Locus 1587

Sequence ID	2L_DroMel_CAF1
Location	4,265,415 – 4,265,513
Length	98
Max. P	0.999938

overview

Window 1

Location	4,265,415 – 4,265,513
Length	98
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	94.44
Mean single sequence MFE	-19.12
Consensus MFE	-16.46
Energy contribution	-16.86
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.69
Structure conservation index	0.86
SVM decision value	1.34
SVM RNA-class probability	0.943808
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4265415 98 + 22407834
CCUCCAGCCAGCUCAGCCGGCUCUGCCCACUUUCAUCUAUUUUAAUAAAGUUAAAAGCCACCCGAAAAUGGCUUGAGCUCAUCUACACUGAAAAUAAA-----
.........((((((((((((...)))...((((.....(((((((...))))))).......))))..))).))))))...................----- ( -17.60)
>DroSec_CAF1 20054 103 + 1
CCUCCAGCCAGCUCAGCCGGCUCUGCCCACUUUCAUCUAUUUUAAUAAAGUUAAAAGCCACCCGAAAAUGGCUUGAGCUCAGCUACACUGAAAAUAAUUUAUG
.....(((.((((((((((((...)))...((((.....(((((((...))))))).......))))..))).))))))..)))................... ( -20.70)
>DroSim_CAF1 21295 103 + 1
CCUCCAGCCAGCUCAGCCGGCUCUGCCCACUUUCAUCUAUUUUAAUAAAGUUAAAAGCCACCCGAAAAUGGCUUGAGCUCAGCUACACUGAAAAUAAAGUAUU
.....(((.((((((((((((...)))...((((.....(((((((...))))))).......))))..))).))))))..)))..(((........)))... ( -21.30)
>DroEre_CAF1 15446 99 + 1
CCUCCAGCCAGCUCAGCCGGCUCUGCCCACUUUCAUCUAUUUUAAUAAAGUUAAAAGCCACCCGAAAAUGGCUUCAGCUCAGCUACACUGAAAAUAACG----
....(((..((((.(((.(((...)))...........................((((((........))))))..))).))))...))).........---- ( -18.70)
>DroYak_CAF1 18373 103 + 1
CCUCCAGCCAGCUCAACCGGCUCUGCCCACUUUCAUCUAUUUUAAUAAAGUUAAAAGCCACCCGAAAAUGGCUUCAGCUCAGCUACACUGAAAAUAAUGAAUU
.....((((.........)))).........(((((.((((((.....((((..((((((........)))))).))))(((.....)))))))))))))).. ( -17.30)
>consensus
CCUCCAGCCAGCUCAGCCGGCUCUGCCCACUUUCAUCUAUUUUAAUAAAGUUAAAAGCCACCCGAAAAUGGCUUGAGCUCAGCUACACUGAAAAUAAAG_AU_
....(((..((((.(((.(((...)))...........................((((((........))))))..))).))))...)))............. (-16.46 = -16.86 +   0.40)

alignment

secondary structure

dotplot

Window 2

Location	4,265,415 – 4,265,513
Length	98
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	94.44
Mean single sequence MFE	-32.58
Consensus MFE	-30.66
Energy contribution	-31.10
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-2.63
Structure conservation index	0.94
SVM decision value	4.68
SVM RNA-class probability	0.999938
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4265415 98 - 22407834
-----UUUAUUUUCAGUGUAGAUGAGCUCAAGCCAUUUUCGGGUGGCUUUUAACUUUAUUAAAAUAGAUGAAAGUGGGCAGAGCCGGCUGAGCUGGCUGGAGG
-----(((((((.......)))))))(((.(((((..(((((.(((((((..((((((((......)))).))))....))))))).))))).))))).))). ( -30.40)
>DroSec_CAF1 20054 103 - 1
CAUAAAUUAUUUUCAGUGUAGCUGAGCUCAAGCCAUUUUCGGGUGGCUUUUAACUUUAUUAAAAUAGAUGAAAGUGGGCAGAGCCGGCUGAGCUGGCUGGAGG
...........(((((.....)))))(((.(((((..(((((.(((((((..((((((((......)))).))))....))))))).))))).))))).))). ( -33.60)
>DroSim_CAF1 21295 103 - 1
AAUACUUUAUUUUCAGUGUAGCUGAGCUCAAGCCAUUUUCGGGUGGCUUUUAACUUUAUUAAAAUAGAUGAAAGUGGGCAGAGCCGGCUGAGCUGGCUGGAGG
....(((((...(((((.((((((.((((((((((((....))))))))...((((((((......)))).)))).....)))))))))).))))).))))). ( -34.10)
>DroEre_CAF1 15446 99 - 1
----CGUUAUUUUCAGUGUAGCUGAGCUGAAGCCAUUUUCGGGUGGCUUUUAACUUUAUUAAAAUAGAUGAAAGUGGGCAGAGCCGGCUGAGCUGGCUGGAGG
----......(((((((.(((((.(((((((((((((....)))))))))..((((((((......)))).)))).(((...))))))).)))))))))))). ( -33.60)
>DroYak_CAF1 18373 103 - 1
AAUUCAUUAUUUUCAGUGUAGCUGAGCUGAAGCCAUUUUCGGGUGGCUUUUAACUUUAUUAAAAUAGAUGAAAGUGGGCAGAGCCGGUUGAGCUGGCUGGAGG
..........(((((((.(((((.(((((((((((((....)))))))))..((((((((......)))).)))).(((...))))))).)))))))))))). ( -31.20)
>consensus
_AU_CAUUAUUUUCAGUGUAGCUGAGCUCAAGCCAUUUUCGGGUGGCUUUUAACUUUAUUAAAAUAGAUGAAAGUGGGCAGAGCCGGCUGAGCUGGCUGGAGG
...........(((((.....)))))(((.(((((..(((((.(((((((..((((((((......)))).))))....))))))).))))).))))).))). (-30.66 = -31.10 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:04 2006