Locus 327

Sequence ID 3R_DroMel_CAF1
Location 1,251,508 – 1,251,619
Length 111
Max. P 0.982031
window549 window550

overview

Window 9

Location 1,251,508 – 1,251,619
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 84.66
Mean single sequence MFE -49.15
Consensus MFE -34.97
Energy contribution -36.60
Covariance contribution 1.63
Combinations/Pair 1.16
Mean z-score -2.91
Structure conservation index 0.71
SVM decision value 1.90
SVM RNA-class probability 0.982031
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1251508 111 + 27905053
AGCUCCUGCUCCUGCUCCCCCGAAAGGAUCCUCCGCUCGGUCAUCAGAGGCGCCCUCCUAUCCCGAUCCUGGAGGCGCUUCUUCUGGAGGUGGUAGCUGCAGGAGCAGGCC
.((((((((..((((..((((((..((.....))..))))(((..(((((((((.(((............))))))))))))..))).))..))))..))))))))..... ( -55.80)
>DroSec_CAF1 26759 108 + 1
AGCUCCUGCUCCUGCUCCCUCGAAAGGAUCCUCCGCUCGGUCAUCAGAGGCGCCCUCGUAUCCCGAUUCUGAAGGCGCU---UCUGGAGGUGGUAGCUGCAGGAGCAGGCC
.((((((((..((((..((((((..((.....))..))......((((((((((.(((...........))).))))))---))))))))..))))..))))))))..... ( -55.40)
>DroEre_CAF1 26106 110 + 1
-GCUCCUGCUCCUGCUCCUCCGCAAGGAUCCUUCGCUCGGUCAUCAGAGGCGCCAUCUUAUCCCGAUCCUGGAGGCGCAUUUUCUGGAGGUGGUAGCUGCAAGAGCAGGCC
-...(((((((.(((.(((((....))).(((((.(((........)))(((((.(((............)))))))).......))))).)).....))).))))))).. ( -42.80)
>DroYak_CAF1 31054 104 + 1
-G------CGCAUGCUCCUCCGGAAAGAUCCUUCGCUCGGUCAUCAGAGGCAUCCUCUGAUCUCGAUCCUGGGGACGCUUCGUCUGGAGGUGGUAACUGCAAGAGCAGGCC
-.------.((.((((((((((((..((((........))))....(((((.(((((.(((....)))..))))).))))).)))))))).)))).((((....)))))). ( -42.60)
>consensus
_GCUCCUGCUCCUGCUCCCCCGAAAGGAUCCUCCGCUCGGUCAUCAGAGGCGCCCUCUUAUCCCGAUCCUGGAGGCGCUUCUUCUGGAGGUGGUAGCUGCAAGAGCAGGCC
....(((((((((((.((.((....))..(((((.(((........)))(((((.(((............)))))))).......))))).)).....))))))))))).. (-34.97 = -36.60 +   1.63)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 1,251,508 – 1,251,619
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 84.66
Mean single sequence MFE -46.64
Consensus MFE -36.65
Energy contribution -37.65
Covariance contribution 1.00
Combinations/Pair 1.20
Mean z-score -1.96
Structure conservation index 0.79
SVM decision value 0.87
SVM RNA-class probability 0.870597
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1251508 111 - 27905053
GGCCUGCUCCUGCAGCUACCACCUCCAGAAGAAGCGCCUCCAGGAUCGGGAUAGGAGGGCGCCUCUGAUGACCGAGCGGAGGAUCCUUUCGGGGGAGCAGGAGCAGGAGCU
..(((((((((((.(....).(((((..(((.....(((((....((((....(((((...))))).....))))..)))))...)))..))))).))))))))))).... ( -54.30)
>DroSec_CAF1 26759 108 - 1
GGCCUGCUCCUGCAGCUACCACCUCCAGA---AGCGCCUUCAGAAUCGGGAUACGAGGGCGCCUCUGAUGACCGAGCGGAGGAUCCUUUCGAGGGAGCAGGAGCAGGAGCU
..(((((((((((........(((((...---.((((((((.............))))))))(((........))).))))).((((.....))))))))))))))).... ( -52.72)
>DroEre_CAF1 26106 110 - 1
GGCCUGCUCUUGCAGCUACCACCUCCAGAAAAUGCGCCUCCAGGAUCGGGAUAAGAUGGCGCCUCUGAUGACCGAGCGAAGGAUCCUUGCGGAGGAGCAGGAGCAGGAGC-
..(((((((((((.((.................)).(((((....((((....(((.(....)))).....))))((.(((....)))))))))).)))))))))))...- ( -43.53)
>DroYak_CAF1 31054 104 - 1
GGCCUGCUCUUGCAGUUACCACCUCCAGACGAAGCGUCCCCAGGAUCGAGAUCAGAGGAUGCCUCUGAUGACCGAGCGAAGGAUCUUUCCGGAGGAGCAUGCG------C-
.((.(((((((((........(((...((((...))))...))).(((..((((((((...))))))))...)))))...(((....)))..))))))).)).------.- ( -36.00)
>consensus
GGCCUGCUCCUGCAGCUACCACCUCCAGAAGAAGCGCCUCCAGGAUCGGGAUAAGAGGGCGCCUCUGAUGACCGAGCGAAGGAUCCUUUCGGAGGAGCAGGAGCAGGAGC_
..(((((((((((........(((((.......((((((.(.............).))))))(((........))).))))).((((.....))))))))))))))).... (-36.65 = -37.65 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:31 2006