Locus 4369

Sequence ID 3L_DroMel_CAF1
Location 12,817,604 – 12,817,695
Length 91
Max. P 0.942135
window6760 window6761

overview

Window 0

Location 12,817,604 – 12,817,695
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 78.24
Mean single sequence MFE -28.82
Consensus MFE -21.87
Energy contribution -21.73
Covariance contribution -0.14
Combinations/Pair 1.22
Mean z-score -1.88
Structure conservation index 0.76
SVM decision value 1.32
SVM RNA-class probability 0.942135
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12817604 91 + 23771897
GUCCUUGGCAGAGGACGCGCAGCUUCAUUUCGCGCACUUUAUAGCGGCUUACGCCACAAACGUAAGCUCCUUACGUAAUGUUUUGGAGUUA
((((((....))))))((((...........))))((((((.((((((....)))....(((((((...)))))))...))).)))))).. ( -30.40)
>DroVir_CAF1 75248 83 + 1
GUCCUUGCCAAAGGACGCAA------G--UCUCGCAUUUCGUUAAAGCUUACGCAAGAAACGUAAGCUUUGCACGUAAUUGUUAGGAACUU
((((((....))))))..((------(--(..((((.((((((((((((((((.......))))))))))).))).)).)))..)..)))) ( -28.60)
>DroSim_CAF1 58499 91 + 1
GUCCUUGGCAGAGGACGCGCAGCUUCUUUUCGCGCACUUUAUAGCGGCUUACGACACCAACGUAAGCUCCUUACGUAAUGCUUUGGAGUUA
((((((....))))))((((...........))))((((((.(((((((((((.......))))))))...........))).)))))).. ( -29.40)
>DroEre_CAF1 63258 91 + 1
GUCCUUGGCAGAGGACGCGCAGCUUCGUUUCGCGCACUUUAUGGCGGCUUACGCCACCAACGUAAGCGCUUUACGUAAUGUUUUGGAGUUA
((((((....))))))((((...........))))(((((((((.(((....))).)))(((((((...))))))).......)))))).. ( -29.80)
>DroYak_CAF1 62451 91 + 1
GUCCUUGGCAGAGGACGCGCAGCUUCUUUUCGCGCACUGUGUAGCGGCUUACGCCACCAACGUAAGCUCUUUACGUAAUGUUUUGGAGUUA
.(((..((((....((((((...........))))...(((.((.((((((((.......)))))))))).)))))..))))..))).... ( -27.10)
>DroAna_CAF1 53740 91 + 1
GUCCUUGGCAGAGGACGCGCAGCUUCAGUUGGCGCACUACUAGACGGCUUACGCAAGAAACGUAAUCCUGUCACGUAACACUCCUAAGGUA
..((((((..(((.(((((((((....))).)))).......(((((.(((((.......)))))..)))))..))....))))))))).. ( -27.60)
>consensus
GUCCUUGGCAGAGGACGCGCAGCUUCAUUUCGCGCACUUUAUAGCGGCUUACGCCACAAACGUAAGCUCUUUACGUAAUGUUUUGGAGUUA
((((((....))))))((((...........))))..........((((((((.......))))))))....................... (-21.87 = -21.73 +  -0.14)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 12,817,604 – 12,817,695
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 78.24
Mean single sequence MFE -28.13
Consensus MFE -20.73
Energy contribution -21.87
Covariance contribution 1.14
Combinations/Pair 1.22
Mean z-score -1.82
Structure conservation index 0.74
SVM decision value 1.23
SVM RNA-class probability 0.933783
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12817604 91 - 23771897
UAACUCCAAAACAUUACGUAAGGAGCUUACGUUUGUGGCGUAAGCCGCUAUAAAGUGCGCGAAAUGAAGCUGCGCGUCCUCUGCCAAGGAC
...............(((((((...)))))))..(((((....)))))......((((((........)).))))(((((......))))) ( -28.50)
>DroVir_CAF1 75248 83 - 1
AAGUUCCUAACAAUUACGUGCAAAGCUUACGUUUCUUGCGUAAGCUUUAACGAAAUGCGAGA--C------UUGCGUCCUUUGGCAAGGAC
((((..(.....(((.(((..(((((((((((.....))))))))))).))).)))..)..)--)------))..((((((....)))))) ( -26.10)
>DroSim_CAF1 58499 91 - 1
UAACUCCAAAGCAUUACGUAAGGAGCUUACGUUGGUGUCGUAAGCCGCUAUAAAGUGCGCGAAAAGAAGCUGCGCGUCCUCUGCCAAGGAC
.........(((....(....)(.(((((((.......))))))))))).....((((((........)).))))(((((......))))) ( -25.80)
>DroEre_CAF1 63258 91 - 1
UAACUCCAAAACAUUACGUAAAGCGCUUACGUUGGUGGCGUAAGCCGCCAUAAAGUGCGCGAAACGAAGCUGCGCGUCCUCUGCCAAGGAC
................((((..((((((....(((((((....)))))))..))))))((........)))))).(((((......))))) ( -32.30)
>DroYak_CAF1 62451 91 - 1
UAACUCCAAAACAUUACGUAAAGAGCUUACGUUGGUGGCGUAAGCCGCUACACAGUGCGCGAAAAGAAGCUGCGCGUCCUCUGCCAAGGAC
...............((((((.....))))))(((((((....)))))))....((((((........)).))))(((((......))))) ( -29.10)
>DroAna_CAF1 53740 91 - 1
UACCUUAGGAGUGUUACGUGACAGGAUUACGUUUCUUGCGUAAGCCGUCUAGUAGUGCGCCAACUGAAGCUGCGCGUCCUCUGCCAAGGAC
..((((.((((...(((..(((.((.((((((.....)))))).)))))..)))((((((........)).))))...))))...)))).. ( -27.00)
>consensus
UAACUCCAAAACAUUACGUAAAGAGCUUACGUUGGUGGCGUAAGCCGCUAUAAAGUGCGCGAAAAGAAGCUGCGCGUCCUCUGCCAAGGAC
...............((((((.....))))))(((((((....)))))))......(((((.........)))))(((((......))))) (-20.73 = -21.87 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:44 2006