Locus 5583

Sequence ID 2L_DroMel_CAF1
Location 15,850,776 – 15,850,935
Length 159
Max. P 0.839731
window8864 window8865

overview

Window 4

Location 15,850,776 – 15,850,895
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 68.21
Mean single sequence MFE -47.83
Consensus MFE -18.88
Energy contribution -21.48
Covariance contribution 2.60
Combinations/Pair 1.20
Mean z-score -1.90
Structure conservation index 0.39
SVM decision value 0.75
SVM RNA-class probability 0.839731
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15850776 119 + 22407834
AUCCACCGUGCUACUUGCCCCAACAGGGCGAUGAGUUGCCUCACAAGGACCAGCUGAUGCCCAUGGGUCCGAUUGGUCCAUGGGCAUCGGGCAAGGUGGAUUGGAGCCCCAUGGCC-GGC
(((((((.((((..((((((.....))))))..((((((((....)))..)))))(((((((((((..(.....)..))))))))))).)))).)))))))..(.(((....))))-... ( -57.80)
>DroPse_CAF1 12713 119 + 1
AUCCGCCAUGCUAUUUGCCGCAGGCGGGCGACGAUCUGCCACACAAGGAUCAGCUGAUGCCAAUGGGUCCGAUCGGGCCCUGGGCUUCUGGCAAGGUCGAUUGGAGUCCUAUGGCA-GGC
....(((.((((((..(((...)))((((..(((((.(((.(....).....(((((.(((...((((((....))))))..))).)).)))..))).)))))..)))).))))))-))) ( -52.10)
>DroSec_CAF1 23021 119 + 1
AUCCACCGUGCUACUUGCCCCAACAGGGCGAUGAGCUGCCUCACAAGGACCAGCUGAUGCCCAUGGGUCCGAUUGGUCCUUGGGCAUCGGGCAAGGUGGAUUGGAGCCCCAUGGCC-GGC
(((((((.((((..((((((.....))))))..((((((((....)))..)))))((((((((.(((.((....)).))))))))))).)))).)))))))..(.(((....))))-... ( -56.10)
>DroSim_CAF1 23385 120 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGUCCUUGGGCAUCGGGCAAGGGGGAUUGGAGCCCCCUGGCAGGGC
...........................................................................(((....))).((..((.((((((.......)))))).))..)). ( -17.80)
>DroEre_CAF1 10506 119 + 1
AUCCACCGUGCUACUUGCCCCAACAGGGGGAUGAGUUGCCCCACAAGGACCAGCUAAUGCCCAUGGGUCCAAUUGGUCCUUGGGCAUCGGGCAAAGUAGAUUGGAGCCCCAUGGCC-GGG
..((.(((..((((((((((.....((((.(.....).)))).((((((((((.....(((....)))....))))))))))......)))).))))))..))).(((....))).-)). ( -51.10)
>DroPer_CAF1 38476 119 + 1
AUCCGCCAUGCUAUUUGCCGCAGGCGGGCGACGAUCUGCCACACAAGGAUCAGCUGAUGCCAAUGGGUCCGAUCGGGCCCUGGGCUUCUGGCAAGGUCGAUUGGAGUCCUAUGGCA-GGC
....(((.((((((..(((...)))((((..(((((.(((.(....).....(((((.(((...((((((....))))))..))).)).)))..))).)))))..)))).))))))-))) ( -52.10)
>consensus
AUCCACCGUGCUACUUGCCCCAACAGGGCGAUGAGCUGCCACACAAGGACCAGCUGAUGCCCAUGGGUCCGAUUGGUCCUUGGGCAUCGGGCAAGGUGGAUUGGAGCCCCAUGGCA_GGC
.....(((.....(((((((......((((......))))..................(((...(((.((....)).)))..)))...)))))))......))).(((....)))..... (-18.88 = -21.48 +   2.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,850,816 – 15,850,935
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.71
Mean single sequence MFE -46.36
Consensus MFE -25.87
Energy contribution -27.38
Covariance contribution 1.51
Combinations/Pair 1.15
Mean z-score -1.75
Structure conservation index 0.56
SVM decision value 0.29
SVM RNA-class probability 0.669372
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15850816 119 + 22407834
UCACAAGGACCAGCUGAUGCCCAUGGGUCCGAUUGGUCCAUGGGCAUCGGGCAAGGUGGAUUGGAGCCCCAUGGCC-GGCAUAACGGGAACGAGACCCGUUGUGGACCGCUACUCGAUCA
........(((.((((((((((((((..(.....)..))))))))))).)))..))).((((((.(((....)))(-(((((((((((.......)))))))))..)))....)))))). ( -53.80)
>DroPse_CAF1 12753 119 + 1
ACACAAGGAUCAGCUGAUGCCAAUGGGUCCGAUCGGGCCCUGGGCUUCUGGCAAGGUCGAUUGGAGUCCUAUGGCA-GGCCUGACGGGAACACGUCCUGUGGUAGAUCGUUACUCGAUCA
.((((.(((((((((..(((((..((((((....)))))).(((((((((((...))))...)))))))..)))))-)).))))((......)))))))))...(((((.....))))). ( -47.10)
>DroSec_CAF1 23061 119 + 1
UCACAAGGACCAGCUGAUGCCCAUGGGUCCGAUUGGUCCUUGGGCAUCGGGCAAGGUGGAUUGGAGCCCCAUGGCC-GGCAUAACGGGAACGAGACCCGUUGUGGACCGCUACUCGAUCA
........(((.(((((((((((.(((.((....)).))))))))))).)))..))).((((((.(((....)))(-(((((((((((.......)))))))))..)))....)))))). ( -49.70)
>DroSim_CAF1 23425 120 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGUCCUUGGGCAUCGGGCAAGGGGGAUUGGAGCCCCCUGGCAGGGCAUAACGGGAACGGGCCCCGUUGUGGACCGCUACUCGAUCA
...................................(((....)))((((((..((((((.......))))))(((.((.(((((((((.......)))))))))..))))).)))))).. ( -39.10)
>DroEre_CAF1 10546 119 + 1
CCACAAGGACCAGCUAAUGCCCAUGGGUCCAAUUGGUCCUUGGGCAUCGGGCAAAGUAGAUUGGAGCCCCAUGGCC-GGGAUAACAGGCACAAGACCCGUUGUGGACCGCUACUCGAUCA
((....))....(((.(((((((.(((.((....)).))))))))))..)))......(((((((((.(((..((.-(((...............)))))..)))...))).).))))). ( -41.06)
>DroPer_CAF1 38516 119 + 1
ACACAAGGAUCAGCUGAUGCCAAUGGGUCCGAUCGGGCCCUGGGCUUCUGGCAAGGUCGAUUGGAGUCCUAUGGCA-GGCCUGACGGGAACACGUCCUGUGGUGGAUCGUUACUCGAUCA
.(((.((((((((((..(((((..((((((....)))))).(((((((((((...))))...)))))))..)))))-)).))))((......))))))...)))(((((.....))))). ( -47.40)
>consensus
ACACAAGGACCAGCUGAUGCCCAUGGGUCCGAUUGGUCCUUGGGCAUCGGGCAAGGUGGAUUGGAGCCCCAUGGCA_GGCAUAACGGGAACAAGACCCGUUGUGGACCGCUACUCGAUCA
......(((((.((....)).....)))))((((((.....((((.((..((......).)..))))))..((((....(((((((((.......)))))))))....)))).)))))). (-25.87 = -27.38 +   1.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:51 2006