Locus 5418

Sequence ID 2L_DroMel_CAF1
Location 15,452,761 – 15,452,854
Length 93
Max. P 0.986321
window8599 window8600

overview

Window 9

Location 15,452,761 – 15,452,854
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 90.00
Mean single sequence MFE -21.67
Consensus MFE -19.36
Energy contribution -19.52
Covariance contribution 0.16
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.89
SVM decision value 1.67
SVM RNA-class probability 0.971063
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15452761 93 + 22407834
GCAUUUUGUCUGCUUUGCUUUUGGCCAGCCAGCUGCGAUUUUGCCAACUGAUUACUGAGAUCUACAGCAUGGCUUUAUUUUUAUUGCAUUUAC
(((........(((........))).(((((((((.((((((..............))))))..)))).)))))..........)))...... ( -19.14)
>DroSec_CAF1 190887 93 + 1
GUAUUUUGUCUGCUUUGCUGUUGGCCAGCCGGCUGCGAUUUUUUCAACUGAUUACUGAGAUCUGCAGCAUGGCUUUAUUUUUAUUGCAUUUAC
(((....(((.((......)).))).((((((((((((((((.((....)).....)))))).))))).)))))..........)))...... ( -23.00)
>DroSim_CAF1 196841 93 + 1
GCAUUUUGUCUGCUUUGCUUUUGGCCAGCCGGCUGCGAUUUUGCCAACUGAUUACUGAGAUCUGCAGCAUGGCUUUAUUUUUAUUGCAUUUAC
(((........(((........))).((((((((((((((((..............)))))).))))).)))))..........)))...... ( -22.94)
>DroEre_CAF1 201155 83 + 1
----------UGGUUCGCUUUUGGCCAGCCAGCUGCGAUUUUGCCAACUGAUUACUGAGAUCUGCAGCAUGGCUUUAUUUUUAUUGCAUUUAC
----------(((((.......)))))(((((((((((((((..............)))))).))))).)))).................... ( -21.44)
>DroYak_CAF1 198425 83 + 1
----------UGCUUUGCUUUUGGCCAGCCAGCUGCGAUUUUGCCAACUGAUUACUGAGAUCUGCAGCAUGGCUUUAUUUUUAUUGCAUUUAC
----------(((...((.....)).((((((((((((((((..............)))))).))))).)))))...........)))..... ( -21.84)
>consensus
G_AUUUUGUCUGCUUUGCUUUUGGCCAGCCAGCUGCGAUUUUGCCAACUGAUUACUGAGAUCUGCAGCAUGGCUUUAUUUUUAUUGCAUUUAC
..........(((...((.....)).((((((((((((((((..............)))))).))))).)))))...........)))..... (-19.36 = -19.52 +   0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,452,761 – 15,452,854
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 90.00
Mean single sequence MFE -19.56
Consensus MFE -17.06
Energy contribution -17.34
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.98
Structure conservation index 0.87
SVM decision value 2.04
SVM RNA-class probability 0.986321
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15452761 93 - 22407834
GUAAAUGCAAUAAAAAUAAAGCCAUGCUGUAGAUCUCAGUAAUCAGUUGGCAAAAUCGCAGCUGGCUGGCCAAAAGCAAAGCAGACAAAAUGC
((...(((...........(((((.(((((.(((.((((.......))))....))))))))))))).((.....))...))).))....... ( -20.20)
>DroSec_CAF1 190887 93 - 1
GUAAAUGCAAUAAAAAUAAAGCCAUGCUGCAGAUCUCAGUAAUCAGUUGAAAAAAUCGCAGCCGGCUGGCCAACAGCAAAGCAGACAAAAUAC
((...(((...........((((..(((((.(((.((((.......))))....)))))))).)))).((.....))...))).))....... ( -20.40)
>DroSim_CAF1 196841 93 - 1
GUAAAUGCAAUAAAAAUAAAGCCAUGCUGCAGAUCUCAGUAAUCAGUUGGCAAAAUCGCAGCCGGCUGGCCAAAAGCAAAGCAGACAAAAUGC
((...(((................(((((.......))))).(((((((((.........)))))))))...........))).))....... ( -19.90)
>DroEre_CAF1 201155 83 - 1
GUAAAUGCAAUAAAAAUAAAGCCAUGCUGCAGAUCUCAGUAAUCAGUUGGCAAAAUCGCAGCUGGCUGGCCAAAAGCGAACCA----------
.....(((...........(((((.(((((.(((.((((.......))))....)))))))))))))........))).....---------- ( -17.41)
>DroYak_CAF1 198425 83 - 1
GUAAAUGCAAUAAAAAUAAAGCCAUGCUGCAGAUCUCAGUAAUCAGUUGGCAAAAUCGCAGCUGGCUGGCCAAAAGCAAAGCA----------
.....(((...........(((((.(((((.(((.((((.......))))....))))))))))))).((.....))...)))---------- ( -19.90)
>consensus
GUAAAUGCAAUAAAAAUAAAGCCAUGCUGCAGAUCUCAGUAAUCAGUUGGCAAAAUCGCAGCUGGCUGGCCAAAAGCAAAGCAGACAAAAU_C
.....(((...........(((((.(((((.(((.((((.......))))....))))))))))))).((.....))...))).......... (-17.06 = -17.34 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:39 2006