Locus 5789

Sequence ID 2L_DroMel_CAF1
Location 16,401,954 – 16,402,079
Length 125
Max. P 0.873745
window9178 window9179

overview

Window 8

Location 16,401,954 – 16,402,052
Length 98
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 65.90
Mean single sequence MFE -28.00
Consensus MFE -10.89
Energy contribution -11.41
Covariance contribution 0.52
Combinations/Pair 1.13
Mean z-score -2.04
Structure conservation index 0.39
SVM decision value 0.88
SVM RNA-class probability 0.873745
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16401954 98 + 22407834
AUAGAUACUUUACUACUAGGUGCAUCUUUCUCUUUGAGUCUGGAUUUCCUGCAGGUAGC-ACGCAUUUCCCUGGAAGUGCUGCUG-------CCGCUGCUGCGUUU
................((((...((((..(((...)))...))))..))))..((((((-(.(((((((....))))))))))))-------))((....)).... ( -31.50)
>DroGri_CAF1 1094 89 + 1
AAAGUCAGUC------CAAGGACGUGUUUGUCC-----ACUGCACCU--CUCAGGUAACUACGAAUUUCAAUGGAAAUGCAUUGAGCUCUGGCCCUGGCUGC----
..((((((.(------((.(((((....)))))-----...(((((.--....)))...........((((((......))))))))..)))..))))))..---- ( -25.60)
>DroSec_CAF1 26375 98 + 1
AUAGAUGCUUUACUACUAUGUGCAUCUUUCUCUUUGCGUCUGGAUUUCCUGCAGGUAGC-ACGCAUUUCCCUGGAAGUGCUGAUG-------CCGCUGCUGCGUUU
..((((((.............)))))).......((((...((....))))))((((.(-(.(((((((....))))))))).))-------))((....)).... ( -27.52)
>DroSim_CAF1 25172 97 + 1
A-AGAUACUUUACUACUAUAUGCAUCUUUCUCUUUGCGUCUGGAUUUCCUGCAGGUAGC-ACGCAUUUCCCUGGAAGUGCUGAUG-------CCGCUGCUGAGAUU
.-.............(((.(((((..........))))).)))(((((..(((((((.(-(.(((((((....))))))))).))-------))..))).))))). ( -26.40)
>DroEre_CAF1 22416 74 + 1
GCAGAUACU------------------------UUGCGUCUGGUUUUCCUGCAGGUAGC-ACGCAUUUCCCUGGAAGUGCUGCUG-------CUGCUGCUGCGUUU
((((.....------------------------.((((...((....))))))((((((-(.(((((((....))))))))))))-------))....)))).... ( -29.00)
>consensus
AUAGAUACUUUACUACUAUGUGCAUCUUUCUCUUUGCGUCUGGAUUUCCUGCAGGUAGC_ACGCAUUUCCCUGGAAGUGCUGAUG_______CCGCUGCUGCGUUU
..................................................((((.((((...(((((((....)))))))..............)))))))).... (-10.89 = -11.41 +   0.52)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,401,986 – 16,402,079
Length 93
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 82.56
Mean single sequence MFE -30.38
Consensus MFE -17.52
Energy contribution -18.52
Covariance contribution 1.00
Combinations/Pair 1.14
Mean z-score -2.05
Structure conservation index 0.58
SVM decision value 0.19
SVM RNA-class probability 0.627341
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16401986 93 + 22407834
UUUGAGUCUGGAUUUCCUGCAGGUAGC--ACGCAUUUCCCUGGAAGUGCUGCUG------CCGCUGCUGCGUUUUUCC------UUCUAGCCGAAGACGCCGCCCCC
.........((....)).((.((((((--(.(((((((....))))))))))))------)))).((.((((((((..------........)))))))).)).... ( -34.50)
>DroSec_CAF1 26407 93 + 1
UUUGCGUCUGGAUUUCCUGCAGGUAGC--ACGCAUUUCCCUGGAAGUGCUGAUG------CCGCUGCUGCGUUUUUCC------UUCUAGCCGAAGACGCCGCCCCC
...(((((((((.....(((((.((((--..(((((((....))))))).(...------.))))))))))....)))------.((.....))))))))....... ( -30.00)
>DroSim_CAF1 25203 93 + 1
UUUGCGUCUGGAUUUCCUGCAGGUAGC--ACGCAUUUCCCUGGAAGUGCUGAUG------CCGCUGCUGAGAUUUUCC------UUCUAGCCGAAGACGCCGCCCCC
...((((((((....)).((.((((.(--(.(((((((....))))))))).))------)))).(((.(((......------.))))))...))))))....... ( -30.70)
>DroEre_CAF1 22425 92 + 1
-UUGCGUCUGGUUUUCCUGCAGGUAGC--ACGCAUUUCCCUGGAAGUGCUGCUG------CUGCUGCUGCGUUUUUCC------UUCCAGCCGCAGACGCCGCCCCC
-..(((((((........((((.((((--(.(((((((....))))))))))))------)))).((((.(.......------..)))))..)))))))....... ( -37.80)
>DroAna_CAF1 21301 102 + 1
UU----UCUGAAUUUCCUUCAGGUAGCUCACGCAUUUCCCUGGAAGUGCCAA-GUUUUUCCAUCUUCUCUUUUUUUUCGCAUUUUUCAAGCUGCAGAUACCGCCCCC
..----.(((((.....)))))((((((...(((((((....))))))).((-(.........)))......................))))))............. ( -18.90)
>consensus
UUUGCGUCUGGAUUUCCUGCAGGUAGC__ACGCAUUUCCCUGGAAGUGCUGAUG______CCGCUGCUGCGUUUUUCC______UUCUAGCCGAAGACGCCGCCCCC
...((((((((....))....(((.......(((((((....)))))))............(((....)))..................)))..))))))....... (-17.52 = -18.52 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:55 2006