Locus 7280

Sequence ID 3R_DroMel_CAF1
Location 19,224,196 – 19,224,290
Length 94
Max. P 0.854064
window11778 window11779

overview

Window 8

Location 19,224,196 – 19,224,290
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 80.96
Mean single sequence MFE -26.08
Consensus MFE -16.36
Energy contribution -16.78
Covariance contribution 0.42
Combinations/Pair 1.13
Mean z-score -1.60
Structure conservation index 0.63
SVM decision value 0.07
SVM RNA-class probability 0.570147
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19224196 94 + 27905053
--------UUCGGCCAAAAGGUGCCAAUGUGGCAAAUGUUUUGUGCUUAACAGUUUUAUGGCUGCCAUAAGUUGGC-CGGAGUGUGGUAAAUGCUGCUGCCAC
--------(((((((((..(....)..(((((((.(((..((((.....))))...)))...)))))))..)))))-))))..((((((........)))))) ( -31.00)
>DroVir_CAF1 39206 85 + 1
---------UUGGCCAAAAGGUGCCAAUGUGGCAAAUGUUGUGCGCUUAACAUUUUUAUGACCACCAUAAGUCGUCUUAGAAUGUGGUAAAUGU---------
---------...(((...((((((((((((.....)))))).)))))).(((((((...(((.((.....)).)))..))))))))))......--------- ( -23.00)
>DroPse_CAF1 33167 99 + 1
GUUUUUUCGUUGGCCAAAAGGUGCCAAUGUGGCAAAUGUUUUGUGCUUAACAUUUUUAUGGCUGCCAUAAGUUGGC-UAGAAUGUGGUAAAUGCUGCAGG---
.....(((...(((((......(((.....)))(((((((........)))))))...)))))((((.....))))-..)))((..((....))..))..--- ( -26.00)
>DroGri_CAF1 35704 94 + 1
---------UUGGCAUAAAGGUGCCAAUGUGGCAAAUGUUGUGAGCUUAACAUUUUUAUGGCUAACAUAAGUCGACUUAGAAUGUAGUAAAUGUGGCAGACUC
---------(((((((....)))))))(((.((((((((((......)))))))......((((...((((....)))).....))))...))).)))..... ( -22.90)
>DroAna_CAF1 20504 94 + 1
--------UUCGGCCAAAAGGUGCCAAUGUGGCAAAUGUUUUGUGCUUAACAUUUUUAUGGCUGCCAUAAGUUGGC-CAGAGUGUGGUAAAUACUGCAGUUAC
--------...((((((....((((.....))))((((((........))))))(((((((...))))))))))))-).((.((..((....))..)).)).. ( -28.00)
>DroPer_CAF1 33216 99 + 1
GUUUUUUUGUUGGCCAAAAGGUGCCAAUGUGGCAAAUGUUUUGUGCUUAACAUUUUUAUGGCUGCCAUAAGUUGGC-UAGAAUGUGGUAAAUGCUGCAGG---
.........((((((((....((((.....))))((((((........))))))(((((((...))))))))))))-)))..((..((....))..))..--- ( -25.60)
>consensus
_________UUGGCCAAAAGGUGCCAAUGUGGCAAAUGUUUUGUGCUUAACAUUUUUAUGGCUGCCAUAAGUUGGC_UAGAAUGUGGUAAAUGCUGCAGG___
...........(((((......(((.....)))(((((((........)))))))...)))))((((((..((......)).))))))............... (-16.36 = -16.78 +   0.42)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,224,196 – 19,224,290
Length 94
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.96
Mean single sequence MFE -19.72
Consensus MFE -13.60
Energy contribution -13.85
Covariance contribution 0.25
Combinations/Pair 1.17
Mean z-score -2.10
Structure conservation index 0.69
SVM decision value 0.80
SVM RNA-class probability 0.854064
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19224196 94 - 27905053
GUGGCAGCAGCAUUUACCACACUCCG-GCCAACUUAUGGCAGCCAUAAAACUGUUAAGCACAAAACAUUUGCCACAUUGGCACCUUUUGGCCGAA--------
((((............))))....((-(((((....((((((........)))))).............((((.....))))....)))))))..-------- ( -25.60)
>DroVir_CAF1 39206 85 - 1
---------ACAUUUACCACAUUCUAAGACGACUUAUGGUGGUCAUAAAAAUGUUAAGCGCACAACAUUUGCCACAUUGGCACCUUUUGGCCAA---------
---------......((((.....((((....))))))))(((((...(((((((........)))))))(((.....)))......)))))..--------- ( -17.50)
>DroPse_CAF1 33167 99 - 1
---CCUGCAGCAUUUACCACAUUCUA-GCCAACUUAUGGCAGCCAUAAAAAUGUUAAGCACAAAACAUUUGCCACAUUGGCACCUUUUGGCCAACGAAAAAAC
---..................(((..-((((.....)))).((((...(((((((........)))))))(((.....)))......))))....)))..... ( -19.80)
>DroGri_CAF1 35704 94 - 1
GAGUCUGCCACAUUUACUACAUUCUAAGUCGACUUAUGUUAGCCAUAAAAAUGUUAAGCUCACAACAUUUGCCACAUUGGCACCUUUAUGCCAA---------
(((.((...(((((((((........)))....(((((.....)))))))))))..)))))...............((((((......))))))--------- ( -14.90)
>DroAna_CAF1 20504 94 - 1
GUAACUGCAGUAUUUACCACACUCUG-GCCAACUUAUGGCAGCCAUAAAAAUGUUAAGCACAAAACAUUUGCCACAUUGGCACCUUUUGGCCGAA--------
........................((-(((((.((((((...))))))(((((((........)))))))(((.....))).....)))))))..-------- ( -21.50)
>DroPer_CAF1 33216 99 - 1
---CCUGCAGCAUUUACCACAUUCUA-GCCAACUUAUGGCAGCCAUAAAAAUGUUAAGCACAAAACAUUUGCCACAUUGGCACCUUUUGGCCAACAAAAAAAC
---.......................-((((.....)))).((((...(((((((........)))))))(((.....)))......))))............ ( -19.00)
>consensus
___CCUGCAGCAUUUACCACAUUCUA_GCCAACUUAUGGCAGCCAUAAAAAUGUUAAGCACAAAACAUUUGCCACAUUGGCACCUUUUGGCCAA_________
...........................((((.....)))).((((...(((((((........)))))))(((.....)))......))))............ (-13.60 = -13.85 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:59 2006