Locus 3124

Sequence ID	2L_DroMel_CAF1
Location	8,888,766 – 8,888,877
Length	111
Max. P	0.999629

overview

Window 5

Location	8,888,766 – 8,888,877
Length	111
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	70.19
Mean single sequence MFE	-24.94
Consensus MFE	-2.35
Energy contribution	-3.19
Covariance contribution	0.84
Combinations/Pair	1.08
Mean z-score	-1.90
Structure conservation index	0.09
SVM decision value	0.47
SVM RNA-class probability	0.749978
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8888766 111 + 22407834
ACAUUUCUAGAGCUGCCAUCACAAUUUCUACACAUUAAGAGAGUUGCCAUCCCGGUUUCUACA--AAUGUGUAAGAC---UACAUAUCCUUAGAAAUCAGGAUGACAAGGCCUGAU
..............(((.......(((((........))))).(((.(((((.((((((((..--.(((((((....---)))))))...)))))))).))))).))))))..... ( -29.40)
>DroSec_CAF1 98837 114 + 1
ACAUUUCCAGAGCUGCCAUCCCGAUUUCUACACAUUUAGGGAGUUGCCAUCCCGACUUCUUCA--AAUAGGUAUUUUUAAUGCAUAUCAUUAGAAAUCAAAAUGACAAAGCCUGAU
.......(((.(((..(((...((((((((...(((((((((((((......))))))))).)--)))..((((.....)))).......))))))))...)))....)))))).. ( -24.90)
>DroSim_CAF1 97520 114 + 1
AAGUUUCCAGAGCUGCCAUCCCGAUUUCUACACAUUUAGCGAGUUGCCAUCCCCACUUCUUCA--AAUGGGUAUUUCUAAUGCAUAUCAUUAGAAAUCAAAAUGACAAAGCCUGAU
.......(((.(((.......(((((((((......))).)))))).(((.((((.((....)--).)))).((((((((((.....))))))))))....)))....)))))).. ( -19.80)
>DroEre_CAF1 103421 110 + 1
AAAUUUCAAGAGCUGCCAUACCGAUUUCAACACAUUACGA--GCUUUCAUCCAUUUUUAUACACACAUGCGUAUCGUUGGCG----UCCUUAGAAAACGGUGUGGCAACGCUUGAC
.....(((((.(.((((((((((.((((..........(.--.....)..(((.....((((.(....).))))...)))..----......)))).)))))))))).).))))). ( -30.10)
>DroYak_CAF1 102297 109 + 1
AUACAAGGAGAGCUGCCAUAUCGAUUUCUACACAUUUCGAAUGCUACCAUGCACAUUUCUACA--CAAGGGUAUCGUUAACA-----CCGUAGAAAUCAGGACUGCAACUUAUGAC
.........(((.(((......(((((((((.......((((((......)))...)))....--...((((.......)).-----)))))))))))......))).)))..... ( -20.50)
>consensus
AAAUUUCCAGAGCUGCCAUCCCGAUUUCUACACAUUUAGAGAGUUGCCAUCCCCAUUUCUACA__AAUGGGUAUCGUUAAUGCAUAUCCUUAGAAAUCAGAAUGACAAAGCCUGAU
.............((.(((...((((((((............................................................))))))))...))).))......... ( -2.35 =  -3.19 +   0.84)

alignment

secondary structure

dotplot

Window 6

Location	8,888,766 – 8,888,877
Length	111
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	70.19
Mean single sequence MFE	-34.71
Consensus MFE	-15.64
Energy contribution	-16.16
Covariance contribution	0.52
Combinations/Pair	1.36
Mean z-score	-2.97
Structure conservation index	0.45
SVM decision value	3.81
SVM RNA-class probability	0.999629
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8888766 111 - 22407834
AUCAGGCCUUGUCAUCCUGAUUUCUAAGGAUAUGUA---GUCUUACACAUU--UGUAGAAACCGGGAUGGCAACUCUCUUAAUGUGUAGAAAUUGUGAUGGCAGCUCUAGAAAUGU
.....((((((((((((((.((((((..(((.((((---....)))).)))--..)))))).)))))))))))...((.((((........)))).)).))).............. ( -31.30)
>DroSec_CAF1 98837 114 - 1
AUCAGGCUUUGUCAUUUUGAUUUCUAAUGAUAUGCAUUAAAAAUACCUAUU--UGAAGAAGUCGGGAUGGCAACUCCCUAAAUGUGUAGAAAUCGGGAUGGCAGCUCUGGAAAUGU
.(((((((..((((((((((((((((..(((...(.(((((........))--))).)..)))((((.(....)))))........))))))))))))))))))).))))...... ( -35.30)
>DroSim_CAF1 97520 114 - 1
AUCAGGCUUUGUCAUUUUGAUUUCUAAUGAUAUGCAUUAGAAAUACCCAUU--UGAAGAAGUGGGGAUGGCAACUCGCUAAAUGUGUAGAAAUCGGGAUGGCAGCUCUGGAAACUU
.(((((((..((((((((((((((((.......((..........((((((--(....)))))))((.(....)))))........))))))))))))))))))).))))...... ( -38.66)
>DroEre_CAF1 103421 110 - 1
GUCAAGCGUUGCCACACCGUUUUCUAAGGA----CGCCAACGAUACGCAUGUGUGUAUAAAAAUGGAUGAAAGC--UCGUAAUGUGUUGAAAUCGGUAUGGCAGCUCUUGAAAUUU
.(((((.(((((((.((((.((((....((----(((.....((((((....))))))....(((..(....).--.)))...))))))))).)))).))))))).)))))..... ( -37.60)
>DroYak_CAF1 102297 109 - 1
GUCAUAAGUUGCAGUCCUGAUUUCUACGG-----UGUUAACGAUACCCUUG--UGUAGAAAUGUGCAUGGUAGCAUUCGAAAUGUGUAGAAAUCGAUAUGGCAGCUCUCCUUGUAU
......((((((.((..((((((((((..-----.........((((..((--..((....))..)).))))((((.....))))))))))))))..)).)))))).......... ( -30.70)
>consensus
AUCAGGCGUUGUCAUCCUGAUUUCUAAGGAUAUGCAUUAAAAAUACCCAUU__UGUAGAAAUCGGGAUGGCAACUCUCUAAAUGUGUAGAAAUCGGGAUGGCAGCUCUGGAAAUGU
........((((((((((((((((((.................(((........)))......(((..(....)..))).......))))))))))))))))))............ (-15.64 = -16.16 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:53 2006