Locus 4560

Sequence ID 2L_DroMel_CAF1
Location 13,064,354 – 13,064,446
Length 92
Max. P 0.924557
window7183 window7184

overview

Window 3

Location 13,064,354 – 13,064,446
Length 92
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 78.03
Mean single sequence MFE -22.51
Consensus MFE -6.08
Energy contribution -7.96
Covariance contribution 1.88
Combinations/Pair 1.16
Mean z-score -2.28
Structure conservation index 0.27
SVM decision value 1.16
SVM RNA-class probability 0.924557
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13064354 92 + 22407834
UCCCAGCGAGACUGCA---GUACGUACAUACGUAUAUACCAUCAAACAAACGGUUCCUGCCUCUAGAAU------------CUGUACCUGCAGCUC----UGCAUUUGAAU
.....(((((.(((((---((((((((....))))................(((....)))........------------..))).)))))))))----.))........ ( -22.60)
>DroSec_CAF1 45984 92 + 1
UCCCAGCGAGACUGCA---GCACGUACAUACAUAUAUACCAGCAAACAAACGGCUCCUGCCGCUUGUAU------------CUGUACCUGCAGCUC----UGCAUUUGAAU
.....(((((.(((((---(...(((((((....)))........((((.((((....)))).))))..------------..)))))))))))))----.))........ ( -26.90)
>DroSim_CAF1 41681 104 + 1
UCCCAGCGAGACUGCA---GCACGUACAUACAUAUAUACCAGCAAACAAACGGCUCCUGCCGCUUGUAUCUGUAUCUGUAUCUGUACCUGCAGCUC----UGCAUUUGAAU
.....(((((.(((((---(...(((((((((.(((...(((...((((.((((....)))).))))..)))))).))))..))))))))))))))----.))........ ( -34.00)
>DroEre_CAF1 45843 91 + 1
UCCCAGCGAAACUCCACCAAUACGUAUAU--------ACCUCCAAGCAAACGCCUCCUUCCUCUUGUAU------------CUGUAUCUGCAGCUCUGGCUGCAUUUGAAU
......((((.........(((((.((((--------(.......((....))...........)))))------------.))))).((((((....))))))))))... ( -12.87)
>DroYak_CAF1 45652 93 + 1
UCCCAGCGAGACUCCA---ACACAUAUAUACUCGU--ACCUCCAA-CAAACGACUCCUGCCUCUUGUAU------------CUGUGCCUGCAGCUCUGGCUGCAUUUGAAU
...((((.(((((.((---.((((.(((((.((((--........-...))))(....).....)))))------------.))))..)).)).))).))))......... ( -16.20)
>consensus
UCCCAGCGAGACUGCA___GCACGUACAUACAUAUAUACCACCAAACAAACGGCUCCUGCCUCUUGUAU____________CUGUACCUGCAGCUC____UGCAUUUGAAU
.....(((((.(((((...((((((....))....................(((....)))......................)))).)))))))).....))........ ( -6.08 =  -7.96 +   1.88)

alignment

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secondary structure

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dotplot

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Window 4

Location 13,064,354 – 13,064,446
Length 92
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 78.03
Mean single sequence MFE -29.60
Consensus MFE -14.90
Energy contribution -16.26
Covariance contribution 1.36
Combinations/Pair 1.28
Mean z-score -1.94
Structure conservation index 0.50
SVM decision value 0.33
SVM RNA-class probability 0.689912
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13064354 92 - 22407834
AUUCAAAUGCA----GAGCUGCAGGUACAG------------AUUCUAGAGGCAGGAACCGUUUGUUUGAUGGUAUAUACGUAUGUACGUAC---UGCAGUCUCGCUGGGA
.(((....((.----((((((((((((((.------------.((((......))))((((((.....)))))).........)))))...)---))))).)))))..))) ( -25.60)
>DroSec_CAF1 45984 92 - 1
AUUCAAAUGCA----GAGCUGCAGGUACAG------------AUACAAGCGGCAGGAGCCGUUUGUUUGCUGGUAUAUAUGUAUGUACGUGC---UGCAGUCUCGCUGGGA
.(((....((.----(((((((((...(((------------..(((((((((....)))))))))...)))((((((....))))))...)---))))).)))))..))) ( -37.90)
>DroSim_CAF1 41681 104 - 1
AUUCAAAUGCA----GAGCUGCAGGUACAGAUACAGAUACAGAUACAAGCGGCAGGAGCCGUUUGUUUGCUGGUAUAUAUGUAUGUACGUGC---UGCAGUCUCGCUGGGA
.(((....((.----((((((((((((((..((((.((((((..(((((((((....)))))))))...)).))))...)))))))))...)---))))).)))))..))) ( -40.90)
>DroEre_CAF1 45843 91 - 1
AUUCAAAUGCAGCCAGAGCUGCAGAUACAG------------AUACAAGAGGAAGGAGGCGUUUGCUUGGAGGU--------AUAUACGUAUUGGUGGAGUUUCGCUGGGA
.......((((((....)))))).......------------...............((((...((((.(.(((--------((....)))))..).))))..)))).... ( -19.60)
>DroYak_CAF1 45652 93 - 1
AUUCAAAUGCAGCCAGAGCUGCAGGCACAG------------AUACAAGAGGCAGGAGUCGUUUG-UUGGAGGU--ACGAGUAUAUAUGUGU---UGGAGUCUCGCUGGGA
.......(.((((.(((.((.(((.((((.------------((((....(((....)))..(((-(.......--))))))))...)))))---)).))))).)))).). ( -24.00)
>consensus
AUUCAAAUGCA____GAGCUGCAGGUACAG____________AUACAAGAGGCAGGAGCCGUUUGUUUGCUGGUAUAUAUGUAUGUACGUGC___UGCAGUCUCGCUGGGA
...............((((((((.((((.................((((.(((....))).)))).......((((((....))))))))))...))))).)))....... (-14.90 = -16.26 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:01 2006