Locus 5920

Sequence ID X_DroMel_CAF1
Location 15,275,444 – 15,275,539
Length 95
Max. P 0.977211
window9609 window9610

overview

Window 9

Location 15,275,444 – 15,275,539
Length 95
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 80.10
Mean single sequence MFE -31.14
Consensus MFE -25.16
Energy contribution -27.08
Covariance contribution 1.92
Combinations/Pair 1.07
Mean z-score -2.26
Structure conservation index 0.81
SVM decision value 1.79
SVM RNA-class probability 0.977211
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15275444 95 + 22224390
UAAGGAUAUGCGCGACUGUUACAAAAAAAUGUUUGUAGCCAGGCCCAAAGCUCGGCCCUGUCGCCU--CCGCAUCGCCGCCUGCCGCACAUCCUUGC--------------
(((((((.((((((((.((((((((......))))))))..((((........))))..)))))..--..(((........))).))).))))))).-------------- ( -33.90)
>DroPse_CAF1 102423 85 + 1
GCAGGAUGUGCGCGACUGUUACAAAAAAA--GUUGUAGCCAUGCCCAAAGGAAAGCACUGUCGCCUGUCCGCUUCCC-----------CAUCCCAGGC-------------
((.(((((.(((((...(((((((.....--.)))))))..))).....(((..((......))...))))).....-----------)))))...))------------- ( -20.80)
>DroSec_CAF1 99392 96 + 1
UAAGGAUAUGCGCGACUGUUACAAAAUAAUGUUUGUAGCCAGGCCCAAAGCUCGGCCCUCUCGCCU--CCGCAUCGCCGCCUGCCGCACAUCCUUGCA-------------
(((((((.((((.(...((((((((......))))))))(((((.....((..(((......))).--..))......)))))))))).)))))))..------------- ( -31.20)
>DroEre_CAF1 88215 95 + 1
UAAGGAUAUGCGCGACUGUUACAAA-AAAUGUUUGUAGCCAGGCCCAAAGCUCGGUCCUGUCGCCU--CCGCAUCGCCGCCUGCCGCACAUCCUUGCC-------------
(((((((.((((((((.((((((((-.....)))))))).(((.((.......)).))))))))..--..(((........))).))).)))))))..------------- ( -31.80)
>DroYak_CAF1 87648 109 + 1
UAAGGAUAUGCGCGACUGUUACAAAAAAAUGUUUGUAGCCAGGCCCAAAACUCGGCCCUGUCGCCU--CCGCAUCGCCGCCUGCCGCAUAUCCUUGCCUCACCCCCCCGCU
((((((((((((((((.((((((((......))))))))..((((........))))..)))))..--..(((........))).)))))))))))............... ( -38.00)
>consensus
UAAGGAUAUGCGCGACUGUUACAAAAAAAUGUUUGUAGCCAGGCCCAAAGCUCGGCCCUGUCGCCU__CCGCAUCGCCGCCUGCCGCACAUCCUUGCC_____________
(((((((.((((((((.((((((((......))))))))..((((........))))..)))))......(((........))).))).)))))))............... (-25.16 = -27.08 +   1.92)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,275,444 – 15,275,539
Length 95
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 80.10
Mean single sequence MFE -35.62
Consensus MFE -31.50
Energy contribution -32.02
Covariance contribution 0.52
Combinations/Pair 1.20
Mean z-score -1.45
Structure conservation index 0.88
SVM decision value 0.44
SVM RNA-class probability 0.737418
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15275444 95 - 22224390
--------------GCAAGGAUGUGCGGCAGGCGGCGAUGCGG--AGGCGACAGGGCCGAGCUUUGGGCCUGGCUACAAACAUUUUUUUGUAACAGUCGCGCAUAUCCUUA
--------------..((((((((((.(((........)))..--..(((((.(((((........))))).(.((((((......)))))).).))))))))))))))). ( -39.10)
>DroPse_CAF1 102423 85 - 1
-------------GCCUGGGAUG-----------GGGAAGCGGACAGGCGACAGUGCUUUCCUUUGGGCAUGGCUACAAC--UUUUUUUGUAACAGUCGCGCACAUCCUGC
-------------....((((((-----------(((((((..((.(....).))))))))).....((.(((((((((.--.....))))...))))).)).)))))).. ( -25.70)
>DroSec_CAF1 99392 96 - 1
-------------UGCAAGGAUGUGCGGCAGGCGGCGAUGCGG--AGGCGAGAGGGCCGAGCUUUGGGCCUGGCUACAAACAUUAUUUUGUAACAGUCGCGCAUAUCCUUA
-------------...(((((((((((.(((((..(((.((..--.(((......)))..)).))).)))))(.((((((......)))))).).....))))))))))). ( -38.30)
>DroEre_CAF1 88215 95 - 1
-------------GGCAAGGAUGUGCGGCAGGCGGCGAUGCGG--AGGCGACAGGACCGAGCUUUGGGCCUGGCUACAAACAUUU-UUUGUAACAGUCGCGCAUAUCCUUA
-------------...((((((((((.(((........)))..--..((((((((.((((...)))).))).(.((((((.....-)))))).).))))))))))))))). ( -35.60)
>DroYak_CAF1 87648 109 - 1
AGCGGGGGGGUGAGGCAAGGAUAUGCGGCAGGCGGCGAUGCGG--AGGCGACAGGGCCGAGUUUUGGGCCUGGCUACAAACAUUUUUUUGUAACAGUCGCGCAUAUCCUUA
.((...........))((((((((((.(((........)))..--..(((((.(((((........))))).(.((((((......)))))).).))))))))))))))). ( -39.40)
>consensus
_____________GGCAAGGAUGUGCGGCAGGCGGCGAUGCGG__AGGCGACAGGGCCGAGCUUUGGGCCUGGCUACAAACAUUUUUUUGUAACAGUCGCGCAUAUCCUUA
................((((((((((.(((........)))......(((((.(((((........))))).(.((((((......)))))).).))))))))))))))). (-31.50 = -32.02 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:38 2006