Locus 2202

Sequence ID 2L_DroMel_CAF1
Location 5,941,588 – 5,941,717
Length 129
Max. P 0.550573
window3545 window3546

overview

Window 5

Location 5,941,588 – 5,941,678
Length 90
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 88.75
Mean single sequence MFE -27.32
Consensus MFE -19.59
Energy contribution -19.52
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.46
Structure conservation index 0.72
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5941588 90 + 22407834
GUGGGCCGGCAU-AUCAUGCUGCAGGAUUGAUAGCUGUUUGCUAAUUUUGAGUUUUCCGCAUACGCCUAGUAUGACGGGUACUCCAGGUCA
...((((((((.-..((.(((((......).))))))..))))......((((..(((((((((.....))))).)))).))))..)))). ( -29.70)
>DroSec_CAF1 4230 85 + 1
GUGGGCCGGCAUUAUCAUGCUGCAGGAUUGAUAGCUGUUUGCUAAU-UUGAGUUUUCCGCAUACGCCUAGUAUGACGGGUACUCC-----A
...(((..(((((((((..(.....)..)))))).)))..)))...-..((((..(((((((((.....))))).)))).)))).-----. ( -25.10)
>DroEre_CAF1 4305 89 + 1
GUGGGCCGGCAU-AUCAUGCUGCAGGAUUGAUAGCUGUUUGCUAAUUUUGAGU-UGCUGCAUACGCCUGGUAUGACGGAUAUACCAGUUCG
.(((.(((.(((-((((.(((((((((((.(((((.....))))....).)))-).)))))...)).))))))).))).....)))..... ( -27.20)
>DroYak_CAF1 3976 89 + 1
GUGGGCCGGCAU-AUCAUGCUGCAGGAUUGAUAGCUGUUUGCUAAUUUUGAGU-UUCUGCAUGCGCCUAGUAUGACGGAAAUAACAGGUCA
...(((((((((-...))))).((((((...((((.....)))))))))).((-((((((((((.....))))).)))))))....)))). ( -27.30)
>consensus
GUGGGCCGGCAU_AUCAUGCUGCAGGAUUGAUAGCUGUUUGCUAAUUUUGAGU_UUCCGCAUACGCCUAGUAUGACGGAUACACCAGGUCA
......((((((....))))))((((((...((((.....)))))))))).....(((((((((.....))))).))))............ (-19.59 = -19.52 +  -0.06)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 5,941,615 – 5,941,717
Length 102
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 83.22
Mean single sequence MFE -30.77
Consensus MFE -22.85
Energy contribution -23.23
Covariance contribution 0.37
Combinations/Pair 1.19
Mean z-score -1.50
Structure conservation index 0.74
SVM decision value 0.03
SVM RNA-class probability 0.550573
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5941615 102 + 22407834
UGAUAGCUGUUUGCUAAUUUUGAGUUUUCCGCAUACGCCUAGUAUGACGGGUACUCCAGGUCAGCGGGUGUGUAUGGAAA-GACCACGUAUAUGGCUGUAAUC
..((((((..(((((.((((.((((..(((((((((.....))))).)))).)))).)))).)))))(((((..(((...-..)))..))))))))))).... ( -34.30)
>DroSec_CAF1 4258 96 + 1
UGAUAGCUGUUUGCUAAU-UUGAGUUUUCCGCAUACGCCUAGUAUGACGGGUACUCC-----AGCGGGUGUGUAUGGAAA-GACCACGUGUAUGGCUGUAAUC
..((((((((........-..((((..(((((((((.....))))).)))).)))).-----.(((.(((.((.(....)-.))))).))))))))))).... ( -28.80)
>DroEre_CAF1 4332 100 + 1
UGAUAGCUGUUUGCUAAUUUUGAGU-UGCUGCAUACGCCUGGUAUGACGGAUAUACCAGUUCGGCGGAUGUGGUGGGAA--CUCCACGUAUAUGGUUGUAAUC
...((((.....)))).......((-(((..(((((((((((((((.....)))))))....)))).((((((.(....--).)))))).))))...))))). ( -29.70)
>DroYak_CAF1 4003 102 + 1
UGAUAGCUGUUUGCUAAUUUUGAGU-UUCUGCAUGCGCCUAGUAUGACGGAAAUAACAGGUCAGCGGCUGCGAUGGGAAACAUCCGCGUAUAUGGCUGUAAUC
..((((((((.(((.........((-((((((((((.....))))).)))))))....(((.....)))(((...(....)...)))))).)))))))).... ( -30.30)
>consensus
UGAUAGCUGUUUGCUAAUUUUGAGU_UUCCGCAUACGCCUAGUAUGACGGAUACACCAGGUCAGCGGGUGUGUAGGGAAA_GACCACGUAUAUGGCUGUAAUC
..(((((((((((((.((((.((((...((((((((.....))))).)))..)))).)))).)))))..(((............)))....)))))))).... (-22.85 = -23.23 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:04 2006