Locus 7395

Sequence ID	2L_DroMel_CAF1
Location	20,572,086 – 20,572,189
Length	103
Max. P	0.996055

overview

Window 7

Location	20,572,086 – 20,572,189
Length	103
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	68.42
Mean single sequence MFE	-28.33
Consensus MFE	-16.78
Energy contribution	-17.82
Covariance contribution	1.04
Combinations/Pair	1.30
Mean z-score	-1.91
Structure conservation index	0.59
SVM decision value	1.66
SVM RNA-class probability	0.970774
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20572086 103 + 22407834
UCUGUUGCAUUCGCAAUUCCGCAUUGGAUACGGAAAUGCCACGCACAGUGGUGUUCUCUGUUUCCAGAGCUAUUAGUUUUGAGUGGGAUCGUAUUGGAGUAUC--------------
.....(((.(((((.(((((((...(((.(((((((((((((.....)))))))).))))).)))(((((.....)))))..))))))).))...))))))..-------------- ( -32.40)
>DroSec_CAF1 86891 94 + 1
UCUGUUGCAUUCGCAAUUCCGCAUUGGAUACGGAAAUACCACGCACAGUGGUGUUCUCUGUUUCUAAAUUUAUUAGUUUUGAGUGGUCUCAUAU-----------------------
...(((((....))))).((((.(((((.(((((((((((((.....)))))))).))))).)))))..(((.......)))))))........----------------------- ( -27.10)
>DroSim_CAF1 87594 91 + 1
UCUGUUGCAUUCGCAAUUCCGCAUUGGAUACGGAAAUGCCACGCACAGUGGUGUUCUCUGUUUCUAAAUUUAUUAGGUGUGAGUGGUCUCA--------------------------
.......((((((((........(((((.(((((((((((((.....)))))))).))))).)))))..........))))))))......-------------------------- ( -28.37)
>DroEre_CAF1 78916 105 + 1
UCUGCUGCACUCGCGAUUCCGCAUCAGACACGGAAAUACCUCGCACACUGGUGC-UUCUGU-UUAGGAGGUUUUAGAUUU----------AUAUGUGGGAAACAGCAAAAGUAUCUG
..(((((..((((((.(((((.........)))))..(((((((((....))))-..((..-..))))))).........----------...))))))...))))).......... ( -27.00)
>DroYak_CAF1 81193 105 + 1
UCUGUUGCAUUCGCGUAUCUAAUGCGGAUACGGAAAUACCACGCACACUGGUAUUUUCUGUUUUAAGAGGUAUUAGUUUUAAGUGAGCUCAUAUAUGAGAAACAA------------
......(.((((((((.....)))))))).)((((((((((.......))))))))))((((((.....((((.(((((.....))))).))))....)))))).------------ ( -26.80)
>consensus
UCUGUUGCAUUCGCAAUUCCGCAUUGGAUACGGAAAUACCACGCACAGUGGUGUUCUCUGUUUCAAGAGGUAUUAGUUUUGAGUGGGCUCAUAU__G_G_A_C______________
...(((((....)))))......(((((.(((((((((((((.....)))))))).))))).))))).................................................. (-16.78 = -17.82 +   1.04)

alignment

secondary structure

dotplot

Window 8

Location	20,572,086 – 20,572,189
Length	103
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	68.42
Mean single sequence MFE	-25.55
Consensus MFE	-14.32
Energy contribution	-15.44
Covariance contribution	1.12
Combinations/Pair	1.22
Mean z-score	-2.36
Structure conservation index	0.56
SVM decision value	2.65
SVM RNA-class probability	0.996055
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20572086 103 - 22407834
--------------GAUACUCCAAUACGAUCCCACUCAAAACUAAUAGCUCUGGAAACAGAGAACACCACUGUGCGUGGCAUUUCCGUAUCCAAUGCGGAAUUGCGAAUGCAACAGA
--------------..................................(((((....))))).......((((((((.(((.((((((((...)))))))).)))..)))).)))). ( -32.40)
>DroSec_CAF1 86891 94 - 1
-----------------------AUAUGAGACCACUCAAAACUAAUAAAUUUAGAAACAGAGAACACCACUGUGCGUGGUAUUUCCGUAUCCAAUGCGGAAUUGCGAAUGCAACAGA
-----------------------...((((....))))...((((.....))))...............((((((((.(((.((((((((...)))))))).)))..)))).)))). ( -24.70)
>DroSim_CAF1 87594 91 - 1
--------------------------UGAGACCACUCACACCUAAUAAAUUUAGAAACAGAGAACACCACUGUGCGUGGCAUUUCCGUAUCCAAUGCGGAAUUGCGAAUGCAACAGA
--------------------------((((....))))...((((.....))))...............((((((((.(((.((((((((...)))))))).)))..)))).)))). ( -25.90)
>DroEre_CAF1 78916 105 - 1
CAGAUACUUUUGCUGUUUCCCACAUAU----------AAAUCUAAAACCUCCUAA-ACAGAA-GCACCAGUGUGCGAGGUAUUUCCGUGUCUGAUGCGGAAUCGCGAGUGCAGCAGA
........(((((((((((.(......----------.........(((((((..-..))..-((((....)))))))))..((((((((...))))))))..).))).)))))))) ( -27.10)
>DroYak_CAF1 81193 105 - 1
------------UUGUUUCUCAUAUAUGAGCUCACUUAAAACUAAUACCUCUUAAAACAGAAAAUACCAGUGUGCGUGGUAUUUCCGUAUCCGCAUUAGAUACGCGAAUGCAACAGA
------------.................((.((((................................)))).))((.((((((.((((((.......)))))).)))))).))... ( -17.65)
>consensus
______________G_U_C_C__AUAUGAGACCACUCAAAACUAAUAACUCUAGAAACAGAGAACACCACUGUGCGUGGUAUUUCCGUAUCCAAUGCGGAAUUGCGAAUGCAACAGA
.....................................................................((((((((.(((.(((((((.....))))))).)))..)))).)))). (-14.32 = -15.44 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:39 2006