Locus 1651

Sequence ID	2R_DroMel_CAF1
Location	6,240,451 – 6,240,549
Length	98
Max. P	0.938236

overview

Window 8

Location	6,240,451 – 6,240,549
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	92.86
Mean single sequence MFE	-30.58
Consensus MFE	-25.94
Energy contribution	-26.22
Covariance contribution	0.28
Combinations/Pair	1.08
Mean z-score	-1.51
Structure conservation index	0.85
SVM decision value	0.74
SVM RNA-class probability	0.839172
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6240451 98 + 20766785
UAUCUUAAUGGAUGACUGAAAACACGACUGGCAUCGCACAGCAAGGACUCUCGAGAGGACGCUCACCUGCGCUCUCGUCCGUAGCGAUUGCCAAUCAA
(((((....)))))...........((.(((((((((.......((((....(((((..(((......))))))))))))...)))).))))).)).. ( -30.70)
>DroSec_CAF1 741 98 + 1
UAUCUUAAUGGAUGACUGAAAACACGACUGGCAUCGCACAGCAAGGACUCUCGAGAGGACGCUCACCUGCGCUCUCGUCCGUAGCGAUGGCCAAUCAA
(((((....)))))...........((.(((((((((.......((((....(((((..(((......))))))))))))...))))).)))).)).. ( -30.70)
>DroSim_CAF1 4553 98 + 1
UAUCUUAAUGGAUGACUGAAAACACGACUGGCAUCGCACAGCAAGGACUCUCGAGAGGACGCUCACCUGCGCUCUCGUCCGUAGCGAUGGCCAAUCAA
(((((....)))))...........((.(((((((((.......((((....(((((..(((......))))))))))))...))))).)))).)).. ( -30.70)
>DroEre_CAF1 697 98 + 1
CACAUUAAUGAAUGACUGAAGACACGGCUGGCAUCGCACGGCAAGGACUCUCGAGAGGACGCUCACCUGCACCCUCGUCCGCAGCGAUGGCCAAUCCA
..((((....))))...........((.(((((((((...((..((((......((((..((......))..)))))))))).))))).))))..)). ( -28.60)
>DroYak_CAF1 9832 98 + 1
UAUAUUGAUGAACGACUGAAGACACGAUUGGCAUCGCACAGCAAGGACUCUCGAGAGGACGCUCACCUGCGCUCUCGACCGUAGCGAUGGCCAAUCAA
.........................((((((((((((.(.....).((..(((((((..(((......))))))))))..)).))))).))))))).. ( -32.20)
>consensus
UAUCUUAAUGGAUGACUGAAAACACGACUGGCAUCGCACAGCAAGGACUCUCGAGAGGACGCUCACCUGCGCUCUCGUCCGUAGCGAUGGCCAAUCAA
.........................((.(((((((((...((..(((....((((((..(((......)))))))))))))).))))).)))).)).. (-25.94 = -26.22 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	6,240,451 – 6,240,549
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	92.86
Mean single sequence MFE	-34.58
Consensus MFE	-33.24
Energy contribution	-32.80
Covariance contribution	-0.44
Combinations/Pair	1.15
Mean z-score	-1.36
Structure conservation index	0.96
SVM decision value	1.29
SVM RNA-class probability	0.938236
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6240451 98 - 20766785
UUGAUUGGCAAUCGCUACGGACGAGAGCGCAGGUGAGCGUCCUCUCGAGAGUCCUUGCUGUGCGAUGCCAGUCGUGUUUUCAGUCAUCCAUUAAGAUA
..((((((((.((((.((((..(((..(((......)))..))).((((....))))))))))))))))))))......................... ( -34.30)
>DroSec_CAF1 741 98 - 1
UUGAUUGGCCAUCGCUACGGACGAGAGCGCAGGUGAGCGUCCUCUCGAGAGUCCUUGCUGUGCGAUGCCAGUCGUGUUUUCAGUCAUCCAUUAAGAUA
..(((((((.(((((.((((..(((..(((......)))..))).((((....))))))))))))))))))))......................... ( -34.30)
>DroSim_CAF1 4553 98 - 1
UUGAUUGGCCAUCGCUACGGACGAGAGCGCAGGUGAGCGUCCUCUCGAGAGUCCUUGCUGUGCGAUGCCAGUCGUGUUUUCAGUCAUCCAUUAAGAUA
..(((((((.(((((.((((..(((..(((......)))..))).((((....))))))))))))))))))))......................... ( -34.30)
>DroEre_CAF1 697 98 - 1
UGGAUUGGCCAUCGCUGCGGACGAGGGUGCAGGUGAGCGUCCUCUCGAGAGUCCUUGCCGUGCGAUGCCAGCCGUGUCUUCAGUCAUUCAUUAAUGUG
.((.(((((.(((((.((((..((((..((......))..)))).((((....))))))))))))))))))))(((.(....).)))........... ( -35.80)
>DroYak_CAF1 9832 98 - 1
UUGAUUGGCCAUCGCUACGGUCGAGAGCGCAGGUGAGCGUCCUCUCGAGAGUCCUUGCUGUGCGAUGCCAAUCGUGUCUUCAGUCGUUCAUCAAUAUA
..(((((((.(((((.((((((((((((((......)))..)))))).........)))))))))))))))))......................... ( -34.20)
>consensus
UUGAUUGGCCAUCGCUACGGACGAGAGCGCAGGUGAGCGUCCUCUCGAGAGUCCUUGCUGUGCGAUGCCAGUCGUGUUUUCAGUCAUCCAUUAAGAUA
..(((((((.(((((.((((..(((..(((......)))..))).((((....))))))))))))))))))))......................... (-33.24 = -32.80 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:45 2006