Locus 5117

Sequence ID 2L_DroMel_CAF1
Location 14,543,324 – 14,543,453
Length 129
Max. P 0.687815
window8147 window8148

overview

Window 7

Location 14,543,324 – 14,543,417
Length 93
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 69.65
Mean single sequence MFE -24.32
Consensus MFE -6.98
Energy contribution -8.40
Covariance contribution 1.42
Combinations/Pair 1.13
Mean z-score -1.97
Structure conservation index 0.29
SVM decision value 0.03
SVM RNA-class probability 0.548008
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14543324 93 - 22407834
AAAGUGG--AAAA---UACACCGAAAAAUAGCGGA---GGC-----AUGUUGGCAA---CUUGGCCGACCAGCCCAA-A--ACCCCAAAACCCCUUA----CCUAC---ACU-UUACAGU
((((((.--....---....(((........))).---(((-----..((((((..---....))))))..)))...-.--................----....)---)))-))..... ( -22.00)
>DroSec_CAF1 75194 94 - 1
AAAGUGG--AAAA---UACACCGAAAAAUAGCGGA---GGC-----AUGUUGGCAA---CUUGGCCGACCAGCCCAAAA--ACCCCAAGCCCCCUUA----CCGCC---ACU-UUACAGU
(((((((--....---....(((........))).---(((-----..((((((..---....))))))..))).....--................----...))---)))-))..... ( -24.80)
>DroSim_CAF1 61011 94 - 1
AAAGUGG--AAAA---UACACCGAAAAAUAGCGGA---GGC-----AUGUUGGCAA---CUUGGCCGAACAGCCCAAAA--ACCCCAAGCCCCCUUA----CCGCC---ACU-UUACAGU
(((((((--....---....(((........))).---(((-----.(((((((..---....))).))))))).....--................----...))---)))-))..... ( -23.60)
>DroEre_CAF1 70232 83 - 1
AAAGUGG--AAAA---UACACCGAAAAAUAGCGGA---GGC-----ACGUUGGUGG---CCUGGCCGACCAGCCCCAAA--AGCCC---------------CUGCC---ACU-UUACAGU
(((((((--....---....(((........))).---(((-----...((((.((---(.(((....)))))))))).--.))).---------------...))---)))-))..... ( -28.90)
>DroYak_CAF1 66134 86 - 1
AAAGUGG--AAAA---UACACCGAAAAAUAGCGGA---GGC-----AUGUUGGCAAACCCCAAGCCC--AAGCCCCCACCCCGCCC---------------CUGCC---ACU-UUACAGU
(((((((--....---....(((........))).---(((-----.((..(((.........))))--).)))............---------------...))---)))-))..... ( -19.10)
>DroPer_CAF1 87761 110 - 1
AAAGUGGGGAAAAUACUACACCGAAAAAUUGCUAAAAAGGCCAAAAGCGUCGGCAA---GUCAGCCGCC----GCGACU--GCCUCGCCCCUCCCUCCCGACUGACUCUGGUUUUACAG-
..(((.((((...........(((....)))......((((.....(((.((((..---....)))).)----))....--))))..........)))).)))....(((......)))- ( -27.50)
>consensus
AAAGUGG__AAAA___UACACCGAAAAAUAGCGGA___GGC_____AUGUUGGCAA___CUUGGCCGACCAGCCCAAAA__ACCCCAA_CCCCCUUA____CCGCC___ACU_UUACAGU
...(((..............(((........)))....(((.......((((((.........))))))..)))........................................)))... ( -6.98 =  -8.40 +   1.42)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,543,355 – 14,543,453
Length 98
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 86.70
Mean single sequence MFE -32.88
Consensus MFE -23.94
Energy contribution -24.75
Covariance contribution 0.81
Combinations/Pair 1.14
Mean z-score -3.16
Structure conservation index 0.73
SVM decision value 0.32
SVM RNA-class probability 0.687815
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14543355 98 - 22407834
GGGGCAACUUGUGGCCAUAAAUUUGCGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUAGCGGAGGCAUGUUGGCAA---CUUGGCCGACCAGCCCAA-A-
.((((........(((.....(((((((...))))))).............(((........))).)))..((((((..---....))))))..))))..-.- ( -34.10)
>DroSec_CAF1 75225 99 - 1
GGGGCAACUUGUGGCCAUAAAUUUGCGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUAGCGGAGGCAUGUUGGCAA---CUUGGCCGACCAGCCCAAAA-
.((((........(((.....(((((((...))))))).............(((........))).)))..((((((..---....))))))..))))....- ( -34.10)
>DroSim_CAF1 61042 99 - 1
GGGGCAACUUGUGGCCAUAAAUUUGCGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUAGCGGAGGCAUGUUGGCAA---CUUGGCCGAACAGCCCAAAA-
.((((........(((.....(((((((...))))))).............(((........))).))).(((((((..---....))).))))))))....- ( -32.50)
>DroEre_CAF1 70252 99 - 1
GGGGCAACUUGUGGCCAUAAAUUUGCGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUAGCGGAGGCACGUUGGUGG---CCUGGCCGACCAGCCCCAAA-
(((((.......((((((...(((((((...))))))).(((.......))).......(((((......)))))))))---))(((....))))))))...- ( -37.80)
>DroYak_CAF1 66155 101 - 1
GGGGCAAGUUGUGGCCAUAAAUUUGCGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUAGCGGAGGCAUGUUGGCAAACCCCAAGCCC--AAGCCCCCACC
(((((....((((.((((...(((((((...))))))).))))....))))(((........))).(((...((((......))))))).--..))))).... ( -33.40)
>DroAna_CAF1 13784 87 - 1
GGGGCAACUUGUGGCCAUAAAUUUGUGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUUGCAGAGGCAAGUCGGA-----------CGA----CACACCA-
(((....).((((.((((...(((((((...))))))).))))........((((....((((....)))).)))).-----------...----)))))).- ( -25.40)
>consensus
GGGGCAACUUGUGGCCAUAAAUUUGCGCACAGCGCAAAAGUGGAAAAUACACCGAAAAAUAGCGGAGGCAUGUUGGCAA___CUUGGCCGACCAGCCCAAAA_
.((((........(((.....(((((((...))))))).............(((........))).)))...(((((.........)))))...))))..... (-23.94 = -24.75 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:26 2006