Locus 6068

Sequence ID	2R_DroMel_CAF1
Location	19,103,088 – 19,103,218
Length	130
Max. P	0.686469

overview

Window 1

Location	19,103,088 – 19,103,180
Length	92
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	87.94
Mean single sequence MFE	-24.92
Consensus MFE	-16.71
Energy contribution	-17.07
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-2.10
Structure conservation index	0.67
SVM decision value	0.10
SVM RNA-class probability	0.582495
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19103088 92 + 20766785
GUACGCGAUAAAUGCGAAUGUACAUAUAUACGU---AUGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGCCGAGUAUAAGU
((((((((((.(((((.((((....)))).)))---)).))))......((.....)).))))))..(((((........))))).......... ( -24.20)
>DroSec_CAF1 45595 94 + 1
GUACGCGAUAAAUGCGAAUGUACAUAUCUAUAUGCGACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGC-GAGUAUAAGU
((((.((.......(((((.(((.((((((.((((...)))).)))))).)))))))).((((((...))))))...)).))))-.......... ( -26.10)
>DroSim_CAF1 46461 94 + 1
GUACGCGAUAAAUGCGAAUGUACAUAUCUACAUGCGACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGC-GAGUAUAAGU
((((.((.......(((((.(((.((((((.((((...)))).)))))).)))))))).((((((...))))))...)).))))-.......... ( -26.10)
>DroEre_CAF1 42116 85 + 1
GUACGCGAUAAAUGCGAAUGUACAUACAUGUCU---ACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUG-------UAUGU
...((((.....)))).....((((((((..((---((((((....)))))))).(((.((((((...))))))...))))))-------))))) ( -26.80)
>DroYak_CAF1 59553 85 + 1
GUACGCGAUAAAUGCGAAUGUACAUACACGUCU---AUGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUU-------UGAGU
(((((((.....))))..(((((.(((((..((---((((((....)))))))).....)))))....)))))..))).....-------..... ( -21.40)
>consensus
GUACGCGAUAAAUGCGAAUGUACAUAUAUAUAU___ACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGC_GAGUAUAAGU
((((.((.......(((((.................((((((....)))))).))))).((((((...))))))...)).))))........... (-16.71 = -17.07 +   0.36)

alignment

secondary structure

dotplot

Window 2

Location	19,103,108 – 19,103,218
Length	110
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	80.77
Mean single sequence MFE	-23.48
Consensus MFE	-13.62
Energy contribution	-13.98
Covariance contribution	0.36
Combinations/Pair	1.10
Mean z-score	-2.04
Structure conservation index	0.58
SVM decision value	0.32
SVM RNA-class probability	0.686469
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19103108 110 + 20766785
UACAUAUAUACGU---AUGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGCCGAGUAUA-AGUAUAAAUUGUAAAUCAGAUACGGCAUAAAUAUUGAACAC
........(((((---((.(....).)))))))((((((((((((...))))))......((((((.((...-..(((.....)))......)).)))))).....)))))).. ( -27.40)
>DroSec_CAF1 45615 112 + 1
UACAUAUCUAUAUGCGACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGC-GAGUAUA-AGUAUAAAUUGUAAAUCAGAUACGGCAUAAAUAUUGAAAAC
..........(((((..(((((((.(((.((((.((((.((((((...))))))...)))))))-)..((((-(.......))))).)))))))))))))))............ ( -27.30)
>DroSim_CAF1 46481 112 + 1
UACAUAUCUACAUGCGACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUGC-GAGUAUA-AGUAUAAAUUGUAAAUCAGAUACGGCAUAAAUAUUGAACAC
(((.((((((.((((...)))).)))))).)))((((((((((((...))))))......((((-..((((.-..(((.....)))......)))).)))).....)))))).. ( -26.10)
>DroEre_CAF1 42136 103 + 1
UACAUACAUGUCU---ACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUG-------UA-UGUAUAAAUUGUAAAUCAGAUACGGCAUAAAUAUUGAACAC
(((((((((..((---((((((....)))))))).(((.((((((...))))))...))))))-------))-))))....(((((.......)))))................ ( -25.60)
>DroYak_CAF1 59573 103 + 1
UACAUACACGUCU---AUGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUU-------UG-AGUAUAAAUUGUAAAUCAGAUACGGCAUAAAUAUUGAACAC
............(---((((((....)))))))((((((((((((...))))))...((.(((-------((-(.(((.....)))..)))))).)).........)))))).. ( -22.30)
>DroAna_CAF1 41702 87 + 1
UAAAUACAUAUA-----UUUAUCUUUAUG-------UGAGUG--------CCACAUACAUGCA-------UACUAUAUAAAUUGUAAAUCAGAUACGGUAUAAAUAUUGAACAC
......((.(((-----(((((((.(((.-------((((((--------(.........)))-------)..((((.....))))..))).))).)).))))))))))..... ( -12.20)
>consensus
UACAUACAUAUAU___ACGUAUCUAGAUACGUAGUUCGAGUGUACGAGGUACACAUACGAGUG_______UA_AGUAUAAAUUGUAAAUCAGAUACGGCAUAAAUAUUGAACAC
.................(((((((.(((...........((((((...)))))).(((((.....................))))).))))))))))................. (-13.62 = -13.98 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:58 2006