Locus 8013

Sequence ID	3L_DroMel_CAF1
Location	21,125,666 – 21,125,824
Length	158
Max. P	0.709528

overview

Window 0

Location	21,125,666 – 21,125,784
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.67
Mean single sequence MFE	-30.66
Consensus MFE	-28.58
Energy contribution	-28.94
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-1.16
Structure conservation index	0.93
SVM decision value	0.27
SVM RNA-class probability	0.663107
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21125666 118 + 23771897
CACGGCUGGCGGAGGGGAUAACUUAAUCAAUGUAAACACAACUUUGUGAGAGAAAGCGAGCCAUUAGCCGGCGAAGAGUGAGCUCGAGAGAGCUGCAGAGAGAUAUAUGCAG--AGAGCU
(((.((((((....(((((......)))........((((....))))............))....)))))).....)))(((((.......(((((..........)))))--.))))) ( -30.30)
>DroSec_CAF1 176388 120 + 1
CACGGCUGGCGGAGUGGAUAACAUAAUCAAUGUAAACACAACUUGGUGAGAGAAAGCGAGCCAUUAGCCGGCGAAGAGUGAGCACGAGAGAGCUGCAGAGAGAUAUAUGGAGAGAGAGCU
....((((((..(((((...((((.....))))........((((.(.......).))))))))).)))))).....((.(((.(....).)))))........................ ( -26.50)
>DroSim_CAF1 88051 120 + 1
CACGGCUGGCGGAGUGGAUAACAUAAUCAAUGUAAACACAACUUGGUGAGAGAAAGCGAGCCAUUAGCCGGCGAAGAGUGAGCUCGAGAGAGCUGCAGAGAGAUAUAUGGAGAGAGAGCU
....((((((..(((((...((((.....))))........((((.(.......).))))))))).)))))).....((.(((((....)))))))........................ ( -31.40)
>DroEre_CAF1 98795 120 + 1
CACGGCUGGCGGAGUGGAUAACAUAAUCAAUGUAAACACAAGUUGGUGAGAGAAAGCGAGCCAUUAGCCGGCGAAGAGUGAGCUCGAGAGAGCUACAGAGAGAUGUAUGGGGAGAGAGCU
(((.((((((..(((((...((((.....))))........(((..(....)..)))...))))).)))))).....)))(((((....)))))(((......))).............. ( -31.60)
>DroYak_CAF1 69737 120 + 1
CACGGCUGGCGGAGUGGAUAACAUAAUCAAUGUAAACACAACUCGGUGAGAGAAAGCGAGCCAUUAGCCGGCGAAGAGUGAGCUCGAGAGAGCUACAGAGAGAUAUAUGGGGAGAGAGCU
....((((((..(((((...((((.....))))........((((.(.......).))))))))).)))))).....((.(((((....)))))))........................ ( -33.50)
>consensus
CACGGCUGGCGGAGUGGAUAACAUAAUCAAUGUAAACACAACUUGGUGAGAGAAAGCGAGCCAUUAGCCGGCGAAGAGUGAGCUCGAGAGAGCUGCAGAGAGAUAUAUGGAGAGAGAGCU
....((((((..(((((...((((.....))))...(((......)))............))))).)))))).....((.(((((....)))))))........................ (-28.58 = -28.94 +   0.36)

alignment

secondary structure

dotplot

Window 1

Location	21,125,706 – 21,125,824
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.96
Mean single sequence MFE	-24.76
Consensus MFE	-18.83
Energy contribution	-19.27
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.82
Structure conservation index	0.76
SVM decision value	0.37
SVM RNA-class probability	0.709528
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21125706 118 - 23771897
CAGUUUUCGAUUCGACUAACCCUUUGGACUGGGACUCGAAAGCUCU--CUGCAUAUAUCUCUCUGCAGCUCUCUCGAGCUCACUCUUCGCCGGCUAAUGGCUCGCUUUCUCUCACAAAGU
.((((........))))....(((((((.((((.(((((.((....--(((((..........)))))..)).))))))))).))...((.(((.....))).)).........))))). ( -27.60)
>DroSec_CAF1 176428 120 - 1
CAGUUUUCGAUUCGCCUAAACCUUUGGACUCGGACUCGAAAGCUCUCUCUCCAUAUAUCUCUCUGCAGCUCUCUCGUGCUCACUCUUCGCCGGCUAAUGGCUCGCUUUCUCUCACCAAGU
.(((((((((((((.((((....))))...)))).)))))))))....................(((((........)))........((((.....))))..))............... ( -21.30)
>DroSim_CAF1 88091 120 - 1
CAGUUUUCGAUUCGCCUAACCCUUUGGACUCGGACUCGAAAGCUCUCUCUCCAUAUAUCUCUCUGCAGCUCUCUCGAGCUCACUCUUCGCCGGCUAAUGGCUCGCUUUCUCUCACCAAGU
.(((((((((((((.((((....))))...)))).)))))))))....................(((((((....)))))........((((.....))))..))............... ( -25.10)
>DroEre_CAF1 98835 114 - 1
CAGUUUUCGAUUCAACUAACCCUUUGGA------CUCGAAAGCUCUCUCCCCAUACAUCUCUCUGUAGCUCUCUCGAGCUCACUCUUCGCCGGCUAAUGGCUCGCUUUCUCUCACCAACU
.((((((((((((((........)))))------.)))))))))....................(((((((....))))).)).....((.(((.....))).))............... ( -24.00)
>DroYak_CAF1 69777 114 - 1
CAGUUUUCGAUUCGACUAACCCUUUGGA------CUCGAAAGCUCUCUCCCCAUAUAUCUCUCUGUAGCUCUCUCGAGCUCACUCUUCGCCGGCUAAUGGCUCGCUUUCUCUCACCGAGU
.((((((((((((((........)))))------.)))))))))................(((.(((((((....))))).)).....((.(((.....))).))...........))). ( -25.80)
>consensus
CAGUUUUCGAUUCGACUAACCCUUUGGACU_GGACUCGAAAGCUCUCUCUCCAUAUAUCUCUCUGCAGCUCUCUCGAGCUCACUCUUCGCCGGCUAAUGGCUCGCUUUCUCUCACCAAGU
.((((((((((((((........))))).......)))))))))...................((.(((((....)))))))......((.(((.....))).))............... (-18.83 = -19.27 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:53 2006