Locus 2932

Sequence ID X_DroMel_CAF1
Location 7,841,654 – 7,841,799
Length 145
Max. P 0.841457
window4803 window4804

overview

Window 3

Location 7,841,654 – 7,841,773
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.84
Mean single sequence MFE -23.16
Consensus MFE -18.11
Energy contribution -18.36
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.78
SVM decision value 0.75
SVM RNA-class probability 0.841457
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7841654 119 + 22224390
ACCACAAGCGAAAUUGCCUGAGGGUAA-AAAUCCCCAAAAUGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGCGCAGUUCGUGAUAUCAAUAUAAAAUUCACCAUUAUCAGCCAUGUUA
....((.(((....))).)).(((...-.....)))...(((((......((((((((.....))))))))..........((((..............))))........))))).... ( -21.24)
>DroEre_CAF1 27074 119 + 1
ACCACAAGCGAAAUUGCCCGAGGGUAA-AAAUCCCCAAAAUGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUGAAAUUCACCAUUAUCAGCCAUGUUA
......(((....(((((....)))))-...........(((((..(((.((((((((.....)))))))).)))......((((..((.....))...))))........)))))))). ( -24.70)
>DroYak_CAF1 22396 119 + 1
ACCACAAGCAAAAUUGCCAGAGGGUAA-AAAUCCCCAAAAUGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUAAAAUUCACCAUUAUCAGCCAUGUUA
..(((.(((.....(((((..(((...-.....)))....))))).(((.((((((((.....)))))))).)))..))).))).................................... ( -22.90)
>DroAna_CAF1 13812 107 + 1
GCC-------------CUGGCGGGCAAAAAAAACCCCAAAUGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUAAAAUUCAACAUUAUCAGCCAUGUUA
(((-------------(....))))..............(((((..(((.((((((((.....)))))))).))).......(((((...................)))))))))).... ( -23.81)
>consensus
ACCACAAGCGAAAUUGCCAGAGGGUAA_AAAUCCCCAAAAUGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUAAAAUUCACCAUUAUCAGCCAUGUUA
.....................(((.........)))...(((((..(((.((((((((.....)))))))).))).......(((((...................)))))))))).... (-18.11 = -18.36 +   0.25)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,841,693 – 7,841,799
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.37
Mean single sequence MFE -21.50
Consensus MFE -13.69
Energy contribution -13.94
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.64
SVM decision value 0.13
SVM RNA-class probability 0.600211
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7841693 106 + 22224390
UGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGCGCAGUUCGUGAUAUCAAUAUAAAAUUCACCAUUAUCAGCCAUGUUAGCACCGCUCCCAGU---CAGCC-----AAGAAAA------
((((......((((((((.....))))))))((((......((((..............))))........((.......))..))))......---..)))-----)......------ ( -18.14)
>DroEre_CAF1 27113 109 + 1
UGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUGAAAUUCACCAUUAUCAGCCAUGUUAGCACCGCUCCCAGCCGCCAGCC-----GAAAAAA------
((((......((((((((.....)))))))).((((.....((((..((.....))...))))(((........)))...)))).((.....)).))))...-----.......------ ( -20.20)
>DroYak_CAF1 22435 112 + 1
UGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUAAAAUUCACCAUUAUCAGCCAUGUUAGCACUGCACACAGC---CAGCC-----AAAAAAAAAAAAA
((((......((((((((.....)))))))).(((((((..((((..............))))........((.......)))))))))...))---))...-----............. ( -25.64)
>DroAna_CAF1 13839 104 + 1
UGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUAAAAUUCAACAUUAUCAGCCAUGUUAGCUGCGCC--CGCC---CCGCCUCCCCGA-----------
.(((......((((((((.....)))))))).((((((((..((....))...........(((((........))))))))))))).--....---..))).......----------- ( -22.00)
>consensus
UGGCAUCAUAAAAUCAUUUAAUUGAUGAUUUAGUGCAGUUCGUGAUAUCAAUAUAAAAUUCACCAUUAUCAGCCAUGUUAGCACCGCUCCCAGC___CAGCC_____AAAAAAA______
((((..(((.((((((((.....)))))))).))).......(((((...................)))))))))............................................. (-13.69 = -13.94 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:58 2006