Locus 309

Sequence ID 3L_DroMel_CAF1
Location 904,498 – 904,602
Length 104
Max. P 0.998316
window462 window463

overview

Window 2

Location 904,498 – 904,602
Length 104
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 75.23
Mean single sequence MFE -32.44
Consensus MFE -11.17
Energy contribution -14.69
Covariance contribution 3.52
Combinations/Pair 1.08
Mean z-score -2.80
Structure conservation index 0.34
SVM decision value 3.06
SVM RNA-class probability 0.998316
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 904498 104 + 23771897
ACCAUUAUGCAACACAUACUCACACACACA----------CACUCGCUGUCUCGUUUAUCUGUCCUGUUUGUGUGUGUGUGUGUGUUUGUGAGUUGGUGCGGUUCUUUUGGCAU
.(((....((..(((..(((((((.(((((----------(((.(((...(.((..((.......))..)).).))).)))))))).)))))))..)))..)).....)))... ( -34.80)
>DroSec_CAF1 47046 94 + 1
GCCAUUAUCCAACACAUACUCACAUACUCG--------------CGCUGCCUCGUUUAUCUGUCCUCG----GUGUGU--GUGUGUUUGUGAGUUGGUGCGGUUCUUUUGGCAU
((((....((..(((..(((((((.((.((--------------(((((((................)----))).))--))).)).)))))))..))).))......)))).. ( -31.09)
>DroSim_CAF1 43586 96 + 1
GCCAUUAUGCAACACAUACUCACACACACA--------------CGCUGCCUCGUUUAUCUGUCCUCG----GUGUGUGUGUGUGUUUGUGAGUUGGUGCGGUUCUUUUGGCAU
((((....((..(((..(((((((((((((--------------(((((((................)----))).))))))))))..))))))..)))..)).....)))).. ( -37.99)
>DroEre_CAF1 50225 96 + 1
UCCAUUAUGCAACACAUACCCACACAUGCACACUUGCACACAUGCGCCGCCUCGUUUAUCUGUGCCGUGU------------------CUGUGUUGGUGCGGUUCCUUUGGCAU
.(((....(.(((.(.((((.(((((.((((....(((((.(((.((......)).))).))))).))))------------------.))))).)))).)))).)..)))... ( -26.30)
>DroYak_CAF1 49118 108 + 1
GCCAUUAUGCAACACAUACCCACACACCCAC------ACACAUGCGCUGCCUCGUUUAUCUGUCCCGUGUCUGUUGGUGUGUCUGUGUCUGUGUUGGUGCGGUUCUUUUGGCAU
((((...((((((((((((..(((((((.((------(.(((((.((..............))..))))).))).)))))))..)))..)))))...)))).......)))).. ( -32.04)
>consensus
GCCAUUAUGCAACACAUACUCACACACACA__________CA__CGCUGCCUCGUUUAUCUGUCCUGU_U__GUGUGUGUGUGUGUUUGUGAGUUGGUGCGGUUCUUUUGGCAU
.........((((.(((((.((((((((((...........................................)))))))))).))..))).))))((((.(......).)))) (-11.17 = -14.69 +   3.52) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 904,498 – 904,602
Length 104
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 75.23
Mean single sequence MFE -27.81
Consensus MFE -8.28
Energy contribution -9.76
Covariance contribution 1.48
Combinations/Pair 1.06
Mean z-score -1.87
Structure conservation index 0.30
SVM decision value 0.55
SVM RNA-class probability 0.777487
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 904498 104 - 23771897
AUGCCAAAAGAACCGCACCAACUCACAAACACACACACACACACAAACAGGACAGAUAAACGAGACAGCGAGUG----------UGUGUGUGUGAGUAUGUGUUGCAUAAUGGU
...........((((........((((.((.(((((((((((((...(......).....((......)).)))----------)))))))))).)).))))........)))) ( -30.89)
>DroSec_CAF1 47046 94 - 1
AUGCCAAAAGAACCGCACCAACUCACAAACACAC--ACACAC----CGAGGACAGAUAAACGAGGCAGCG--------------CGAGUAUGUGAGUAUGUGUUGGAUAAUGGC
..((((......((((((..(((((((.......--.....(----(..(..........)..))..((.--------------...)).)))))))..))).)))....)))) ( -21.60)
>DroSim_CAF1 43586 96 - 1
AUGCCAAAAGAACCGCACCAACUCACAAACACACACACACAC----CGAGGACAGAUAAACGAGGCAGCG--------------UGUGUGUGUGAGUAUGUGUUGCAUAAUGGC
..((((........((((..((((((..((((((((.(...(----(..(..........)..))..).)--------------)))))))))))))..)))).......)))) ( -28.86)
>DroEre_CAF1 50225 96 - 1
AUGCCAAAGGAACCGCACCAACACAG------------------ACACGGCACAGAUAAACGAGGCGGCGCAUGUGUGCAAGUGUGCAUGUGUGGGUAUGUGUUGCAUAAUGGA
...(((..(.(((((.(((.(((((.------------------((((.(((((.((...((......)).)).)))))..))))...))))).))).)).))).)....))). ( -27.30)
>DroYak_CAF1 49118 108 - 1
AUGCCAAAAGAACCGCACCAACACAGACACAGACACACCAACAGACACGGGACAGAUAAACGAGGCAGCGCAUGUGU------GUGGGUGUGUGGGUAUGUGUUGCAUAAUGGC
..((((...(.....)..(((((((...((..(((((((.(((.(((((...........))..((...)).))).)------)).)))))))..)).))))))).....)))) ( -30.40)
>consensus
AUGCCAAAAGAACCGCACCAACUCACAAACACACACACACAC__A_ACAGGACAGAUAAACGAGGCAGCG__UG__________UGUGUGUGUGAGUAUGUGUUGCAUAAUGGC
..((((......(.((((..(((((((.((.........................................................)).)))))))..)))).).....)))) ( -8.28 =  -9.76 +   1.48) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:54 2006