Locus 5794

Sequence ID 2L_DroMel_CAF1
Location 16,430,407 – 16,430,592
Length 185
Max. P 0.866326
window9188 window9189

overview

Window 8

Location 16,430,407 – 16,430,497
Length 90
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 83.66
Mean single sequence MFE -22.93
Consensus MFE -17.51
Energy contribution -18.15
Covariance contribution 0.64
Combinations/Pair 1.08
Mean z-score -2.75
Structure conservation index 0.76
SVM decision value 0.85
SVM RNA-class probability 0.866326
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16430407 90 - 22407834
UC-CUUUCGGU--CGUUGUUAGUUUGAAUGCGUUUUCGCAUUUAUAUGCAAAUUUUUUGGUUUGCAUGCAGAAAAUAUUG--CUUUCGACAAAUG---
..-........--.((((..(((.((((((((....))))))))((((((((((....))))))))))...........)--))..)))).....--- ( -23.70)
>DroVir_CAF1 28655 91 - 1
GG-CGCUGC-UUU--UUGUUAGCCUGAAUGUGUUUUCGCAUUUAUAUGCAAAUU-UUUGGUUUGCAUGCAGAAAAUAUAG--CUUUCGUUGGGUGUUA
((-((((..-(((--((((.....((((((((....)))))))).((((((((.-....)))))))))))))))...(((--(....)))))))))). ( -23.30)
>DroPse_CAF1 32275 90 - 1
UC-CUUUUGGU--CGUUGUUAGUUUGAAUGCGUUUUCGCAUUUAUAUGCAAAUUUUUUGGUUUGCAUGCAGAAAAUAUUG--CUUUCGACAAAUG---
.(-(....)).--.((((..(((.((((((((....))))))))((((((((((....))))))))))...........)--))..)))).....--- ( -24.10)
>DroWil_CAF1 58513 93 - 1
UCACUUUUAGU--CGUUGUUAGUUUGAAUGCGUUUUCGCAUUUAUAUGCUAAUUUUUUGGUUUGCAUGCAGAAAAUAUUGCGCUUUCGACAAAUG---
.........((--((..((((((.((((((((....))))))))...))))((((((((.........)))))))).....))...)))).....--- ( -20.90)
>DroMoj_CAF1 25411 93 - 1
GC-CGUUGCCUUU--UUGUUAGCUUGAAUGUAUUUUCACAUUUAUAUGCAAAUUUUUUGGUUUGCAUGCGAAAUAUAUUG--CUUUCGUUGGCUGUUA
..-....(((...--.((..(((.(((((((......)))))))((((((((((....))))))))))...........)--))..))..)))..... ( -21.50)
>DroPer_CAF1 30725 90 - 1
UC-CUUUUGGU--CGUUGUUAGUUUGAAUGCGUUUUCGCAUUUAUAUGCAAAUUUUUUGGUUUGCAUGCAGAAAAUAUUG--CUUUCGACAAAUG---
.(-(....)).--.((((..(((.((((((((....))))))))((((((((((....))))))))))...........)--))..)))).....--- ( -24.10)
>consensus
UC_CUUUUGGU__CGUUGUUAGUUUGAAUGCGUUUUCGCAUUUAUAUGCAAAUUUUUUGGUUUGCAUGCAGAAAAUAUUG__CUUUCGACAAAUG___
..............((((..((..((((((((....))))))))((((((((((....))))))))))..............))..))))........ (-17.51 = -18.15 +   0.64)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,430,497 – 16,430,592
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 86.48
Mean single sequence MFE -30.32
Consensus MFE -23.48
Energy contribution -25.12
Covariance contribution 1.64
Combinations/Pair 1.04
Mean z-score -1.92
Structure conservation index 0.77
SVM decision value 0.75
SVM RNA-class probability 0.839668
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16430497 95 + 22407834
GGAGCGAAAUGCAGGACGCGGAUAUUGCUGUGGACUGAGAACUGGGACUGCAAAUGGAGCUGUAGCUUCAGUUUCAGUUUCGUGGGGUAUUCAGG
...(((((((.(((..(((((......)))))..))).(((((((..(((((........)))))..)))))))..)))))))............ ( -30.50)
>DroSec_CAF1 54852 95 + 1
GGAGCGAAAUGCAGGACGCGGAUAUUGCUGUGGACUGAGAACUGGGACUGCAAAUGGAGCUGUAGCUUCAGUUUCAGUUUCGUGGGGUACUCAGG
...........(((..(((((......)))))..)))....((((((((.((...(((((((.(((....))).))))))).)).))).))))). ( -32.90)
>DroSim_CAF1 55213 95 + 1
GGAGCGAAAUGCAGGACGCGGAUAUUGCUGUGGACUGAGAACUGGGACUGCAAAUGGAGCUGUAGCUUCAGUUUCAGUUUCGUGGGGUAUUCAGG
...(((((((.(((..(((((......)))))..))).(((((((..(((((........)))))..)))))))..)))))))............ ( -30.50)
>DroEre_CAF1 49827 74 + 1
GGAGCGAAAUGCAGGACGCGGAUGUGGCUGUGGACUGAGAACUGGGACUGCAAAUGGAGCUGUAGCUCCAUCCU---------------------
(((......(((((..(((((......)))))..((.(....).)).)))))..((((((....))))))))).--------------------- ( -25.00)
>DroYak_CAF1 56203 92 + 1
GGAGCGAAGUGCAGGACGCGGAUAUUGCAGUGGACUGAGAACUGGGACUGCAAAUGGAGCUGUAGCUUCAGUUUCAGUUUCG--GGGCAUUC-GG
....((((...(((..(((..........)))..))).(..(((..((((.((.((((((....)))))).)).))))..))--)..).)))-). ( -32.70)
>consensus
GGAGCGAAAUGCAGGACGCGGAUAUUGCUGUGGACUGAGAACUGGGACUGCAAAUGGAGCUGUAGCUUCAGUUUCAGUUUCGUGGGGUAUUCAGG
(((((......(((..(((((......)))))..))).(((((((..(((((........)))))..)))))))..))))).............. (-23.48 = -25.12 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:04 2006