Locus 4200

Sequence ID	2L_DroMel_CAF1
Location	12,023,481 – 12,023,586
Length	105
Max. P	0.941598

overview

Window 9

Location	12,023,481 – 12,023,586
Length	105
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	78.90
Mean single sequence MFE	-25.52
Consensus MFE	-11.38
Energy contribution	-11.46
Covariance contribution	0.08
Combinations/Pair	1.11
Mean z-score	-2.22
Structure conservation index	0.45
SVM decision value	0.74
SVM RNA-class probability	0.838806
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12023481 105 + 22407834
UUAUUCUAUAUCCUAAGCUGACUACUCUUCUAUGGAAUUUGAGCUAGAAUUUAGUCAGCGUGAUUAGCUUCAGAUACAGGAUA-UCUUAUCGCGACAGAUAUAAUU
.((((((.((((....((((((((...(((((............)))))..)))))))).(((......))))))).))))))-...((((......))))..... ( -23.80)
>DroSec_CAF1 14841 95 + 1
AUAUUCUAUAUCCCAAGCUGACUACUCUGCUAUGGAAUUUUAGC-----------CAGCGUGAUUAGCUGCAGAUACAGUAUCUUCUUAUCGCGACAGAUAUAAUU
......((((((...((((((.(((.((((((........))).-----------))).))).))))))((.((((.((......))))))))....))))))... ( -22.40)
>DroSim_CAF1 14956 106 + 1
UAAUUCUAUAUCCCAAGCUGACUGCUCUGCUAUGGAAUUUUAGCUAGAAUUUAGUCAGCUUGAUUAGCUGCAGAUACAGUAUCUUCUUAUCGCGACAGAUAUAAUU
......((((((.(((((((((((.(((((((........)))).)))...)))))))))))....(.(((.((((.((......))))))))).).))))))... ( -31.10)
>DroEre_CAF1 15303 92 + 1
UCAUUCUAUAUCAUGAGCU-------------UGGCAUUUUAAGCACAGUUUAGGCAGCGUGAUCAGCUGCAGAUAAAGGAUA-UCUUAUCGCGACGGAUAUAACU
..(((((.((((.((((((-------------..((.......))..)))))).(((((.......))))).)))).))))).-...((((......))))..... ( -22.30)
>DroYak_CAF1 15681 105 + 1
CUAUUCUAUAUUCCAAGCUGACUACUCUGCUGUGGAAUUUUAGCCGCAAUUUAGGCGGCGUGAUUAGCUGCAGAUAAAGGAUA-UCUUAUCGCGACAGAUACAAUU
.((((((.((((...((((((((((......)))).......(((((.......)))))....))))))...)))).))))))-...((((......))))..... ( -28.00)
>consensus
UUAUUCUAUAUCCCAAGCUGACUACUCUGCUAUGGAAUUUUAGCCACAAUUUAGGCAGCGUGAUUAGCUGCAGAUACAGGAUA_UCUUAUCGCGACAGAUAUAAUU
......((((((....((.....................................((((.......))))..((((.((......))))))))....))))))... (-11.38 = -11.46 +   0.08)

alignment

secondary structure

dotplot

Window 0

Location	12,023,481 – 12,023,586
Length	105
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	78.90
Mean single sequence MFE	-25.70
Consensus MFE	-10.70
Energy contribution	-11.34
Covariance contribution	0.64
Combinations/Pair	1.05
Mean z-score	-2.47
Structure conservation index	0.42
SVM decision value	1.32
SVM RNA-class probability	0.941598
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12023481 105 - 22407834
AAUUAUAUCUGUCGCGAUAAGA-UAUCCUGUAUCUGAAGCUAAUCACGCUGACUAAAUUCUAGCUCAAAUUCCAUAGAAGAGUAGUCAGCUUAGGAUAUAGAAUAA
..((((((((...((....(((-(((...))))))...)).......((((((((..(((((............)))))...))))))))...))))))))..... ( -28.90)
>DroSec_CAF1 14841 95 - 1
AAUUAUAUCUGUCGCGAUAAGAAGAUACUGUAUCUGCAGCUAAUCACGCUG-----------GCUAAAAUUCCAUAGCAGAGUAGUCAGCUUGGGAUAUAGAAUAU
.....(((((.((.......)))))))((((((((..((((.((.((.(((-----------.(((........)))))).)).)).))))..))))))))..... ( -23.10)
>DroSim_CAF1 14956 106 - 1
AAUUAUAUCUGUCGCGAUAAGAAGAUACUGUAUCUGCAGCUAAUCAAGCUGACUAAAUUCUAGCUAAAAUUCCAUAGCAGAGCAGUCAGCUUGGGAUAUAGAAUUA
..((((((((((.((((((((......)).)))).)).))....((((((((((...((((.((((........)))))))).))))))))))))))))))..... ( -32.40)
>DroEre_CAF1 15303 92 - 1
AGUUAUAUCCGUCGCGAUAAGA-UAUCCUUUAUCUGCAGCUGAUCACGCUGCCUAAACUGUGCUUAAAAUGCCA-------------AGCUCAUGAUAUAGAAUGA
..(((((((....((((((((.-.....)))))).(((((.......)))))......((.((.......))))-------------.))....)))))))..... ( -18.00)
>DroYak_CAF1 15681 105 - 1
AAUUGUAUCUGUCGCGAUAAGA-UAUCCUUUAUCUGCAGCUAAUCACGCCGCCUAAAUUGCGGCUAAAAUUCCACAGCAGAGUAGUCAGCUUGGAAUAUAGAAUAG
.......(((((.((....(((-((.....)))))...)).......(((((.......)))))....((((((.(((.((....)).)))))))))))))).... ( -26.10)
>consensus
AAUUAUAUCUGUCGCGAUAAGA_UAUCCUGUAUCUGCAGCUAAUCACGCUGACUAAAUUCUAGCUAAAAUUCCAUAGCAGAGUAGUCAGCUUGGGAUAUAGAAUAA
..((((((((...((((((((......)).))))..((((.......)))).....................................))...))))))))..... (-10.70 = -11.34 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:16 2006