Locus 6040

Sequence ID 2L_DroMel_CAF1
Location 17,009,654 – 17,009,760
Length 106
Max. P 0.769504
window9589 window9590

overview

Window 9

Location 17,009,654 – 17,009,760
Length 106
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.21
Mean single sequence MFE -28.98
Consensus MFE -18.70
Energy contribution -18.35
Covariance contribution -0.36
Combinations/Pair 1.23
Mean z-score -2.02
Structure conservation index 0.65
SVM decision value 0.53
SVM RNA-class probability 0.769504
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17009654 106 + 22407834
--CCAUUC--CCGCUCGUGUAUCGUUUUGCAAGCUUGAGCGAAAAUGCAAAGAGCUGAAAAAUGCAAUAAGUAAAACGUAAUAACU---GCUCAGGAGCUGUGAACGGUUGGC
--((.(((--(.((((.((....(((((((.(((((..((......))...)))))(.......).....)))))))(((.....)---)).)).)))).).))).))..... ( -23.60)
>DroPse_CAF1 132155 98 + 1
CAGCAGUC--CUGGUCCUGUAUCGUUUUGCAAGCUCCAGUGCAAAUGCAAAGAGCGCAAAAAUGCAAUAAGUAAAAUGUAAUAACU---GCUCAGGACUCAGG----------
.......(--(((((((((...((((((((..((((...(((....)))..))))(((....))).....))))))))........---...)))))).))))---------- ( -32.84)
>DroEre_CAF1 119411 106 + 1
--CCAUUC--CCGCUCCUGUAUCGUUUUGCAAGCUCGAGCGAAAAUGCAAAGAGCUGAAAAAUGCAAUAAGUAAAACGUAAUAACU---GCUCAGGAGCUGUGAACGGUUGGC
--((.(((--(.(((((((....(((((((.(((((..((......))...)))))(.......).....)))))))(((.....)---)).))))))).).))).))..... ( -29.80)
>DroYak_CAF1 119755 106 + 1
--CCUUGC--CAGCUCCUGUAUCGCUUUGCAAGCUCGAGCGAAAAUGCAAAGAGCUGAAAAAUGCAAUAAGUAAAACGUAAUAACU---GCUCAGGAGCUGUGAACGGUUGGC
--((..((--(((((((((....(((((((((((((..((......))...)))))......))))..)))).....(((.....)---)).))))))))(....)))).)). ( -30.70)
>DroAna_CAF1 110192 111 + 1
--CCAUUGCACCUCUCCCAUAUCGUUUUGCAAGCUCUAGCGAAAAUGCAAAGAGCAGAAAAAUGCAAUAAGUAAAACGUAAUAACUGGAGCUCAGGAGCCGAGAACGCUUGCC
--.....((.(((((((.....((((((((..(((((.((......))..))))).(.......).....))))))))........))))...))).))((((....)))).. ( -24.12)
>DroPer_CAF1 141530 98 + 1
CAGCAGUC--CUGGUCCUGUAUCGUUUUGCAAGCUCCAGUGCAAAUGCAAAGAGCGCAAAAAUGCAAUAAGUAAAAUGUAAUAACU---GCUCAGGACUCAGG----------
.......(--(((((((((...((((((((..((((...(((....)))..))))(((....))).....))))))))........---...)))))).))))---------- ( -32.84)
>consensus
__CCAUUC__CCGCUCCUGUAUCGUUUUGCAAGCUCGAGCGAAAAUGCAAAGAGCUGAAAAAUGCAAUAAGUAAAACGUAAUAACU___GCUCAGGAGCCGUGAACGGUUGGC
............(((((((...((((((((..((((..((......))...)))).......(......)))))))))..............))))))).............. (-18.70 = -18.35 +  -0.36)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 17,009,654 – 17,009,760
Length 106
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 81.21
Mean single sequence MFE -31.93
Consensus MFE -15.47
Energy contribution -15.42
Covariance contribution -0.05
Combinations/Pair 1.15
Mean z-score -2.63
Structure conservation index 0.48
SVM decision value 0.27
SVM RNA-class probability 0.661633
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17009654 106 - 22407834
GCCAACCGUUCACAGCUCCUGAGC---AGUUAUUACGUUUUACUUAUUGCAUUUUUCAGCUCUUUGCAUUUUCGCUCAAGCUUGCAAAACGAUACACGAGCGG--GAAUGG--
.....((((((...((((.((.((---(((...............)))))............((((((.....((....)).))))))......)).))))..--))))))-- ( -24.26)
>DroPse_CAF1 132155 98 - 1
----------CCUGAGUCCUGAGC---AGUUAUUACAUUUUACUUAUUGCAUUUUUGCGCUCUUUGCAUUUGCACUGGAGCUUGCAAAACGAUACAGGACCAG--GACUGCUG
----------((((.((((((.((---(((...............)))))..(((((((((((.(((....)))..)))))..)))))).....)))))))))--)....... ( -34.96)
>DroEre_CAF1 119411 106 - 1
GCCAACCGUUCACAGCUCCUGAGC---AGUUAUUACGUUUUACUUAUUGCAUUUUUCAGCUCUUUGCAUUUUCGCUCGAGCUUGCAAAACGAUACAGGAGCGG--GAAUGG--
.....((((((...(((((((.((---(((...............))))).((((.((((((...((......))..)))).)).)))).....)))))))..--))))))-- ( -33.56)
>DroYak_CAF1 119755 106 - 1
GCCAACCGUUCACAGCUCCUGAGC---AGUUAUUACGUUUUACUUAUUGCAUUUUUCAGCUCUUUGCAUUUUCGCUCGAGCUUGCAAAGCGAUACAGGAGCUG--GCAAGG--
.....((.....(((((((((.((---(((...............))))).........(.(((((((..(((....)))..))))))).)...)))))))))--....))-- ( -33.76)
>DroAna_CAF1 110192 111 - 1
GGCAAGCGUUCUCGGCUCCUGAGCUCCAGUUAUUACGUUUUACUUAUUGCAUUUUUCUGCUCUUUGCAUUUUCGCUAGAGCUUGCAAAACGAUAUGGGAGAGGUGCAAUGG--
(..((((((.((.((((....))).).)).....))))))..).(((((((((((((((((((..((......)).)))))(((.....)))....)))))))))))))).-- ( -30.10)
>DroPer_CAF1 141530 98 - 1
----------CCUGAGUCCUGAGC---AGUUAUUACAUUUUACUUAUUGCAUUUUUGCGCUCUUUGCAUUUGCACUGGAGCUUGCAAAACGAUACAGGACCAG--GACUGCUG
----------((((.((((((.((---(((...............)))))..(((((((((((.(((....)))..)))))..)))))).....)))))))))--)....... ( -34.96)
>consensus
GCCAACCGUUCACAGCUCCUGAGC___AGUUAUUACGUUUUACUUAUUGCAUUUUUCAGCUCUUUGCAUUUUCGCUCGAGCUUGCAAAACGAUACAGGAGCGG__GAAUGG__
...............((((((.((...(((...........)))....))............((((((..(((....)))..))))))......))))))............. (-15.47 = -15.42 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:29 2006