Locus 5827

Sequence ID X_DroMel_CAF1
Location 15,074,551 – 15,074,683
Length 132
Max. P 0.941461
window9454 window9455

overview

Window 4

Location 15,074,551 – 15,074,657
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.79
Mean single sequence MFE -20.67
Consensus MFE -11.80
Energy contribution -12.88
Covariance contribution 1.09
Combinations/Pair 1.12
Mean z-score -1.94
Structure conservation index 0.57
SVM decision value 0.14
SVM RNA-class probability 0.602007
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15074551 106 - 22224390
UUCACAUUCCCCCCAAGC-------AAUGUGAAGCCC-UCGCAAAUCCA------ACAAAACUCCGUCUUCUUCAGACAUAAGCCAUGGCCAGGACAGGCCAACACACCCUUGAGAUUAU
((((((((.(......).-------))))))))((..-..)).((((((------(.........((((.....))))........(((((......)))))........))).)))).. ( -22.00)
>DroSec_CAF1 35724 105 - 1
UUCACAUUCC-CCCAACC-------GAUGUGAAGCCC-UCGCAAAUCCA------ACAAAACUCCGUCUUCUUCAGACAUAAGCCAUGGCCAGGACAGGCCAACACACCCUUGAGAUUAU
((((((((..-.......-------))))))))((..-..)).((((((------(.........((((.....))))........(((((......)))))........))).)))).. ( -21.60)
>DroAna_CAF1 28099 99 - 1
GACCCACUCC-CCCCA--------------GAAAUCC-CCAGCAAUCCACUUGCUCCACAACUCCAUCUUGCUCAGGCGA-----ACAGCCGGGACAGACGAAAACACCCUUGAGAUUAU
..........-.....--------------.......-..(((((.....)))))................(((((((..-----...)))(((.............))).))))..... ( -14.52)
>DroSim_CAF1 21669 105 - 1
UUCACAUUCC-CCCAACC-------GAUGUGAAGCCC-UCGCAAAUCCA------ACAAAACUCCGUCUUCUUCAGACAUAAGCCAUGGCCAGGACAGGCCAACACACCCUUGAGAUUAU
((((((((..-.......-------))))))))((..-..)).((((((------(.........((((.....))))........(((((......)))))........))).)))).. ( -21.60)
>DroEre_CAF1 26684 105 - 1
UUCACAGUCC-CCCAACC-------GAUGUGAAACCC-UCGCAAAUCCA------ACAAAACUCCGUCUUCUUCCGACAUAAGCCAUGGCCAGGACAGGCCAACACACCCUUGAGAUUAU
((((((.((.-.......-------))))))))...(-((.........------..........(((.......)))........(((((......)))))..........)))..... ( -18.90)
>DroYak_CAF1 28605 113 - 1
CUCGCAUUGC-CCCAAACCCGUCGCAUUGCGAAACCCGUCGCAAAUCCA------ACAAAACUCCGUCGUCUUCAGACAUAAGCCAUGGCCAGAACAGGCCAACACACCCUUGAGAUUAU
.(((((.(((-..(......)..))).)))))...........((((((------(.........(((.......)))........(((((......)))))........))).)))).. ( -25.40)
>consensus
UUCACAUUCC_CCCAACC_______GAUGUGAAACCC_UCGCAAAUCCA______ACAAAACUCCGUCUUCUUCAGACAUAAGCCAUGGCCAGGACAGGCCAACACACCCUUGAGAUUAU
...........................(((((......)))))..................(((.(((.......)))........(((((......)))))..........)))..... (-11.80 = -12.88 +   1.09)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,074,591 – 15,074,683
Length 92
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 90.00
Mean single sequence MFE -18.46
Consensus MFE -13.35
Energy contribution -13.79
Covariance contribution 0.44
Combinations/Pair 1.11
Mean z-score -2.96
Structure conservation index 0.72
SVM decision value 1.32
SVM RNA-class probability 0.941461
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15074591 92 - 22224390
UUACUCAUACGCCCCGUUGCUC-GGCAUUCACAUUCCCCCCAAGC-------AAUGUGAAGCCC-UCGCAAAUCCAACAAAACUCCGUCUUCUUCAGACAU
................((((..-(((.((((((((.(......).-------))))))))))).-..))))...............((((.....)))).. ( -19.00)
>DroSec_CAF1 35764 91 - 1
UUACUCAUACGCCCCGUUGCUC-GGCAUUCACAUUCC-CCCAACC-------GAUGUGAAGCCC-UCGCAAAUCCAACAAAACUCCGUCUUCUUCAGACAU
................((((..-(((.((((((((..-.......-------))))))))))).-..))))...............((((.....)))).. ( -18.60)
>DroSim_CAF1 21709 91 - 1
UUACUCAUACGCCCCGUUGCUC-GGCAUUCACAUUCC-CCCAACC-------GAUGUGAAGCCC-UCGCAAAUCCAACAAAACUCCGUCUUCUUCAGACAU
................((((..-(((.((((((((..-.......-------))))))))))).-..))))...............((((.....)))).. ( -18.60)
>DroEre_CAF1 26724 91 - 1
UUACACAUACGCCCCGUUGCUC-GGCAUUCACAGUCC-CCCAACC-------GAUGUGAAACCC-UCGCAAAUCCAACAAAACUCCGUCUUCUUCCGACAU
................((((..-((..((((((.((.-.......-------))))))))..))-..))))...............(((.......))).. ( -13.10)
>DroYak_CAF1 28645 100 - 1
UUACUCAUACGCCCCGUUGCUCCGGCACUCGCAUUGC-CCCAAACCCGUCGCAUUGCGAAACCCGUCGCAAAUCCAACAAAACUCCGUCGUCUUCAGACAU
................((((..(((...(((((.(((-..(......)..))).)))))...)))..))))...............(((.......))).. ( -23.00)
>consensus
UUACUCAUACGCCCCGUUGCUC_GGCAUUCACAUUCC_CCCAACC_______GAUGUGAAGCCC_UCGCAAAUCCAACAAAACUCCGUCUUCUUCAGACAU
................((((...(((.((((((((.................)))))))))))....))))...............(((.......))).. (-13.35 = -13.79 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:18 2006