>DroPer_CAF1 29928 98 + 1
AUG----CUG----------------GCGGAAUUUAGCGGCCGCUUUAUGGCCAUCUAAUUAGCUGGUCGGAAGGCACUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAGCGCACCGAG
...----...----------------.(((......(((((((((((.((((((.((....)).)))))).)))))...))))...((((((.....)))))).....))...))).. ( -33.00)
>consensus
AUG____CUG_ACGU_C_GGCC___GGCGGCAUUUAGCGGCCGUUUUAUGGCCAUCUAAUUAACUGGUCGGAGAGCACUGGCCAAAUCCCAAAUUAAUUGGGAAUUAAACG_______
......................................(((((((((.((((((..........)))))).)))))...))))...((((((.....))))))............... (-22.73 = -21.90 +  -0.83)

alignment

secondary structure

dotplot

Window 1

Location	5,705,611 – 5,705,715
Length	104
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	78.09
Mean single sequence MFE	-30.45
Consensus MFE	-18.67
Energy contribution	-18.43
Covariance contribution	-0.25
Combinations/Pair	1.12
Mean z-score	-1.76
Structure conservation index	0.61
SVM decision value	0.66
SVM RNA-class probability	0.815311
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5705611 104 - 20766785
-------CGUUUAAUUCCCAAUUAAUUUGGGAUUUGGCCAGUGCUCUCCGACCAGUUAAUUAGAUGGCCAUUAAACGGCCGCUAAAUGCCGAC---GGCCAGGACGUACAG----CAU
-------.((((((.((((((.....))))))..((((((...((....((....))....)).))))))))))))((((((........).)---))))...........----... ( -30.50)
>DroPse_CAF1 30197 98 - 1
CUCGGUGCGCUUAAUUCCCAAUUAAUUUGGGAUUUGGCCAGUGCCUUCCGACCAGCUAAUUAGAUGGCCAUAAAGCGGCCGCUAAAUUCCGC----------------CAG----CAU
.((((.((((((((.((((((.....)))))).)))...)))))...))))...(((........((((.......))))((........))----------------.))----).. ( -30.50)
>DroEre_CAF1 33700 104 - 1
-------CGUUUAAUUCCCAAUUAAUUUGGGAUUUGGCCAGAACUCUCCGACCAUAUAAUUAGAUGGCCAUAAAACGACCGCUAAAUGGCAAC---GGCCAGAACGUACCG----CAU
-------(((((...((((((.....))))))..(((((..........(.((((........)))).)...........(((....)))...---)))))))))).....----... ( -26.60)
>DroYak_CAF1 34300 104 - 1
-------CGUUUAAUUCCCAAUUAAUUUGGGAUUUGGCCAGAACUCUCCGACCAUAUAAUUAGAUGGCCAUAAAACGGCCGCUAAAUGCCGUC---GGCCGGGACGUGCAG----CAU
-------(((((...((((((.....))))))..(((((((....))..(((..(((..((((.(((((.......))))))))))))..)))---)))))))))).....----... ( -31.50)
>DroAna_CAF1 35869 118 - 1
CUCAGUGUGUUUAAUUCCCAAUUAAUUUGGGAUUUGGCCACUGCUCUCCGACCAGUUAAUUAGACGGGCAUAAAACGGCCGCUAAAUGCCGCUCCGGAUCUGUACCCGCAGUAGCCAU
...............((((((.....))))))..((((.(((((..........(((.....)))(((.(((...(((..((........)).)))....))).)))))))).)))). ( -33.10)
>DroPer_CAF1 29928 98 - 1
CUCGGUGCGCUUAAUUCCCAAUUAAUUUGGGAUUUGGCCAGUGCCUUCCGACCAGCUAAUUAGAUGGCCAUAAAGCGGCCGCUAAAUUCCGC----------------CAG----CAU
.((((.((((((((.((((((.....)))))).)))...)))))...))))...(((........((((.......))))((........))----------------.))----).. ( -30.50)
>consensus
_______CGUUUAAUUCCCAAUUAAUUUGGGAUUUGGCCAGUGCUCUCCGACCAGAUAAUUAGAUGGCCAUAAAACGGCCGCUAAAUGCCGCC___GGCC_G_ACGU_CAG____CAU
.......(((((...((((((.....))))))..((((((........................))))))..)))))......................................... (-18.67 = -18.43 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:25 2006