Locus 7133

Sequence ID	2L_DroMel_CAF1
Location	19,989,583 – 19,989,682
Length	99
Max. P	0.956975

overview

Window 8

Location	19,989,583 – 19,989,682
Length	99
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	89.03
Mean single sequence MFE	-21.03
Consensus MFE	-15.01
Energy contribution	-15.89
Covariance contribution	0.88
Combinations/Pair	1.19
Mean z-score	-2.39
Structure conservation index	0.71
SVM decision value	0.74
SVM RNA-class probability	0.836872
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19989583 99 + 22407834
CAGUAAUUAACAUAAUAAUCCAUUUUGUGGCCAAGGAAAGGCAGCGAAAGAACCUCACCCAUAGUGCCAGCCAUCCACUUUCUUACCCCUUGCCACU-------UU
..........................(((((.((((..(((...(....)..))).......((((.........))))........))))))))).-------.. ( -17.80)
>DroSec_CAF1 172367 99 + 1
CAGUAAUUAACAUAAUAAUCCAUUUUGUGGCCAAGGAAAGGCAGCGAAAGAACCUCACCCAUAGUGCCAGCCAUCCGCUUCCUUUCCCCUUGCCACU-------UU
..........................(((((...(((((((.((((.........(((.....))).........)))).)))))))....))))).-------.. ( -25.77)
>DroSim_CAF1 174937 99 + 1
CAGUAAUUAACAUAAUAAUCCAUUUUGUGGCCAAGGAAAGGCAGCGAAAGAACCUCACCCAUAGUGCCAGCCAUCCGCUUCCUUUCCCCUUGCCACU-------UU
..........................(((((...(((((((.((((.........(((.....))).........)))).)))))))....))))).-------.. ( -25.77)
>DroEre_CAF1 170418 100 + 1
CAGUAAUUAACAUAAUAAUCCAUUUUGUGGACAAGGAAAGGCAGCGAAAGAACCUCACCCAUA------GCCAUCCGGUUCCUUUCCCCUUUCCCCUAUCCACUUU
..........................(((((...(((((((..(.(((((((((.........------.......)))).)))))))))))))....)))))... ( -23.09)
>DroYak_CAF1 171248 93 + 1
CAGUAAUUAACAUAAUAAUCCAUUUUGUGGCCAAGGAAAGGCAGCGAAAGAACCUCACCCAUA------GCCAUCCGUUUCCUCUCCUCUUUCCCCU-------UC
..........................(((((...((..(((...(....)..)))..))....------))))).......................-------.. ( -12.70)
>consensus
CAGUAAUUAACAUAAUAAUCCAUUUUGUGGCCAAGGAAAGGCAGCGAAAGAACCUCACCCAUAGUGCCAGCCAUCCGCUUCCUUUCCCCUUGCCACU_______UU
..........................(((((...(((((((.((((.............................)))).)))))))....))))).......... (-15.01 = -15.89 +   0.88)

alignment

secondary structure

dotplot

Window 9

Location	19,989,583 – 19,989,682
Length	99
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	89.03
Mean single sequence MFE	-32.44
Consensus MFE	-23.74
Energy contribution	-25.62
Covariance contribution	1.88
Combinations/Pair	1.13
Mean z-score	-2.84
Structure conservation index	0.73
SVM decision value	1.47
SVM RNA-class probability	0.956975
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19989583 99 - 22407834
AA-------AGUGGCAAGGGGUAAGAAAGUGGAUGGCUGGCACUAUGGGUGAGGUUCUUUCGCUGCCUUUCCUUGGCCACAAAAUGGAUUAUUAUGUUAAUUACUG
..-------.(((((.(((((.(((..((((((.((((..(((.....))).))))..))))))..)))))))).)))))......(((((......))))).... ( -30.30)
>DroSec_CAF1 172367 99 - 1
AA-------AGUGGCAAGGGGAAAGGAAGCGGAUGGCUGGCACUAUGGGUGAGGUUCUUUCGCUGCCUUUCCUUGGCCACAAAAUGGAUUAUUAUGUUAAUUACUG
..-------.(((((...((((((((.((((((.((((..(((.....))).))))..)))))).))))))))..)))))......(((((......))))).... ( -38.10)
>DroSim_CAF1 174937 99 - 1
AA-------AGUGGCAAGGGGAAAGGAAGCGGAUGGCUGGCACUAUGGGUGAGGUUCUUUCGCUGCCUUUCCUUGGCCACAAAAUGGAUUAUUAUGUUAAUUACUG
..-------.(((((...((((((((.((((((.((((..(((.....))).))))..)))))).))))))))..)))))......(((((......))))).... ( -38.10)
>DroEre_CAF1 170418 100 - 1
AAAGUGGAUAGGGGAAAGGGGAAAGGAACCGGAUGGC------UAUGGGUGAGGUUCUUUCGCUGCCUUUCCUUGUCCACAAAAUGGAUUAUUAUGUUAAUUACUG
...(((((((((((((.((.(((((.((((..((...------.....))..))))))))).))...)))))))))))))......(((((......))))).... ( -32.70)
>DroYak_CAF1 171248 93 - 1
GA-------AGGGGAAAGAGGAGAGGAAACGGAUGGC------UAUGGGUGAGGUUCUUUCGCUGCCUUUCCUUGGCCACAAAAUGGAUUAUUAUGUUAAUUACUG
..-------...((...(((((((((...((((.(((------(........))))..))))...)))))))))..))........(((((......))))).... ( -23.00)
>consensus
AA_______AGUGGCAAGGGGAAAGGAAGCGGAUGGCUGGCACUAUGGGUGAGGUUCUUUCGCUGCCUUUCCUUGGCCACAAAAUGGAUUAUUAUGUUAAUUACUG
..........(((((...((((((((.((((((.(((...(((.....)))..)))..)))))).))))))))..)))))......(((((......))))).... (-23.74 = -25.62 +   1.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:17 2006