Locus 3298

Sequence ID 2R_DroMel_CAF1
Location 11,247,900 – 11,247,993
Length 93
Max. P 0.993091
window5400 window5401

overview

Window 0

Location 11,247,900 – 11,247,993
Length 93
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 89.47
Mean single sequence MFE -23.18
Consensus MFE -21.00
Energy contribution -21.20
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.91
SVM decision value 2.37
SVM RNA-class probability 0.993091
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11247900 93 + 20766785
GGUUUCUAUUUAGUGCACUCUUAAAAGUGUCACUUUUUAUGAGGCAUUAAGUGCAACUCCU-UUGGAGAUACCAAGAUUAUGC---UUACCUUUC-AG
(((...((((((((((.(((..(((((.....)))))...)))))))))))))...((((.-..))))..)))..........---.........-.. ( -22.40)
>DroSec_CAF1 34717 94 + 1
GGUUUCUAUUUAGUGCACUCUUAAAAGUGUCACUUUUUAUGAGGCAUUAAGUGCAACUCCUUUUGGAGAUACCAAGAUUAUGC---UUACCUUUC-AG
(((...((((((((((.(((..(((((.....)))))...)))))))))))))...((((....))))..)))..........---.........-.. ( -24.50)
>DroSim_CAF1 37370 93 + 1
GGUUUCUAUUUAGUGCACUCUUAAAAGCGUCACUUUUUAUGAGGCAUUAAGUGCAACUCCUUUUGGAGAUACCAAGAUUAUGC---UUACA-UUC-AG
(((...((((((((((.(((..(((((.....)))))...)))))))))))))...((((....))))..)))..........---.....-...-.. ( -23.70)
>DroEre_CAF1 36577 97 + 1
GGUUUCUAUUUAGUGCGCCCUUAAAAGUGACACUUUUUAUGAGGCAUUAAGUGCAACUCC-UCUAGAGAUACCGCGAUUAAGUGGACUACCUUUCUAG
(((.((((((((((((((((..(((((.....)))))...).)))...........(((.-....))).....)).))))))))))..)))....... ( -23.90)
>DroYak_CAF1 35962 95 + 1
GGUUUCUAUUUAGUGCACCCUUAAAAGUGACACUUUUUACGGGGCAUUAAGUGCAACUUCUUUUAGAGAUACCCAGAUUAAGC---UUACCUUUCUAG
(((.((((((((((((.(((..(((((.....)))))...))))))))))))....((......))))).)))..........---............ ( -21.40)
>consensus
GGUUUCUAUUUAGUGCACUCUUAAAAGUGUCACUUUUUAUGAGGCAUUAAGUGCAACUCCUUUUGGAGAUACCAAGAUUAUGC___UUACCUUUC_AG
(((...((((((((((.(((..(((((.....)))))...)))))))))))))...((((....))))..)))......................... (-21.00 = -21.20 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,247,900 – 11,247,993
Length 93
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 89.47
Mean single sequence MFE -19.88
Consensus MFE -16.08
Energy contribution -15.84
Covariance contribution -0.24
Combinations/Pair 1.12
Mean z-score -1.36
Structure conservation index 0.81
SVM decision value -0.03
SVM RNA-class probability 0.517721
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11247900 93 - 20766785
CU-GAAAGGUAA---GCAUAAUCUUGGUAUCUCCAA-AGGAGUUGCACUUAAUGCCUCAUAAAAAGUGACACUUUUAAGAGUGCACUAAAUAGAAACC
((-(..(((((.---.((......))(((.((((..-.)))).)))......))))).......((((.(((((....)))))))))...)))..... ( -19.80)
>DroSec_CAF1 34717 94 - 1
CU-GAAAGGUAA---GCAUAAUCUUGGUAUCUCCAAAAGGAGUUGCACUUAAUGCCUCAUAAAAAGUGACACUUUUAAGAGUGCACUAAAUAGAAACC
((-(..(((((.---.((......))(((.((((....)))).)))......))))).......((((.(((((....)))))))))...)))..... ( -21.40)
>DroSim_CAF1 37370 93 - 1
CU-GAA-UGUAA---GCAUAAUCUUGGUAUCUCCAAAAGGAGUUGCACUUAAUGCCUCAUAAAAAGUGACGCUUUUAAGAGUGCACUAAAUAGAAACC
((-(.(-((...---((((.......(((.((((....)))).))).....))))..)))....((((.(((((....)))))))))...)))..... ( -20.60)
>DroEre_CAF1 36577 97 - 1
CUAGAAAGGUAGUCCACUUAAUCGCGGUAUCUCUAGA-GGAGUUGCACUUAAUGCCUCAUAAAAAGUGUCACUUUUAAGGGCGCACUAAAUAGAAACC
.......((....))..........(((.(((...((-((.((((....)))).)))).......(((((.((....))))))).......))).))) ( -17.50)
>DroYak_CAF1 35962 95 - 1
CUAGAAAGGUAA---GCUUAAUCUGGGUAUCUCUAAAAGAAGUUGCACUUAAUGCCCCGUAAAAAGUGUCACUUUUAAGGGUGCACUAAAUAGAAACC
(((((.(((...---.)))..)))))(((((.((...((((((.((((((..(((...)))..)))))).)))))).))))))).............. ( -20.10)
>consensus
CU_GAAAGGUAA___GCAUAAUCUUGGUAUCUCCAAAAGGAGUUGCACUUAAUGCCUCAUAAAAAGUGACACUUUUAAGAGUGCACUAAAUAGAAACC
.......(((................(((.((((....)))).)))..(((.((((((...(((((.....)))))..))).))).)))......))) (-16.08 = -15.84 +  -0.24)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:08 2006