Locus 7579

Sequence ID	2L_DroMel_CAF1
Location	20,962,239 – 20,962,380
Length	141
Max. P	0.686329

overview

Window 7

Location	20,962,239 – 20,962,355
Length	116
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	84.65
Mean single sequence MFE	-24.72
Consensus MFE	-20.52
Energy contribution	-20.27
Covariance contribution	-0.25
Combinations/Pair	1.03
Mean z-score	-1.75
Structure conservation index	0.83
SVM decision value	0.31
SVM RNA-class probability	0.684317
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20962239 116 - 22407834
AUCU--AUAAGUGCGUAAUUUACUUAAGCUGCUUUCGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAAGGCAAUAAAUUAAUAAAACGCUC-AGCCGCAGCGA-CCAA
((((--(((((((((((...((.((((((((....)))))))))))))))))))..))))))...........((((...(((....................-.)))...))))-.... ( -26.40)
>DroVir_CAF1 42567 108 - 1
AUUUUCAUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAAGGCAAUAAAUUA-UAAAAUUCUACUCUUG-----------
..........(((((((......(((((((......))))))))))))))((((((...((((((((((...........)).)))))))).-))))))..........----------- ( -21.00)
>DroPse_CAF1 65597 117 - 1
UUCU--AUGAGUGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAAGGCAAUAAAUUAAUAAAACGCUG-AGCAGCGGCAGUCGUA
...(--((((.((((((...)))....(((((((...((.......))((.(((((...((((((((((...........)).))))))))..))))).)).)-)))))).))).))))) ( -29.00)
>DroGri_CAF1 35394 108 - 1
AUUUUCAUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUUGAUUUGUUCCACUAUCGUCAAGGUAAUAAAUUA-UAAAAGUCUUCUUCAG-----------
..........(((((((......(((((((......)))))))))))))).(((((..(((((((((((...........)).)))))))))-)))))...........----------- ( -21.90)
>DroMoj_CAF1 30930 108 - 1
AUUUUCAUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAAGGCAAUAAAUUA-UAAAAUUCCGCUCUCG-----------
..........(((((((......(((((((......))))))))))))))((((((...((((((((((...........)).)))))))).-))))))..........----------- ( -21.00)
>DroPer_CAF1 55623 117 - 1
UUCU--AUGAGUGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAAGGCAAUAAAUUAAUAAAACGCUG-AGCAGCGGCAGUCGUA
...(--((((.((((((...)))....(((((((...((.......))((.(((((...((((((((((...........)).))))))))..))))).)).)-)))))).))).))))) ( -29.00)
>consensus
AUCU__AUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAAGGCAAUAAAUUA_UAAAACGCUG_AGCAG___________
..........(((((((......(((((((......)))))))))))))).(((((...((((((((((...........)).))))))))..)))))...................... (-20.52 = -20.27 +  -0.25)

alignment

secondary structure

dotplot

Window 8

Location	20,962,277 – 20,962,380
Length	103
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.58
Mean single sequence MFE	-20.85
Consensus MFE	-15.27
Energy contribution	-15.02
Covariance contribution	-0.25
Combinations/Pair	1.07
Mean z-score	-1.56
Structure conservation index	0.73
SVM decision value	0.32
SVM RNA-class probability	0.686329
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20962277 103 - 22407834
--AG-------------CCCGAUUCGUUUUCGUUAUUGCCAUCU--AUAAGUGCGUAAUUUACUUAAGCUGCUUUCGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAA
--..-------------..((((.((....))........((((--(((((((((((...((.((((((((....)))))))))))))))))))..))))))..........)))).... ( -20.80)
>DroVir_CAF1 42595 98 - 1
----------------------GUUGUCUUCGUUUUUUCCAUUUUCAUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAA
----------------------............................(((((((......(((((((......)))))))))))))).............................. ( -15.80)
>DroPse_CAF1 65636 116 - 1
--GGACUCUGACUCUCCUCCGAUUCUCCUUCUUGGUCGCAUUCU--AUGAGUGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAA
--.(((...((.((......)).)).......(((..(((.(((--(((((((((((...((.(((((((......))))))))))))))))))..)))))..))).))).....))).. ( -26.70)
>DroGri_CAF1 35422 98 - 1
----------------------GUCGCCUUUGUUCUUUUCAUUUUCAUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUUGAUUUGUUCCACUAUCGUCAA
----------------------(.((....((..(...(((.((......(((((((......(((((((......)))))))))))))).....)).)))...)...))....)).).. ( -16.00)
>DroMoj_CAF1 30958 98 - 1
----------------------GUUGGCUUCGUUCUUUCCAUUUUCAUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAA
----------------------.(((((......................(((((((......(((((((......)))))))))))))).........(((..........)))))))) ( -19.10)
>DroAna_CAF1 50081 105 - 1
GUGG-------------CUUGAUUCGGUUUCGUUAUUGCCAUCU--AUAAGUGCGUAAUUUACUUAAGCUGCUUUCGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAA
((((-------------..(((...(((.........)))((((--(((((((((((...((.((((((((....)))))))))))))))))))..)))))))))..))))......... ( -26.70)
>consensus
______________________GUCGCCUUCGUUAUUGCCAUCU__AUAAGCGCGUAAUUUACUUAAGCUGCUUUUGGCUUAAUAUGCGCAUUUUAAUAGAUUUGUUCCACUAUCGUCAA
..................................................(((((((......(((((((......)))))))))))))).............................. (-15.27 = -15.02 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:22 2006