Locus 3601

Sequence ID	3L_DroMel_CAF1
Location	10,600,047 – 10,600,152
Length	105
Max. P	0.747184

overview

Window 4

Location	10,600,047 – 10,600,152
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	80.86
Mean single sequence MFE	-27.35
Consensus MFE	-17.60
Energy contribution	-18.16
Covariance contribution	0.56
Combinations/Pair	1.35
Mean z-score	-1.39
Structure conservation index	0.64
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10600047 105 + 23771897
GUGUGUGUGUGUUUGCGUGAGCCGACGCCGCACGUAUUUCAUCAGCGUGGCAUUAUAUGCAUGGGUAUAUGCUUAUAUACUUACGUACACUAUACGGUGGUAUGU
..(((((.(((((.((....)).))))))))))((((....((((((((......))))).)))....))))..(((((((..((((.....))))..))))))) ( -35.60)
>DroSec_CAF1 482437 96 + 1
---------UGCGUGUCAGAGCCGUCGCCGCACGUAUUUCAUCAGAGUGGCAUUAUAUGCAUGGGUAUAUGCUUAUGUACUUACGUACACUAUACGGUGGUAUGU
---------.(((((.(...(((((.(((((.(...........).)))))......(((((((((....)))))))))..............))))).)))))) ( -24.90)
>DroSim_CAF1 482497 96 + 1
---------UGUGUGUGUGAGCCGUCGCCGCACGUAUUUCAUCAGCGUGGCAUUAUAUGCAUGGGUAUAUGCUUAUGUACUUACGUACACUAUACGGUGGUAUGU
---------.(((((((((((.....(((((.(...........).)))))......(((((((((....))))))))))))))))))))(((((....))))). ( -30.10)
>DroEre_CAF1 489739 94 + 1
G--------UGUGUGCGAGAGCC---GCCGCACGUAUUUCAUCAGCAUGGCAUUAUAUGCAUGGGUAUACGCUUAUGUACUUACGUACACUAUACGGUGGUAUGU
(--------((((.(((.....)---)))))))...........(((((.(((....(((((((((....)))))))))....((((.....))))))).))))) ( -27.50)
>DroYak_CAF1 492234 94 + 1
G--------UGUGUGUGUGAGCC---GCCGCACGUAUUUCAUCAGCACGGCAUUAUAUGCAUGGGUAUACUCUUAUGUACUUACGUACACUACACGGUGGUAUGU
(--------((((((((((.(((---(..((.............)).))))......((((((((......))))))))....))))))).)))).......... ( -25.22)
>DroAna_CAF1 472698 85 + 1
---------UGUGCGUGUGUGCCUCUGUCGCACGUAUUUCAUCAGCCUGACAUUAUAUACAU----AUAUAAAUAUAUGCAUAUAUAAAC-------UGGGAUGU
---------.(((((((((.((....)))))))))))..((((..((......(((((.(((----(((....)))))).))))).....-------.)))))). ( -20.80)
>consensus
_________UGUGUGUGUGAGCCG_CGCCGCACGUAUUUCAUCAGCGUGGCAUUAUAUGCAUGGGUAUAUGCUUAUGUACUUACGUACACUAUACGGUGGUAUGU
..........(((((((((((.....((((.................))))......((((((((......)))))))))))))))))))............... (-17.60 = -18.16 +   0.56)

alignment

secondary structure

dotplot

Window 5

Location	10,600,047 – 10,600,152
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	80.86
Mean single sequence MFE	-23.59
Consensus MFE	-14.59
Energy contribution	-14.87
Covariance contribution	0.28
Combinations/Pair	1.25
Mean z-score	-2.00
Structure conservation index	0.62
SVM decision value	0.47
SVM RNA-class probability	0.747184
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10600047 105 - 23771897
ACAUACCACCGUAUAGUGUACGUAAGUAUAUAAGCAUAUACCCAUGCAUAUAAUGCCACGCUGAUGAAAUACGUGCGGCGUCGGCUCACGCAAACACACACACAC
.........(((...((((((....))))))..((((......)))).......((((((((((((.....))).)))))).)))..)))............... ( -25.20)
>DroSec_CAF1 482437 96 - 1
ACAUACCACCGUAUAGUGUACGUAAGUACAUAAGCAUAUACCCAUGCAUAUAAUGCCACUCUGAUGAAAUACGUGCGGCGACGGCUCUGACACGCA---------
......(.((((((.((((((....))))))..((((......)))).........................)))))).)...((........)).--------- ( -20.90)
>DroSim_CAF1 482497 96 - 1
ACAUACCACCGUAUAGUGUACGUAAGUACAUAAGCAUAUACCCAUGCAUAUAAUGCCACGCUGAUGAAAUACGUGCGGCGACGGCUCACACACACA---------
..((((....)))).((((((....))))))..((((......)))).......(((.((((((((.....))).)))))..)))...........--------- ( -24.00)
>DroEre_CAF1 489739 94 - 1
ACAUACCACCGUAUAGUGUACGUAAGUACAUAAGCGUAUACCCAUGCAUAUAAUGCCAUGCUGAUGAAAUACGUGCGGC---GGCUCUCGCACACA--------C
.....((.((((...((((((....))))))..((((((...(((((((........))))..)))..)))))))))).---))............--------. ( -25.10)
>DroYak_CAF1 492234 94 - 1
ACAUACCACCGUGUAGUGUACGUAAGUACAUAAGAGUAUACCCAUGCAUAUAAUGCCGUGCUGAUGAAAUACGUGCGGC---GGCUCACACACACA--------C
..........((((.((((((....))))))..(((((((........)))..(((((..(...........)..))))---))))))))).....--------. ( -25.70)
>DroAna_CAF1 472698 85 - 1
ACAUCCCA-------GUUUAUAUAUGCAUAUAUUUAUAU----AUGUAUAUAAUGUCAGGCUGAUGAAAUACGUGCGACAGAGGCACACACGCACA---------
.((((((.-------(....((((((((((((....)))----)))))))))....).))..))))......(((((.............))))).--------- ( -20.62)
>consensus
ACAUACCACCGUAUAGUGUACGUAAGUACAUAAGCAUAUACCCAUGCAUAUAAUGCCACGCUGAUGAAAUACGUGCGGCG_CGGCUCACACACACA_________
...............((((((....))))))..((((......)))).......(((..(((((((.....))).))))...))).................... (-14.59 = -14.87 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:58 2006