Locus 1934

Sequence ID	2R_DroMel_CAF1
Location	7,299,990 – 7,300,087
Length	97
Max. P	0.940128

overview

Window 6

Location	7,299,990 – 7,300,087
Length	97
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	80.96
Mean single sequence MFE	-28.34
Consensus MFE	-21.09
Energy contribution	-21.05
Covariance contribution	-0.04
Combinations/Pair	1.13
Mean z-score	-2.13
Structure conservation index	0.74
SVM decision value	1.28
SVM RNA-class probability	0.940128
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7299990 97 + 20766785
GUAUGUGAUAUGACCCAGUCGUCCCCGAUUGACUGAUAAGGC--------------CCGGCACUCAGA--AAUAGUGCCCGGUCACUUAACAGUAAUUAAAGGUAAAUCAUAU
..(((((((...(((((((((....))))))((((.((((((--------------(.((((((.(..--..))))))).)))..)))).)))).......)))..))))))) ( -34.20)
>DroSec_CAF1 95712 97 + 1
GUAUGUGAUAUGACCCAGUCGUCCCCGAUUGACUGAUAAGGU--------------CCGGCACUCAGA--AAUUGUGCCCGGUCAUCUAACAGUAAUUAAAAGGAAAUCAUAU
..(((((((.(((((((((((........)))))).......--------------..(((((.....--....))))).)))))(((..............))).))))))) ( -25.14)
>DroSim_CAF1 99686 97 + 1
GUAUGUGAUAUGACCCAGUCGUCCCCGAUUGACUGAUAAGGC--------------CCGGUACUCAGA--AUAAGUGCCCGGUCAUCUAACAGUAAUUAAAAGGAAAUCAUAU
..(((((((....((((((((....))))))((((.((.(((--------------(.((((((....--...)))))).))))...)).))))........))..))))))) ( -26.60)
>DroEre_CAF1 96023 109 + 1
GUAUGUGAUAUGACCCAGUUGUCC-CGAUUGACUGAUAAGCGUGGUUUCUGGUAGUCUGGUACUC---AGAAUACUGCCCGGUCAUCAAACACUAAUUAAUAAGGAAUCACAC
...((((((((((((((((((...-....))))))....(.(..((((((((((......))).)---)))).))..).)))))))......((........))..)))))). ( -26.70)
>DroYak_CAF1 98178 99 + 1
GUAUGUGAUAUGACCCAGUCGUCCCCGCUUGACUGAUAAGAG--------------CUGGCACUCGGCACAAUUGUGCCCAGUCAUCAAACAGUAAUUAAAAGGGAAUCACAU
..((((((((((((...))))).(((...((((((....(((--------------......)))(((((....))))))))))).................))).))))))) ( -29.05)
>consensus
GUAUGUGAUAUGACCCAGUCGUCCCCGAUUGACUGAUAAGGC______________CCGGCACUCAGA__AAUAGUGCCCGGUCAUCUAACAGUAAUUAAAAGGAAAUCAUAU
...((((((((((((((((((........)))))).......................(((((...........))))).))))))....................)))))). (-21.09 = -21.05 +  -0.04)

alignment

secondary structure

dotplot

Window 7

Location	7,299,990 – 7,300,087
Length	97
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	80.96
Mean single sequence MFE	-28.74
Consensus MFE	-18.80
Energy contribution	-19.28
Covariance contribution	0.48
Combinations/Pair	1.10
Mean z-score	-1.93
Structure conservation index	0.65
SVM decision value	0.59
SVM RNA-class probability	0.790834
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7299990 97 - 20766785
AUAUGAUUUACCUUUAAUUACUGUUAAGUGACCGGGCACUAUU--UCUGAGUGCCGG--------------GCCUUAUCAGUCAAUCGGGGACGACUGGGUCAUAUCACAUAC
((((((((((.........((((.((((.(.((.((((((...--....)))))).)--------------)))))).))))...(((....))).))))))))))....... ( -32.50)
>DroSec_CAF1 95712 97 - 1
AUAUGAUUUCCUUUUAAUUACUGUUAGAUGACCGGGCACAAUU--UCUGAGUGCCGG--------------ACCUUAUCAGUCAAUCGGGGACGACUGGGUCAUAUCACAUAC
.((((........(((((....)))))((((((.(((((....--.....)))))..--------------...........((.(((....))).))))))))....)))). ( -24.70)
>DroSim_CAF1 99686 97 - 1
AUAUGAUUUCCUUUUAAUUACUGUUAGAUGACCGGGCACUUAU--UCUGAGUACCGG--------------GCCUUAUCAGUCAAUCGGGGACGACUGGGUCAUAUCACAUAC
((((((((...........((((.(((....((((..((((..--...)))).))))--------------...))).))))((.(((....))).))))))))))....... ( -24.20)
>DroEre_CAF1 96023 109 - 1
GUGUGAUUCCUUAUUAAUUAGUGUUUGAUGACCGGGCAGUAUUCU---GAGUACCAGACUACCAGAAACCACGCUUAUCAGUCAAUCG-GGACAACUGGGUCAUAUCACAUAC
(((((((.((...........((.(((((((.((((.....((((---(.(((......)))))))).)).)).))))))).))..((-(.....)))))....))))))).. ( -25.20)
>DroYak_CAF1 98178 99 - 1
AUGUGAUUCCCUUUUAAUUACUGUUUGAUGACUGGGCACAAUUGUGCCGAGUGCCAG--------------CUCUUAUCAGUCAAGCGGGGACGACUGGGUCAUAUCACAUAC
(((((((.(((.................(((((((((((....)))))((((....)--------------)))....))))))((((....)).)))))....))))))).. ( -37.10)
>consensus
AUAUGAUUUCCUUUUAAUUACUGUUAGAUGACCGGGCACUAUU__UCUGAGUGCCGG______________CCCUUAUCAGUCAAUCGGGGACGACUGGGUCAUAUCACAUAC
.....................(((...((((((.(((((...........))))).......................(((((....(....))))))))))))...)))... (-18.80 = -19.28 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:42 2006