Locus 9172

Sequence ID	3R_DroMel_CAF1
Location	24,466,098 – 24,466,217
Length	119
Max. P	0.997682

overview

Window 9

Location	24,466,098 – 24,466,217
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.80
Mean single sequence MFE	-32.70
Consensus MFE	-29.70
Energy contribution	-28.98
Covariance contribution	-0.72
Combinations/Pair	1.14
Mean z-score	-2.02
Structure conservation index	0.91
SVM decision value	2.91
SVM RNA-class probability	0.997682
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24466098 119 + 27905053
UAGUUGGCCAUUAGUGGUGCAUAUGGAUAGGUGUUUUAUUGGGAUUUUGAUGGCACUUUCCUGGG-AAGAGGUGUUGCGGUUAGUUAGCCAGUGAUUUCCAUAGAUUUUUGUGGCCGAUA
..(((((((((....(((...((((((........(((((((....(((((.(((....(((...-...)))...))).)))))....)))))))..)))))).)))...))))))))). ( -35.20)
>DroSec_CAF1 9215 119 + 1
UAGUUGGCCAUUAGUGGUGCAUAUGGAUAGGUGUUUUAUUGGGAAUUUGAUGGCACUUUCCUGGG-AAGAGGUGUUGUGGUUAGUUAGCCAGUGAUUUCCAUAGAUUUUUGUGGCCGAAA
...((((((((....(((...((((((........(((((((.(((((.(..((((((((....)-))..)))))..).)..))))..)))))))..)))))).)))...)))))))).. ( -33.40)
>DroSim_CAF1 20989 119 + 1
UAGUUGGCCAUUAGUGGUGCAUAUGGAUAGGUGUUUUAUUGGGAAUUUGAUGGCACUUUCCUGGG-AAGAGGUGUUGUGGUUAGUUAGCCAGUGAUUUCCAUAGAUUUUUGUGGCCGAAA
...((((((((....(((...((((((........(((((((.(((((.(..((((((((....)-))..)))))..).)..))))..)))))))..)))))).)))...)))))))).. ( -33.40)
>DroEre_CAF1 10408 119 + 1
UAGUUGGCCAUUAGUGGUGCAUAUGGAUAGGUGUUUUAUUGGGAAUUUGAUGGCACUAUUCCGGG-AAAAGGUGUUGCGGUUAGUUAGCCAGUGAUUUCCAUAGAUUUUUGUGGCUAAAA
...((((((((.(((((.((((........)))).)))))(((((((...((((((((..(((.(-(.......)).))).))))..))))..)))))))..........)))))))).. ( -33.80)
>DroYak_CAF1 18758 120 + 1
UAGUUGGCCAUUAGUGGUUCAUAUGGAUGGGUGUUUUAUUGGAAAUUUGAUGGCACUAUUCCGGGUAAAAGGUGUUGUGGUUAGUUAACUAGUGAUUUCCAUAGAUUUUUGUGGCUAAAA
...((((((((............((((..(((((..(((..(....)..))))))))..))))....((((((.((((((..(((((.....))))).)))))))))))))))))))).. ( -27.70)
>consensus
UAGUUGGCCAUUAGUGGUGCAUAUGGAUAGGUGUUUUAUUGGGAAUUUGAUGGCACUUUCCUGGG_AAGAGGUGUUGUGGUUAGUUAGCCAGUGAUUUCCAUAGAUUUUUGUGGCCGAAA
...((((((((....(((...((((((........(((((((....(((((.(((....(((.......)))...))).)))))....)))))))..)))))).)))...)))))))).. (-29.70 = -28.98 +  -0.72)

alignment

secondary structure

dotplot

Window 0

Location	24,466,098 – 24,466,217
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.80
Mean single sequence MFE	-17.04
Consensus MFE	-12.67
Energy contribution	-12.31
Covariance contribution	-0.36
Combinations/Pair	1.14
Mean z-score	-2.31
Structure conservation index	0.74
SVM decision value	0.47
SVM RNA-class probability	0.750156
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24466098 119 - 27905053
UAUCGGCCACAAAAAUCUAUGGAAAUCACUGGCUAACUAACCGCAACACCUCUU-CCCAGGAAAGUGCCAUCAAAAUCCCAAUAAAACACCUAUCCAUAUGCACCACUAAUGGCCAACUA
....(((((........((((((.......((........))(((...(((...-...)))....))).........................))))))...........)))))..... ( -19.11)
>DroSec_CAF1 9215 119 - 1
UUUCGGCCACAAAAAUCUAUGGAAAUCACUGGCUAACUAACCACAACACCUCUU-CCCAGGAAAGUGCCAUCAAAUUCCCAAUAAAACACCUAUCCAUAUGCACCACUAAUGGCCAACUA
....(((((........((((((......(((........)))...........-....((((..((....))..))))..............))))))...........)))))..... ( -18.31)
>DroSim_CAF1 20989 119 - 1
UUUCGGCCACAAAAAUCUAUGGAAAUCACUGGCUAACUAACCACAACACCUCUU-CCCAGGAAAGUGCCAUCAAAUUCCCAAUAAAACACCUAUCCAUAUGCACCACUAAUGGCCAACUA
....(((((........((((((......(((........)))...........-....((((..((....))..))))..............))))))...........)))))..... ( -18.31)
>DroEre_CAF1 10408 119 - 1
UUUUAGCCACAAAAAUCUAUGGAAAUCACUGGCUAACUAACCGCAACACCUUUU-CCCGGAAUAGUGCCAUCAAAUUCCCAAUAAAACACCUAUCCAUAUGCACCACUAAUGGCCAACUA
.....((((........((((((......((((..((((.(((...........-..)))..))))))))....((.....))..........))))))...........))))...... ( -13.93)
>DroYak_CAF1 18758 120 - 1
UUUUAGCCACAAAAAUCUAUGGAAAUCACUAGUUAACUAACCACAACACCUUUUACCCGGAAUAGUGCCAUCAAAUUUCCAAUAAAACACCCAUCCAUAUGAACCACUAAUGGCCAACUA
.....((((......((((((((......(((....)))...................((((...((....))...)))).............)))))).))........))))...... ( -15.54)
>consensus
UUUCGGCCACAAAAAUCUAUGGAAAUCACUGGCUAACUAACCACAACACCUCUU_CCCAGGAAAGUGCCAUCAAAUUCCCAAUAAAACACCUAUCCAUAUGCACCACUAAUGGCCAACUA
....(((((........((((((......(((........)))...(((.((((....))))..)))..........................))))))...........)))))..... (-12.67 = -12.31 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:08 2006