Locus 624

Sequence ID	3L_DroMel_CAF1
Location	1,843,217 – 1,843,318
Length	101
Max. P	0.991752

overview

Window 0

Location	1,843,217 – 1,843,318
Length	101
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	90.32
Mean single sequence MFE	-38.88
Consensus MFE	-29.60
Energy contribution	-30.24
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-3.33
Structure conservation index	0.76
SVM decision value	2.29
SVM RNA-class probability	0.991752
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1843217 101 + 23771897
UCUUCUUUUUACCAGGAAGCGGAAAUGAGCCUUGGCCGCAGGAGCCUCUUGUCUCGAU-UCCGCUUCCGUUUUCGUGUAGCUUUUUCGCUCUCUGAGAGCGC
..............((((((((((.((((.(..((((....).)))....).)))).)-)))))))))(((((((.(.(((......))).).))))))).. ( -36.30)
>DroSec_CAF1 2429 101 + 1
UCUUCUUCUUACCAGGAAGCGGAAAUGAGCCUUGGCCGCAGGAGCCUCUCGUCACCAUUUCCGCUUCCGCUUUCGCGUAGCUU-UUCGCUCUCUGAGAGCGC
..............(((((((((((((.((...((((....).)))....))...)))))))))))))(((((((.(.(((..-...))).).))))))).. ( -37.50)
>DroSim_CAF1 2433 101 + 1
UCUUCUUCUUACCAGGAAGCGGAAAUGAGCCUUGGCCGCAGGAGCCUCUCGUCACCAUUUCCGCUUCCGCUUUCGCGUAGCUU-UUCGCUCUCUGAGAGCGC
..............(((((((((((((.((...((((....).)))....))...)))))))))))))(((((((.(.(((..-...))).).))))))).. ( -37.50)
>DroEre_CAF1 2398 95 + 1
-CUUCUUCUUACCAGGAAGCGGAAAUGAGCCGCGGCCGCAGGAGCCGCGCGCCUCCAUUUCCGCUUC------CGCGUAGCUUUUUCGCUCUCUGAGAGCGC
-.......((((..(((((((((((((.(((((((((....).)))))).))...))))))))))))------)..))))......(((((.....))))). ( -45.40)
>DroYak_CAF1 2407 95 + 1
-CUUCUUCUUACCAGGAAGCGGAAAUGAGCCUUGGCCGCAGGAGCCUCGCGUCUCCAUUUCCGCUUC------CGCGUAGCUUUUUCGCUCUCUGAGAGCGC
-.......((((..(((((((((((((.((....))(((((....)).)))....))))))))))))------)..))))......(((((.....))))). ( -37.70)
>consensus
UCUUCUUCUUACCAGGAAGCGGAAAUGAGCCUUGGCCGCAGGAGCCUCUCGUCUCCAUUUCCGCUUCCG_UUUCGCGUAGCUUUUUCGCUCUCUGAGAGCGC
..............(((((((((((((.((...((((....).)))....))...)))))))))))))..................(((((.....))))). (-29.60 = -30.24 +   0.64)

alignment

secondary structure

dotplot

Window 1

Location	1,843,217 – 1,843,318
Length	101
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	90.32
Mean single sequence MFE	-42.18
Consensus MFE	-31.32
Energy contribution	-32.12
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-3.78
Structure conservation index	0.74
SVM decision value	2.22
SVM RNA-class probability	0.990558
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1843217 101 - 23771897
GCGCUCUCAGAGAGCGAAAAAGCUACACGAAAACGGAAGCGGA-AUCGAGACAAGAGGCUCCUGCGGCCAAGGCUCAUUUCCGCUUCCUGGUAAAAAGAAGA
.(((((.....)))))..................(((((((((-(..(((.(....((((.....))))...))))..)))))))))).............. ( -34.80)
>DroSec_CAF1 2429 101 - 1
GCGCUCUCAGAGAGCGAA-AAGCUACGCGAAAGCGGAAGCGGAAAUGGUGACGAGAGGCUCCUGCGGCCAAGGCUCAUUUCCGCUUCCUGGUAAGAAGAAGA
.(((((.....)))))..-..((((.((....))(((((((((((((....)(((.((((.....))))....))))))))))))))))))).......... ( -43.90)
>DroSim_CAF1 2433 101 - 1
GCGCUCUCAGAGAGCGAA-AAGCUACGCGAAAGCGGAAGCGGAAAUGGUGACGAGAGGCUCCUGCGGCCAAGGCUCAUUUCCGCUUCCUGGUAAGAAGAAGA
.(((((.....)))))..-..((((.((....))(((((((((((((....)(((.((((.....))))....))))))))))))))))))).......... ( -43.90)
>DroEre_CAF1 2398 95 - 1
GCGCUCUCAGAGAGCGAAAAAGCUACGCG------GAAGCGGAAAUGGAGGCGCGCGGCUCCUGCGGCCGCGGCUCAUUUCCGCUUCCUGGUAAGAAGAAG-
.(((((.....))))).....((((...(------((((((((((((..(((.(((((((.....))))))))))))))))))))))))))).........- ( -48.50)
>DroYak_CAF1 2407 95 - 1
GCGCUCUCAGAGAGCGAAAAAGCUACGCG------GAAGCGGAAAUGGAGACGCGAGGCUCCUGCGGCCAAGGCUCAUUUCCGCUUCCUGGUAAGAAGAAG-
.(((((.....))))).....((((...(------(((((((((((((...(((.((....)))))((....)))))))))))))))))))).........- ( -39.80)
>consensus
GCGCUCUCAGAGAGCGAAAAAGCUACGCGAAA_CGGAAGCGGAAAUGGAGACGAGAGGCUCCUGCGGCCAAGGCUCAUUUCCGCUUCCUGGUAAGAAGAAGA
.(((((.....)))))..................(((((((((((((..........((....))(((....)))))))))))))))).............. (-31.32 = -32.12 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:03 2006