Locus 7923

Sequence ID X_DroMel_CAF1
Location 19,726,236 – 19,726,360
Length 124
Max. P 0.987006
window13001 window13002

overview

Window 1

Location 19,726,236 – 19,726,332
Length 96
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 70.64
Mean single sequence MFE -27.43
Consensus MFE -21.52
Energy contribution -21.28
Covariance contribution -0.25
Combinations/Pair 1.32
Mean z-score -1.65
Structure conservation index 0.78
SVM decision value 2.06
SVM RNA-class probability 0.987006
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19726236 96 + 22224390
UCGCCCAUCGUUCACCGUC---------CGCCGUCCAUCGCCCCGAUUCUUCCGGAACUCGGUGUCCAA------ACAUUGAAAUCCGGAGACGCCUUCAAGUGAUGUGGU
..((((((((..(((((..---------..(((...((((...)))).....)))....)))))..)..------((.(((((...((....))..))))))))))).))) ( -28.40)
>DroSec_CAF1 22167 89 + 1
UCGCCCAUUGUCCA----------------CCGUUCGUCGCCCCGAUUCUUCCGGAACUCGGUGUCCAA------ACAUCGAAAUCCGGAGCCGCCUUCAAGUUAUGUGUU
............((----------------(...(((......)))...(((((((..(((((((....------)))))))..)))))))...............))).. ( -20.60)
>DroEre_CAF1 18965 79 + 1
UCGCCCGUCGCCC-----------------------AU--C-CCUUCCCUUCCGGAACUUGGUGUCCAA------GCACCGAAAUCCGGAGCCGCCUUCAAGUGGCGUGGU
...........((-----------------------((--.-........((((((..(((((((....------)))))))..))))))(((((......))))))))). ( -30.20)
>DroYak_CAF1 19049 110 + 1
UCGUCCACCAUCCACCAUCCACCACAUCCACCGUCCAUCGC-CCGACCCUUCCGGAACUUGGUGUCCAAACCGAAACACCGAAAUCCGGAGCCGCCUUCAAAUGGCGUGGU
....................(((((.......(((......-..)))..(((((((..(((((((..........)))))))..)))))))..(((.......)))))))) ( -30.50)
>consensus
UCGCCCAUCGUCCA________________CCGUCCAUCGC_CCGACCCUUCCGGAACUCGGUGUCCAA______ACACCGAAAUCCGGAGCCGCCUUCAAGUGACGUGGU
....((((..........................................((((((..(((((((..........)))))))..))))))(((((......))))))))). (-21.52 = -21.28 +  -0.25)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 19,726,267 – 19,726,360
Length 93
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 76.95
Mean single sequence MFE -29.60
Consensus MFE -20.05
Energy contribution -19.49
Covariance contribution -0.56
Combinations/Pair 1.36
Mean z-score -1.95
Structure conservation index 0.68
SVM decision value 1.16
SVM RNA-class probability 0.924378
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19726267 93 + 22224390
CCCCGAUUCUUCCGGAACUCGGUGUCCAA------ACAUUGAAAUCCGGAGACGCCUUCAAGUGAUGUGGUGAUGUUGGGUUGUUACUUCGAUGGCCAG
...((((..(((((((..(((((((....------)))))))..))))))).((((.((....))...))))..))))(((..((.....))..))).. ( -29.10)
>DroSec_CAF1 22191 85 + 1
CCCCGAUUCUUCCGGAACUCGGUGUCCAA------ACAUCGAAAUCCGGAGCCGCCUUCAAGUUAUGUGUUG--------UUACUUCUUCGACUGCCAG
.........(((((((..(((((((....------)))))))..)))))))..((..(((((....(((...--------.)))..))).))..))... ( -22.00)
>DroEre_CAF1 18980 84 + 1
C-CCUUCCCUUCCGGAACUUGGUGUCCAA------GCACCGAAAUCCGGAGCCGCCUUCAAGUGGCGUGGUG--------UUGCUACUUCCACUAGCAG
.-........((((((..(((((((....------)))))))..))))))(((((......)))))((((.(--------(....))..))))...... ( -32.50)
>DroYak_CAF1 19089 89 + 1
C-CCGACCCUUCCGGAACUUGGUGUCCAAACCGAAACACCGAAAUCCGGAGCCGCCUUCAAAUGGCGUGGUG--------UUGUUACUUCGACG-UCGG
.-((((((((((((((..(((((((..........)))))))..))))))).((((.......)))).)).(--------(((......)))))-)))) ( -34.80)
>consensus
C_CCGACCCUUCCGGAACUCGGUGUCCAA______ACACCGAAAUCCGGAGCCGCCUUCAAGUGACGUGGUG________UUGCUACUUCGACGGCCAG
.........(((((((..(((((((..........)))))))..)))))))........((((((((..............)))))))).......... (-20.05 = -19.49 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:56 2006