Locus 8020

Sequence ID X_DroMel_CAF1
Location 19,940,257 – 19,940,352
Length 95
Max. P 0.999941
window13163 window13164

overview

Window 3

Location 19,940,257 – 19,940,352
Length 95
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 71.43
Mean single sequence MFE -27.67
Consensus MFE -15.77
Energy contribution -16.13
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -3.10
Structure conservation index 0.57
SVM decision value 4.71
SVM RNA-class probability 0.999941
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19940257 95 + 22224390
ACAUUUGUGUGUUGGCCAGAAUAGAGUUUGGCCAUUAAAUUCGAGUGGAAUGAAUGGGGCAACAUAGUCGCCACACACACA------CACACACAAGCAGA
...(((((((((((((((((......))))))))..........(((...((..((((((......))).)))..))..))------)))))))))).... ( -30.80)
>DroEre_CAF1 43567 73 + 1
-------------GGCCAGAAUUGAGUUUGGCCAUAAAAAGCGAGUGGAAUGAAUGGGGCUACAAAGUCGC---------C------CGCACACAAACACA
-------------(((((((......)))))))...........(((...((..((((((.((...)).))---------)------).))..))..))). ( -22.10)
>DroYak_CAF1 45234 98 + 1
---UUUGUGUGUUGGCCAGAAUAGAGUUUGGCCAUAAAAGUCGAGUGGAAUGAAUGGGGCAACAAAGUCGUUACACACACCCAUACCCACACAAACACACA
---..(((((((((((((((......)))))))...........((((...(.(((((.....................))))).)))))...)))))))) ( -30.10)
>consensus
___UUUGUGUGUUGGCCAGAAUAGAGUUUGGCCAUAAAAAUCGAGUGGAAUGAAUGGGGCAACAAAGUCGC_ACACACACC______CACACACAAACACA
.....(((((((.(((((((......)))))))......................(.(((......))).).)))))))...................... (-15.77 = -16.13 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,940,257 – 19,940,352
Length 95
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 71.43
Mean single sequence MFE -29.07
Consensus MFE -11.42
Energy contribution -13.00
Covariance contribution 1.58
Combinations/Pair 1.00
Mean z-score -3.29
Structure conservation index 0.39
SVM decision value 0.40
SVM RNA-class probability 0.723147
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19940257 95 - 22224390
UCUGCUUGUGUGUG------UGUGUGUGUGGCGACUAUGUUGCCCCAUUCAUUCCACUCGAAUUUAAUGGCCAAACUCUAUUCUGGCCAACACACAAAUGU
.....(((((((((------((((.(((.((((((...)))))).))).))...)))..........((((((..........)))))))))))))).... ( -30.60)
>DroEre_CAF1 43567 73 - 1
UGUGUUUGUGUGCG------G---------GCGACUUUGUAGCCCCAUUCAUUCCACUCGCUUUUUAUGGCCAAACUCAAUUCUGGCC-------------
.(((..((.(((.(------(---------((.........))))))).))...)))...........(((((..........)))))------------- ( -19.10)
>DroYak_CAF1 45234 98 - 1
UGUGUGUUUGUGUGGGUAUGGGUGUGUGUAACGACUUUGUUGCCCCAUUCAUUCCACUCGACUUUUAUGGCCAAACUCUAUUCUGGCCAACACACAAA---
((((((((((.(((((.(((((((.(.((((((....)))))).))))))))))))).)))......((((((..........)))))))))))))..--- ( -37.50)
>consensus
UGUGUUUGUGUGUG______GGUGUGUGU_GCGACUUUGUUGCCCCAUUCAUUCCACUCGAAUUUUAUGGCCAAACUCUAUUCUGGCCAACACACAAA___
......................(((((((.(((((...)))))........................((((((..........)))))))))))))..... (-11.42 = -13.00 +   1.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:25 2006