Locus 7025

Sequence ID	3L_DroMel_CAF1
Location	19,006,368 – 19,006,459
Length	91
Max. P	0.998691

overview

Window 1

Location	19,006,368 – 19,006,459
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	93.81
Mean single sequence MFE	-23.30
Consensus MFE	-18.87
Energy contribution	-19.67
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.53
Structure conservation index	0.81
SVM decision value	0.31
SVM RNA-class probability	0.681297
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19006368 91 + 23771897
UUGGCAGCCACCUUCGAAAAACCAGUCCAUUGCGGUGGACCAAAACCCAAAACAAGGCGAAAUACCCAUCGGAUCUGGACGAUCCGACCCG
..((..(((......(......).((((((....))))))...............)))..........(((((((.....))))))).)). ( -22.60)
>DroSec_CAF1 139899 91 + 1
UUGGCAGCCACCUUCGAAAAACCAGUCCAUUGCGGUGGACCAAAACCCAAAACAAGGCGAAAUACCCAUCGGAUCUGGACGAUCCGAACCG
..((..(((......(......).((((((....))))))...............)))..........(((((((.....))))))).)). ( -23.10)
>DroSim_CAF1 145268 91 + 1
UUGGCAGCCACCUUCGAAAAACCAGUCCAUUGCGGUGGACCAAAACCCAAAACAAGGCGAAAUACCCAUCGGAUCUGGACGAUCCGAACCG
..((..(((......(......).((((((....))))))...............)))..........(((((((.....))))))).)). ( -23.10)
>DroEre_CAF1 141288 86 + 1
UUGGCAGCCGCCUUCGAAAAACCAGUCCAUGGCGGUGGACCAAAACCCAAAACAAGGCGAAAUGCCCAUCGGAUCUGAACGAUCC-----G
..((((..((((((..........((((((....)))))).............))))))...))))...((((((.....)))))-----) ( -27.80)
>DroYak_CAF1 161479 86 + 1
UUGGCAGCCGUCUUCGAAAAACCAGUCCAUUGCGGUGGACCAAAACCCAAAACAAGGCGAAAUACCCAUCGGAUCUGAACGAUCC-----G
......(((...............((((((....))))))...............)))...........((((((.....)))))-----) ( -19.91)
>consensus
UUGGCAGCCACCUUCGAAAAACCAGUCCAUUGCGGUGGACCAAAACCCAAAACAAGGCGAAAUACCCAUCGGAUCUGGACGAUCCGA_CCG
......(((...............((((((....))))))...............)))..........(((((((.....))))))).... (-18.87 = -19.67 +   0.80)

alignment

secondary structure

dotplot

Window 2

Location	19,006,368 – 19,006,459
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	93.81
Mean single sequence MFE	-32.92
Consensus MFE	-29.48
Energy contribution	-30.08
Covariance contribution	0.60
Combinations/Pair	1.07
Mean z-score	-2.21
Structure conservation index	0.90
SVM decision value	3.19
SVM RNA-class probability	0.998691
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19006368 91 - 23771897
CGGGUCGGAUCGUCCAGAUCCGAUGGGUAUUUCGCCUUGUUUUGGGUUUUGGUCCACCGCAAUGGACUGGUUUUUCGAAGGUGGCUGCCAA
...((((((((.....)))))))).((((..((((((....(((((..(..(((((......)))))..)...))))))))))).)))).. ( -34.20)
>DroSec_CAF1 139899 91 - 1
CGGUUCGGAUCGUCCAGAUCCGAUGGGUAUUUCGCCUUGUUUUGGGUUUUGGUCCACCGCAAUGGACUGGUUUUUCGAAGGUGGCUGCCAA
....(((((((.....)))))))..((((..((((((....(((((..(..(((((......)))))..)...))))))))))).)))).. ( -32.50)
>DroSim_CAF1 145268 91 - 1
CGGUUCGGAUCGUCCAGAUCCGAUGGGUAUUUCGCCUUGUUUUGGGUUUUGGUCCACCGCAAUGGACUGGUUUUUCGAAGGUGGCUGCCAA
....(((((((.....)))))))..((((..((((((....(((((..(..(((((......)))))..)...))))))))))).)))).. ( -32.50)
>DroEre_CAF1 141288 86 - 1
C-----GGAUCGUUCAGAUCCGAUGGGCAUUUCGCCUUGUUUUGGGUUUUGGUCCACCGCCAUGGACUGGUUUUUCGAAGGCGGCUGCCAA
(-----(((((.....))))))...((((..((((((....(((((..(..(((((......)))))..)...))))))))))).)))).. ( -34.80)
>DroYak_CAF1 161479 86 - 1
C-----GGAUCGUUCAGAUCCGAUGGGUAUUUCGCCUUGUUUUGGGUUUUGGUCCACCGCAAUGGACUGGUUUUUCGAAGACGGCUGCCAA
(-----(((((.....))))))...((((....(((...(((((((..(..(((((......)))))..)...)))))))..))))))).. ( -30.60)
>consensus
CGG_UCGGAUCGUCCAGAUCCGAUGGGUAUUUCGCCUUGUUUUGGGUUUUGGUCCACCGCAAUGGACUGGUUUUUCGAAGGUGGCUGCCAA
....(((((((.....)))))))..((((..((((((....(((((..(..(((((......)))))..)...))))))))))).)))).. (-29.48 = -30.08 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:47 2006