Locus 2337

Sequence ID	3R_DroMel_CAF1
Location	6,660,050 – 6,660,148
Length	98
Max. P	0.653433

overview

Window 6

Location	6,660,050 – 6,660,148
Length	98
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	81.47
Mean single sequence MFE	-23.23
Consensus MFE	-14.61
Energy contribution	-14.67
Covariance contribution	0.06
Combinations/Pair	1.11
Mean z-score	-1.67
Structure conservation index	0.63
SVM decision value	0.06
SVM RNA-class probability	0.566040
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6660050 98 + 27905053
GGAACACAUAUG----UAUGUAUAUGUAUAUAUGUUAAGAGAAAUUCGGUCAAAUGGCACA--AAUAUUGUGUGCCGUGUGUUACAAUUGUUGCGCAACAGCAG-----
(.((((((((((----(((......))))))))))............(..((.((((((((--.......)))))))).))...)....))).)((....))..----- ( -24.50)
>DroPse_CAF1 47537 90 + 1
CAUACG--CG----------UACGAGUAUAUGUGUGAAGAGAAAUUCGGUCCAAUGGCACA--AAUAUUGUGUGCUGUGUUUUACAAUUGUUGCGCAAUAUGAG-----
((((.(--((----------(((((.......(((((((..............((((((((--.......)))))))).))))))).))).)))))..))))..----- ( -18.76)
>DroSec_CAF1 44674 96 + 1
GGAACACAUA----UAUAUGUAUA--UAUCUGUGUUAAGAGAAAUUCGGUCAAAUGGCACA--AAUAUUGUGUGCCGUGUGUUACAAUUGUUGCGCAACAGCAG-----
..((((((.(----((((....))--))).)))))).................((((((((--.......))))))))((((.((....)).))))........----- ( -23.50)
>DroSim_CAF1 45287 100 + 1
GGAACACAUAUGUAUAUAUGUAUA--UAUCUGUGUUAAGAGAAAUUCGGUCAAAUGGCACA--AAUAUUGUGUGCCGUGUGUUACAAUUGUUGCGCAACAGCAG-----
..((((((.(((((((....))))--))).)))))).................((((((((--.......))))))))((((.((....)).))))........----- ( -26.20)
>DroEre_CAF1 45822 89 + 1
GAAACA--CAU----------------AUAUGUGUUAAGAGAAAUUCGGUCAAAUGGCACA--AAUAUUGUGUGCCGUGUGUUACAAUUGUUGCGCAACAGCAGCAGAG
..((((--((.----------------...))))))...........(..((.((((((((--.......)))))))).))...)..(((((((......))))))).. ( -25.60)
>DroYak_CAF1 46150 88 + 1
GGAACACACAU----------------AUAUGUGUUAAGAGAAAUUCGGUCAAAUGGCACAAAAAUAUUGUGUGCCGUGUGUUACAAUUGUUGCGCAACAGCAG-----
..(((((((..----------------.....((....((....))....))...((((((.........))))))))))))).....(((((.....))))).----- ( -20.80)
>consensus
GGAACACACAU_________UAUA__UAUAUGUGUUAAGAGAAAUUCGGUCAAAUGGCACA__AAUAUUGUGUGCCGUGUGUUACAAUUGUUGCGCAACAGCAG_____
................................((((.................((((((((.........))))))))((((.((....)).))))))))......... (-14.61 = -14.67 +   0.06)

alignment

secondary structure

dotplot

Window 7

Location	6,660,050 – 6,660,148
Length	98
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	81.47
Mean single sequence MFE	-18.65
Consensus MFE	-11.37
Energy contribution	-13.37
Covariance contribution	2.00
Combinations/Pair	1.09
Mean z-score	-1.97
Structure conservation index	0.61
SVM decision value	0.25
SVM RNA-class probability	0.653433
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6660050 98 - 27905053
-----CUGCUGUUGCGCAACAAUUGUAACACACGGCACACAAUAUU--UGUGCCAUUUGACCGAAUUUCUCUUAACAUAUAUACAUAUACAUA----CAUAUGUGUUCC
-----.((.(((((((.......))))))))).((((((.......--))))))..........................((((((((.....----.))))))))... ( -19.30)
>DroPse_CAF1 47537 90 - 1
-----CUCAUAUUGCGCAACAAUUGUAAAACACAGCACACAAUAUU--UGUGCCAUUGGACCGAAUUUCUCUUCACACAUAUACUCGUA----------CG--CGUAUG
-----.......(((((..(((((((.....)))(((((.......--))))).))))....(((......)))...............----------.)--)))).. ( -13.00)
>DroSec_CAF1 44674 96 - 1
-----CUGCUGUUGCGCAACAAUUGUAACACACGGCACACAAUAUU--UGUGCCAUUUGACCGAAUUUCUCUUAACACAGAUA--UAUACAUAUA----UAUGUGUUCC
-----.((.(((((((.......))))))))).((((((.......--))))))...................((((((.(((--((....))))----).)))))).. ( -21.50)
>DroSim_CAF1 45287 100 - 1
-----CUGCUGUUGCGCAACAAUUGUAACACACGGCACACAAUAUU--UGUGCCAUUUGACCGAAUUUCUCUUAACACAGAUA--UAUACAUAUAUACAUAUGUGUUCC
-----(((.(((((((.......)))))))...((((((.......--)))))).......................)))...--.((((((((....))))))))... ( -20.20)
>DroEre_CAF1 45822 89 - 1
CUCUGCUGCUGUUGCGCAACAAUUGUAACACACGGCACACAAUAUU--UGUGCCAUUUGACCGAAUUUCUCUUAACACAUAU----------------AUG--UGUUUC
......((.(((((((.......))))))))).((((((.......--))))))...................((((((...----------------.))--)))).. ( -18.40)
>DroYak_CAF1 46150 88 - 1
-----CUGCUGUUGCGCAACAAUUGUAACACACGGCACACAAUAUUUUUGUGCCAUUUGACCGAAUUUCUCUUAACACAUAU----------------AUGUGUGUUCC
-----.((.(((((((.......))))))))).((((((.........))))))...................(((((((..----------------..))))))).. ( -19.50)
>consensus
_____CUGCUGUUGCGCAACAAUUGUAACACACGGCACACAAUAUU__UGUGCCAUUUGACCGAAUUUCUCUUAACACAUAUA__UAUA_________AUAUGUGUUCC
.........(((((((.......)))))))...((((((.........))))))...................(((((((((................))))))))).. (-11.37 = -13.37 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:54 2006