Locus 1290

Sequence ID	2R_DroMel_CAF1
Location	5,029,698 – 5,029,800
Length	102
Max. P	0.999451

overview

Window 0

Location	5,029,698 – 5,029,800
Length	102
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	95.27
Mean single sequence MFE	-34.32
Consensus MFE	-32.62
Energy contribution	-32.82
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.11
Structure conservation index	0.95
SVM decision value	3.61
SVM RNA-class probability	0.999451
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5029698 102 + 20766785
CACAGGGUGUAGUGUAAAUCAAAACGAUGGCUA---------ACCCAUCAAUGGGGCGCUGCAGUAGGCGCUGCAAGGCACCCAGACACCGAAAGCCAUUUAAAUGUCCUG
..(((((..(.((((..........(((((...---------..)))))..((((((..((((((....))))))..)).)))).))))(....)........)..))))) ( -34.80)
>DroSec_CAF1 9746 102 + 1
CACAGGGUGUAGUGUAAAUCAAAACGAUGGCUA---------ACCCAUCAAUGGGGCGCUGCAGUAGGCGCUGCAAGGCACCCAGACACCGAAAGCCAUUUAAAUGUCCUG
..(((((..(.((((..........(((((...---------..)))))..((((((..((((((....))))))..)).)))).))))(....)........)..))))) ( -34.80)
>DroSim_CAF1 9778 102 + 1
CACAGGGUGUAGUGUAAAUCAAAACGAUGGCUA---------ACCCAUCAAUGGGGCGCUGCAGUAGGCGCUGCAAGGCACCCAGACACCGAAAGCCAUUUAAAUGUCCUG
..(((((..(.((((..........(((((...---------..)))))..((((((..((((((....))))))..)).)))).))))(....)........)..))))) ( -34.80)
>DroEre_CAF1 9772 111 + 1
CACAGGGUGUAGUGUAAAUCAAAACGAUGGCUAUUGGCAAUCCCCCAUCAAUGGGGCGCUGCAGUAGGCGCUGCAAGGCACCCAGACACCGAAAGCCAUUUAAAUGUCCUG
..(((((..(.((..........))(((((((.((((.....(((((....))))).((((((((....)))))..))).........)))).)))))))...)..))))) ( -36.70)
>DroYak_CAF1 9916 102 + 1
CACAGGGUGUAGUGUAAAUCAAAACGUUGGCUA---------CCCCAUCAAUGGGGCGCUGCAGUAGGCGCUGCAAGGCACCCAAACACCGAAAGCCAUUUAAAUGUCCUG
..(((((..(.((((.........((((((...---------.....))))))(((.((((((((....)))))..))).)))..))))(....)........)..))))) ( -30.50)
>consensus
CACAGGGUGUAGUGUAAAUCAAAACGAUGGCUA_________ACCCAUCAAUGGGGCGCUGCAGUAGGCGCUGCAAGGCACCCAGACACCGAAAGCCAUUUAAAUGUCCUG
..(((((..(.((((..........(((((..............)))))..((((((..((((((....))))))..)).)))).))))(....)........)..))))) (-32.62 = -32.82 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	5,029,698 – 5,029,800
Length	102
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	95.27
Mean single sequence MFE	-33.92
Consensus MFE	-31.09
Energy contribution	-31.29
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.38
Structure conservation index	0.92
SVM decision value	0.97
SVM RNA-class probability	0.892952
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5029698 102 - 20766785
CAGGACAUUUAAAUGGCUUUCGGUGUCUGGGUGCCUUGCAGCGCCUACUGCAGCGCCCCAUUGAUGGGU---------UAGCCAUCGUUUUGAUUUACACUACACCCUGUG
((((........((((((.((((((...((((((..(((((......))))))))))))))))).....---------.)))))).((..((.....))..))..)))).. ( -32.90)
>DroSec_CAF1 9746 102 - 1
CAGGACAUUUAAAUGGCUUUCGGUGUCUGGGUGCCUUGCAGCGCCUACUGCAGCGCCCCAUUGAUGGGU---------UAGCCAUCGUUUUGAUUUACACUACACCCUGUG
((((........((((((.((((((...((((((..(((((......))))))))))))))))).....---------.)))))).((..((.....))..))..)))).. ( -32.90)
>DroSim_CAF1 9778 102 - 1
CAGGACAUUUAAAUGGCUUUCGGUGUCUGGGUGCCUUGCAGCGCCUACUGCAGCGCCCCAUUGAUGGGU---------UAGCCAUCGUUUUGAUUUACACUACACCCUGUG
((((........((((((.((((((...((((((..(((((......))))))))))))))))).....---------.)))))).((..((.....))..))..)))).. ( -32.90)
>DroEre_CAF1 9772 111 - 1
CAGGACAUUUAAAUGGCUUUCGGUGUCUGGGUGCCUUGCAGCGCCUACUGCAGCGCCCCAUUGAUGGGGGAUUGCCAAUAGCCAUCGUUUUGAUUUACACUACACCCUGUG
((((.........((((..(((.(((.(((((((......)))))))..))).).(((((....)))))))..)))).........((..((.....))..))..)))).. ( -35.30)
>DroYak_CAF1 9916 102 - 1
CAGGACAUUUAAAUGGCUUUCGGUGUUUGGGUGCCUUGCAGCGCCUACUGCAGCGCCCCAUUGAUGGGG---------UAGCCAACGUUUUGAUUUACACUACACCCUGUG
((((.........(((((...(.(((.(((((((......)))))))..))).)((((((....)))))---------))))))..((..((.....))..))..)))).. ( -35.60)
>consensus
CAGGACAUUUAAAUGGCUUUCGGUGUCUGGGUGCCUUGCAGCGCCUACUGCAGCGCCCCAUUGAUGGGU_________UAGCCAUCGUUUUGAUUUACACUACACCCUGUG
((((........((((((.((((((...((((((..(((((......)))))))))))))))))...............)))))).((..((.....))..))..)))).. (-31.09 = -31.29 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:03 2006