Locus 4478

Sequence ID 2L_DroMel_CAF1
Location 12,832,100 – 12,832,195
Length 95
Max. P 0.991151
window7043 window7044

overview

Window 3

Location 12,832,100 – 12,832,195
Length 95
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 72.20
Mean single sequence MFE -25.27
Consensus MFE -12.84
Energy contribution -14.27
Covariance contribution 1.43
Combinations/Pair 1.05
Mean z-score -1.90
Structure conservation index 0.51
SVM decision value 1.05
SVM RNA-class probability 0.906980
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12832100 95 + 22407834
--------CGGCAACAAUAUGGCAAACAUAUUAUGGCCAUUUGUACUGGAGUGUAUAACACAGAGUGUGCAACACCCACAACACUAAGGGCCACCAAA---------------UGAGG
--------.((....((((((.....)))))).(((((...(((..(((.((((...((((...))))...)))))))..))).....)))))))...---------------..... ( -26.00)
>DroSec_CAF1 12921 110 + 1
--------CGGCAACAAUAUGGCAAACAUAUUAUGUCCAUUUGUACUGGAGUGUAUAACACAGAGUGUGCAACACCCACAACACUAAGGGUCACCAGAAGGGGCAUGGGCACUUGGGG
--------.(....)((((((.....)))))).(((((((.(((..(((.((((...((((...))))...)))))))..)))......(((.((....))))))))))))....... ( -29.00)
>DroSim_CAF1 13586 109 + 1
--------CGGCAACAAUAUGGCAAACAUAUUAUGGCCAUUUGUACUGGAGUGUAUAACACAAAGUGUGCAACACCCACAACACUAAGGGCCACCAGGAG-GGCAUGGGCACUUGGGG
--------.(((...((((((.....))))))...)))...(((..(((.((((...((((...))))...)))))))..)))(((((.(((.((....)-).....))).))))).. ( -33.30)
>DroEre_CAF1 18665 78 + 1
--------CGGCAACAAUAUGGCAAACAUAUUAUGGCCAUUUGUACUGGAGUGCAGAGCACAGAGUGUGCAACACCCACAACAC--------------------------------AG
--------.(((...((((((.....))))))...))).(((((((....)))))))((((.....))))..............--------------------------------.. ( -22.60)
>DroYak_CAF1 13307 92 + 1
UAGAGUGCAAGCAACAAUAUGGCAAACAUAUUAUGGCCAUUUGUACUGGAGUGCAUAACACAGAGUGUGCAACACCCACAACAUCGGGG-U-------------------------GG
...(((((((((...((((((.....))))))...))...)))))))...(..(((........)))..)..(((((.(......))))-)-------------------------). ( -26.30)
>DroAna_CAF1 38541 76 + 1
--------CUGCAACAAUAUGGCAAACAUAUUAUGGCCAUUUGUACUCGAGUGCAUAACA-------GGCAACACCCACAUAACACAGAGC---------------------------
--------(((....((((((.....))))))...(((...(((((....))))).....-------)))...............)))...--------------------------- ( -14.40)
>consensus
________CGGCAACAAUAUGGCAAACAUAUUAUGGCCAUUUGUACUGGAGUGCAUAACACAGAGUGUGCAACACCCACAACACUAAGGGC_________________________GG
.........(((...((((((.....))))))...)))...(((..(((.(((....((((...))))....))))))..)))................................... (-12.84 = -14.27 +   1.43)

alignment

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secondary structure

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dotplot

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Window 4

Location 12,832,100 – 12,832,195
Length 95
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 72.20
Mean single sequence MFE -28.30
Consensus MFE -22.81
Energy contribution -23.52
Covariance contribution 0.71
Combinations/Pair 1.11
Mean z-score -2.25
Structure conservation index 0.81
SVM decision value 2.25
SVM RNA-class probability 0.991151
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12832100 95 - 22407834
CCUCA---------------UUUGGUGGCCCUUAGUGUUGUGGGUGUUGCACACUCUGUGUUAUACACUCCAGUACAAAUGGCCAUAAUAUGUUUGCCAUAUUGUUGCCG--------
.....---------------...(((((((.((.((((((.((((((.((((.....))))...)))))))))))).)).))))((((((((.....)))))))).))).-------- ( -32.40)
>DroSec_CAF1 12921 110 - 1
CCCCAAGUGCCCAUGCCCCUUCUGGUGACCCUUAGUGUUGUGGGUGUUGCACACUCUGUGUUAUACACUCCAGUACAAAUGGACAUAAUAUGUUUGCCAUAUUGUUGCCG--------
.......................((..((.....((((((.((((((.((((.....))))...))))))))))))..((((.((.........))))))...))..)).-------- ( -27.10)
>DroSim_CAF1 13586 109 - 1
CCCCAAGUGCCCAUGCC-CUCCUGGUGGCCCUUAGUGUUGUGGGUGUUGCACACUUUGUGUUAUACACUCCAGUACAAAUGGCCAUAAUAUGUUUGCCAUAUUGUUGCCG--------
....(((.(((...(((-.....)))))).))).((((((.((((((.((((.....))))...))))))))))))....(((.((((((((.....)))))))).))).-------- ( -35.00)
>DroEre_CAF1 18665 78 - 1
CU--------------------------------GUGUUGUGGGUGUUGCACACUCUGUGCUCUGCACUCCAGUACAAAUGGCCAUAAUAUGUUUGCCAUAUUGUUGCCG--------
.(--------------------------------((((((.((((((.((((.....))))...)))))))))))))...(((.((((((((.....)))))))).))).-------- ( -30.50)
>DroYak_CAF1 13307 92 - 1
CC-------------------------A-CCCCGAUGUUGUGGGUGUUGCACACUCUGUGUUAUGCACUCCAGUACAAAUGGCCAUAAUAUGUUUGCCAUAUUGUUGCUUGCACUCUA
..-------------------------.-......(((..(((((((.((((.....))))...)))).)))..)))...(((.((((((((.....)))))))).)))......... ( -23.20)
>DroAna_CAF1 38541 76 - 1
---------------------------GCUCUGUGUUAUGUGGGUGUUGCC-------UGUUAUGCACUCGAGUACAAAUGGCCAUAAUAUGUUUGCCAUAUUGUUGCAG--------
---------------------------((((.((((...(..((.....))-------..)...))))..)))).......((.((((((((.....)))))))).))..-------- ( -21.60)
>consensus
CC_________________________GCCCUUAGUGUUGUGGGUGUUGCACACUCUGUGUUAUACACUCCAGUACAAAUGGCCAUAAUAUGUUUGCCAUAUUGUUGCCG________
..................................((((((.((((((.((((.....))))...))))))))))))....(((.((((((((.....)))))))).)))......... (-22.81 = -23.52 +   0.71)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:46 2006