Locus 581

Sequence ID	X_DroMel_CAF1
Location	1,644,982 – 1,645,113
Length	131
Max. P	0.988943

overview

Window 7

Location	1,644,982 – 1,645,102
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.57
Mean single sequence MFE	-36.98
Consensus MFE	-31.80
Energy contribution	-31.47
Covariance contribution	-0.33
Combinations/Pair	1.10
Mean z-score	-2.80
Structure conservation index	0.86
SVM decision value	1.66
SVM RNA-class probability	0.970441
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1644982 120 - 22224390
CUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAUAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAAAAUCAACGCUCAAGGCCGCCCAAGGAUUCACGUUUUU
.((((..((((((((((..(((((((((((((...........))).))))))))))..)))))))))((..(((..(((.........)))....))).))....)..))))....... ( -37.40)
>DroPse_CAF1 21353 91 - 1
UUGAAAUCGGGUUUCGUUAACAGCGGGCUGUUAUGAAUAAAUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAGAAACAACA-----------------------------
.......((((((((((..((((((((((....(((.....)))...))))))))))..))))))))))..((.(((........))).))----------------------------- ( -32.30)
>DroSec_CAF1 9882 120 - 1
CUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAUAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAAAAUCAACGCUCAAGGCCACUUAAGGAUCCACGUUUCU
..((((.((((((((((..(((((((((((((...........))).))))))))))..))))))))))).......(((((.......(......).((......)).)))))..))). ( -38.80)
>DroEre_CAF1 11486 113 - 1
CUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAUAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAAAAUCAACGCUCUAGGCCGC-CUCGGAUCUAC------
((((.(.((((((((((..(((((((((((((...........))).))))))))))..)))))))))))..((.((.((((..........)))).)).))-.))))......------ ( -40.40)
>DroYak_CAF1 10036 120 - 1
CUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAAAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAAAAUCAACGCUCAAGGCCGCCCUCGGAUCUACGCUUGU
.....(.((((((((((..(((((((((((((...........))).))))))))))..))))))))))).....(((((((.......(......).(((....))).))))))).... ( -40.70)
>DroPer_CAF1 21944 91 - 1
UUGAAAUCGGGUUUCGUUAACAGCGGGCUGUUAUGAAUAAAUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAGAAACAACA-----------------------------
.......((((((((((..((((((((((....(((.....)))...))))))))))..))))))))))..((.(((........))).))----------------------------- ( -32.30)
>consensus
CUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAAAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUGGAAAAUCAACGCUCAAGGCCGC_C__GGAUC_AC______
.....((((((((((((..(((((((((((((...........))).))))))))))..)))))))))).))...((((.(.....).))))............................ (-31.80 = -31.47 +  -0.33)

alignment

secondary structure

dotplot

Window 8

Location	1,645,022 – 1,645,113
Length	91
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.48
Mean single sequence MFE	-36.38
Consensus MFE	-33.47
Energy contribution	-32.80
Covariance contribution	-0.67
Combinations/Pair	1.11
Mean z-score	-4.04
Structure conservation index	0.92
SVM decision value	2.14
SVM RNA-class probability	0.988943
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1645022 91 - 22224390
-----------------------------AAACAUCCUCACUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAUAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
-----------------------------.........(((...(((((((((((((..(((((((((((((...........))).))))))))))..))))))))))...)))..))) ( -34.00)
>DroPse_CAF1 21364 95 - 1
-------------------------UGCGAAAAAUCCACAUUGAAAUCGGGUUUCGUUAACAGCGGGCUGUUAUGAAUAAAUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
-------------------------...........(((((.(....((((((((((..((((((((((....(((.....)))...))))))))))..))))))))))....).))))) ( -36.70)
>DroSec_CAF1 9922 91 - 1
-----------------------------AAACAUCCUCACUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAUAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
-----------------------------.........(((...(((((((((((((..(((((((((((((...........))).))))))))))..))))))))))...)))..))) ( -34.00)
>DroEre_CAF1 11519 100 - 1
CC--------------------AACUGCAAAGCAUCCUCACUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAUAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
..--------------------....(((.(((((.(.....)..(.((((((((((..(((((((((((((...........))).))))))))))..)))))))))))))))).))). ( -36.50)
>DroYak_CAF1 10076 100 - 1
CC--------------------AAGUGCAAAGCAUCCUCACUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAAAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
..--------------------....(((.(((((.(.....)..(.((((((((((..(((((((((((((...........))).))))))))))..)))))))))))))))).))). ( -36.50)
>DroPer_CAF1 21955 120 - 1
CCAAAUAUUUAUUUCGAAUCUUUGAUGCGAAAAAUCCACAUUGAAAUCGGGUUUCGUUAACAGCGGGCUGUUAUGAAUAAAUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
...........(((((.(((...))).)))))....(((((.(....((((((((((..((((((((((....(((.....)))...))))))))))..))))))))))....).))))) ( -40.60)
>consensus
_________________________UGC_AAACAUCCUCACUGAAGUCGGGUUUCGUUAGCAGCGGGCUGUUUUAAAAAAUUCAACAAGUUCGUUGUCGACGAAACCUGCAUGCUGUGUG
......................................(((....((((((((((((..(((((((((((((...........))).))))))))))..)))))))))).))...))).. (-33.47 = -32.80 +  -0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:29 2006