Locus 6790

Sequence ID	2L_DroMel_CAF1
Location	18,984,856 – 18,985,032
Length	176
Max. P	0.664026

overview

Window 5

Location	18,984,856 – 18,984,961
Length	105
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	78.05
Mean single sequence MFE	-35.25
Consensus MFE	-20.28
Energy contribution	-20.03
Covariance contribution	-0.25
Combinations/Pair	1.38
Mean z-score	-1.69
Structure conservation index	0.58
SVM decision value	0.28
SVM RNA-class probability	0.664026
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18984856 105 - 22407834
UCAGCGAGGCUGUGGAGCACCGCCGGA---AAAUCCUCAAAUCACCAAGUGCUAUGAAUGCGAUGAAGGCGCUGGGUGUAAUAGUAAGGAUUUCACCCGGUGCUACCA
.((((...))))((((((((((..(..---(((((((.....((((.((((((..............)))))).))))........)))))))..).))))))).))) ( -37.66)
>DroSim_CAF1 1084 105 - 1
UCAACGAGGCUGCGGAGCACCGCCGGC---AAAUCCUCAAAUCACCAAGUGCUAUGAAUGCGAUGAAGGCGCUGGGUGUAAUAGUAAGGAUUUCACCCGGUGCUACCA
.............(((((((((...(.---(((((((.....((((.((((((..............)))))).))))........))))))))...))))))).)). ( -35.16)
>DroEre_CAF1 1100 105 - 1
UCAACGAGGUUGUGGAGCACCGCCGAC---AAAUCCUCAAAUCACUAAGUGCUAUGAAUGCGAUGAAGGCACUGGGUGUAAUAGUAAAGAUUUCACCCGGUGCUAUCA
.....((((((((.(.((...))).))---))..))))...........(((.......))).(((.(((((((((((.(((.......))).))))))))))).))) ( -33.70)
>DroWil_CAF1 950 108 - 1
ACGUCGUGGUUGUGGUGCCCCACCGAGUGGCGAGGCGAACAUUCGCAAUUGCUAUGAAUGCGAUGAGGAUGGUGGAUGCAAUGAAUUGGAUUUCACACGUUGCUAUCG
.((((.(.(((((((((...))))..(((((((.((((....))))..)))))))....))))).).))))...(((((((((...((.......)))))))).))). ( -33.50)
>DroYak_CAF1 1077 105 - 1
UCAACGGGGCUGUGGAGCACCGCCGAC---CAAUCCUCAAAUCACCAAGUGCUAUGAAUGCGAUGAUGGCGCUGGGUGUAAUAGAAAGGAUUUCACCCGGUGCUAUCA
.....(((((.(((...))).)))((.---......))......))...(((.......))).(((((((((((((((.(((.......))).))))))))))))))) ( -35.00)
>DroAna_CAF1 974 102 - 1
CCAGCGGGGAUGCGGAGCACCGCCUAG---UAAUCCCGGCAUUCUCAACUGCUACGAAUGCGAC---GGGACUGGAUGUAACAGAAAAGAUUUCACCCGCUGCUAUCG
.(((((((((.((((....))))((((---...(((((((((((...........))))))..)---)))))))).................)).)))))))...... ( -36.50)
>consensus
UCAACGAGGCUGUGGAGCACCGCCGAC___AAAUCCUCAAAUCACCAAGUGCUAUGAAUGCGAUGAAGGCGCUGGGUGUAAUAGAAAGGAUUUCACCCGGUGCUAUCA
.....(((((.((((....)))).).........))))...........(((.......))).....(((((((((((.(((.......))).))))))))))).... (-20.28 = -20.03 +  -0.25)

alignment

secondary structure

dotplot

Window 6

Location	18,984,924 – 18,985,032
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	78.33
Mean single sequence MFE	-38.32
Consensus MFE	-22.57
Energy contribution	-22.77
Covariance contribution	0.20
Combinations/Pair	1.29
Mean z-score	-1.65
Structure conservation index	0.59
SVM decision value	0.27
SVM RNA-class probability	0.660746
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18984924 108 - 22407834
AUAGCUAAUAGCACUUGUAGCUCCGCUGAGGCCUCUUCCUGUUUCUCCUGUGAGUACUCCAACUGGAGUAUUCAGCGAGGCUGUGGAGCACCGCCGGAAAAUCCUCAA
...((.....)).......(((((((...((((((.........(....)((((((((((....))))))))))..)))))))))))))......((.....)).... ( -37.80)
>DroPse_CAF1 1181 108 - 1
GUAACCAACAGCACGUGUGGCUCUGCCGAGGCCUCCUCCUGCUUCGCCUGCGAGUACUCCGACUGGAAUAUACGCAGGGGAUGCGGUGCCCCACCCACCGAAGCGGGA
..........((.(...((((...)))).)))....(((((((((.((((((.(((.(((....))).))).))))))((.((.((((...))))))))))))))))) ( -42.90)
>DroSim_CAF1 1152 108 - 1
AUAGCUAAUAGCACUUGUAGCUCCGCUGAGGCCUCUUCCUGUUUCUCCUGCGAGUACUCCAACUGGAGUAUUCAACGAGGCUGCGGAGCACCGCCGGCAAAUCCUCAA
..........((...((..(((((((...((((((.....((.......))(((((((((....)))))))))...)))))))))))))..))...)).......... ( -40.90)
>DroYak_CAF1 1145 108 - 1
AUAGCUAAUAGCACUUGUAGCUCCGCUGAAGCCUCUUCCUGUUUCUCCUGUGAGUACUCAAACUGGAGUAUUCAACGGGGCUGUGGAGCACCGCCGACCAAUCCUCAA
...((.....)).......(((((((.(((((........)))))((((((((((((((......)))))))).))))))..)))))))................... ( -35.10)
>DroAna_CAF1 1039 108 - 1
AUUAGCAAUAGCACCUGUGGCUCAGCAGAAGCCUCCUCCUGCUUUUCCUGCGAGUACGACGACUGGAGUAUCCAGCGGGGAUGCGGAGCACCGCCUAGUAAUCCCGGC
....((....)).((((((.(((.((((((((........))))...))))))))))).((.((((.....))))))(((((((((....))))......))))))). ( -33.50)
>DroPer_CAF1 1181 108 - 1
GUAACCAACAGCACGUGUGGCUCUGCCGAGGCCUCCUCCUGCUUCGCCUGCGAGUACUCCGACUGGAAUAUACGCAGAGGAUGCGGUGCCCCACCCACCGAAGCGGGA
..........((.(...((((...)))).)))....(((((((((..(((((.(((.(((....))).))).))))).((.((.((((...))))))))))))))))) ( -39.70)
>consensus
AUAACCAAUAGCACUUGUAGCUCCGCUGAGGCCUCCUCCUGCUUCUCCUGCGAGUACUCCAACUGGAGUAUUCAACGAGGAUGCGGAGCACCGCCGACCAAUCCUCAA
...................(((((((.(((((........))))).(((.((.(((((((....))))))).))...)))..)))))))................... (-22.57 = -22.77 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:57 2006