Locus 1932

Sequence ID	X_DroMel_CAF1
Location	5,306,504 – 5,306,623
Length	119
Max. P	0.990950

overview

Window 0

Location	5,306,504 – 5,306,623
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.39
Mean single sequence MFE	-31.34
Consensus MFE	-29.56
Energy contribution	-29.76
Covariance contribution	0.20
Combinations/Pair	1.07
Mean z-score	-1.61
Structure conservation index	0.94
SVM decision value	2.03
SVM RNA-class probability	0.986040
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5306504 119 + 22224390
AGGGAGCAAAUUUAUGGCCAUUUGAGUGUUUAAGUAGGGCCAAAAGAA-AGGCGAGCCUUGUAGCAAUUAGCAGGACCCGAAGUAUUUUGUUGACCUUAUUUAAAAUUUAUUUGCUCCUA
.((((((((((..((...(((....)))(((((((((((.(((.((((-...((.(.(((((........))))).).)).....)))).))).)))))))))))))..)))))))))). ( -32.60)
>DroSec_CAF1 43313 119 + 1
AGGGAGCAAAUUUAUGGCCAUUUGAGUGUUUAAGUAGGGCCAAAAGAA-AGGCGAGCCUUGUAGCAAUUAGCAGGACCCGAAGUAUUUUGUUGACCUUAUUUAAAAUUUAUUUGCUCCUA
.((((((((((..((...(((....)))(((((((((((.(((.((((-...((.(.(((((........))))).).)).....)))).))).)))))))))))))..)))))))))). ( -32.60)
>DroSim_CAF1 34845 119 + 1
AGGGAGCAAAUUUAUGGCCAUUUGAGUGUUUAAGUAGGGCCAAAAGAA-AGGCGAGCCUUGUAGCAAUUAGCAGGACCCGAAGUAUUUUGUUGACCUUAUUUAAAAUUUAUUUGCUCCUA
.((((((((((..((...(((....)))(((((((((((.(((.((((-...((.(.(((((........))))).).)).....)))).))).)))))))))))))..)))))))))). ( -32.60)
>DroEre_CAF1 46002 119 + 1
GCGGAGAAAAUUUAUGGCCAUUUGAGUGUUUAAGUAGGACCAAAAGAA-AGGCGAUGCUUGUAGCAAUUAGCAGGAGCCCCAGUAUUUUGUUGACCUUAUUUAAAAUUUAUUUGCUCCUA
..((((............((..(((((.((((((((((..(((.....-.(((..((((.((....)).))))...))).(((....))))))..)))))))))))))))..)))))).. ( -23.30)
>DroYak_CAF1 45724 120 + 1
GAGGGGCAAAUUUAUGGCCAUUUGAGUGUUUAAGUAGGGCCAAAAGAAAAGGCGAGGCUUGUGGCAAUUAGCAGGACCCGAAGUAUUUUGUUGACCUUAUUUAAAAUUUAUUUGCUCCUA
.((((((((((..((...(((....)))(((((((((((.(((.((((....((.(((((((........))))).)))).....)))).))).)))))))))))))..)))))))))). ( -35.60)
>consensus
AGGGAGCAAAUUUAUGGCCAUUUGAGUGUUUAAGUAGGGCCAAAAGAA_AGGCGAGCCUUGUAGCAAUUAGCAGGACCCGAAGUAUUUUGUUGACCUUAUUUAAAAUUUAUUUGCUCCUA
.((((((((((..((...(((....)))(((((((((((.(((.((((....((.(.(((((........))))).).)).....)))).))).)))))))))))))..)))))))))). (-29.56 = -29.76 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	5,306,504 – 5,306,623
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.39
Mean single sequence MFE	-24.91
Consensus MFE	-21.88
Energy contribution	-22.72
Covariance contribution	0.84
Combinations/Pair	1.04
Mean z-score	-1.99
Structure conservation index	0.88
SVM decision value	2.24
SVM RNA-class probability	0.990950
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5306504 119 - 22224390
UAGGAGCAAAUAAAUUUUAAAUAAGGUCAACAAAAUACUUCGGGUCCUGCUAAUUGCUACAAGGCUCGCCU-UUCUUUUGGCCCUACUUAAACACUCAAAUGGCCAUAAAUUUGCUCCCU
..(((((((((...((......))(((((............(((((..((.....)).....)))))(((.-.......)))..................)))))....))))))))).. ( -27.90)
>DroSec_CAF1 43313 119 - 1
UAGGAGCAAAUAAAUUUUAAAUAAGGUCAACAAAAUACUUCGGGUCCUGCUAAUUGCUACAAGGCUCGCCU-UUCUUUUGGCCCUACUUAAACACUCAAAUGGCCAUAAAUUUGCUCCCU
..(((((((((...((......))(((((............(((((..((.....)).....)))))(((.-.......)))..................)))))....))))))))).. ( -27.90)
>DroSim_CAF1 34845 119 - 1
UAGGAGCAAAUAAAUUUUAAAUAAGGUCAACAAAAUACUUCGGGUCCUGCUAAUUGCUACAAGGCUCGCCU-UUCUUUUGGCCCUACUUAAACACUCAAAUGGCCAUAAAUUUGCUCCCU
..(((((((((...((......))(((((............(((((..((.....)).....)))))(((.-.......)))..................)))))....))))))))).. ( -27.90)
>DroEre_CAF1 46002 119 - 1
UAGGAGCAAAUAAAUUUUAAAUAAGGUCAACAAAAUACUGGGGCUCCUGCUAAUUGCUACAAGCAUCGCCU-UUCUUUUGGUCCUACUUAAACACUCAAAUGGCCAUAAAUUUUCUCCGC
..((((.((((...((......))(((((.(((((....(((((...((((..........))))..))))-)..)))))((.........)).......)))))....)))).)))).. ( -20.10)
>DroYak_CAF1 45724 120 - 1
UAGGAGCAAAUAAAUUUUAAAUAAGGUCAACAAAAUACUUCGGGUCCUGCUAAUUGCCACAAGCCUCGCCUUUUCUUUUGGCCCUACUUAAACACUCAAAUGGCCAUAAAUUUGCCCCUC
.(((.((((((...........(((((..........(....).....((.....))..........)))))......(((((..................)))))...)))))).))). ( -20.77)
>consensus
UAGGAGCAAAUAAAUUUUAAAUAAGGUCAACAAAAUACUUCGGGUCCUGCUAAUUGCUACAAGGCUCGCCU_UUCUUUUGGCCCUACUUAAACACUCAAAUGGCCAUAAAUUUGCUCCCU
..(((((((((...((......))(((((............(((((..((.....)).....)))))(((.........)))..................)))))....))))))))).. (-21.88 = -22.72 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:10 2006