Locus 6175

Sequence ID 2L_DroMel_CAF1
Location 17,224,418 – 17,224,533
Length 115
Max. P 0.600528
window9870 window9871

overview

Window 0

Location 17,224,418 – 17,224,533
Length 115
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 76.41
Mean single sequence MFE -25.50
Consensus MFE -7.72
Energy contribution -10.32
Covariance contribution 2.60
Combinations/Pair 1.17
Mean z-score -1.72
Structure conservation index 0.30
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17224418 115 + 22407834
CUUUAGUGAAGG--GGCAAAUGAUGGGAUUUUCUUUUUGUGUGGUUAUCAAUAACAAAAUAAAUAAAUUCAAUUGGACUUAAAUGGUUGUUUUGUCACUUUUGCUAAUGGUGAGCUU
..((((..((((--((((((.....((((((...((((((.((.....))...)))))).....)))))).....((((.....))))..)))))).))))..)))).......... ( -23.50)
>DroSec_CAF1 67630 113 + 1
CUUUAGUGAAGGGGGGCAAAUGAUGGGAUUUUCUUAUUGUGUGUUUAUCAAUAACAAAAU----AAAUUCAAUUGGACUUAAAUGGUUGUUUUGCCCCUUUUGCUAGAGGUGAGCUA
(((((((.(((((((((((((((....(((((.((((((.........)))))).)))))----....)))....((((.....))))..)))))))))))))))))))........ ( -33.50)
>DroSim_CAF1 69698 111 + 1
CUUUAGUGAAGG--GGCAAAUGAUGGGAUUUUCUUUUUGUGUGGUUAUCAAUAACAAAAU----AAAUUCAAUUGGACUUAAAUGGUUGUUUUGUCACUUUUGCUAGAGGUGAACUU
((((((..((((--((((((.....((((((...((((((.((.....))...)))))).----)))))).....((((.....))))..)))))).))))..))))))........ ( -28.20)
>DroEre_CAF1 67299 95 + 1
CUUUAGUGGAGG--GGCAAAUGAUGGGAUUUUCUUUUUGUGUGGCUAC-AAUAGCGACAU----AAAUUCAAU-----------GGUGGCUUUUUCACCU----UUGAGGUGAACGA
((((((((((((--(((..((.((.(((((.......(((((.((((.-..)))).))))----)))))).))-----------.)).))))))))))..----.)))))....... ( -22.91)
>DroYak_CAF1 68182 89 + 1
CUUUAGUGAAGG--GCAAAAUGAUGGGUUUAUCUUGUUGUGUGGUUACCAAUAACGAAAC----AAAUUCAAU-------------UGGUUUUGC---------UAAAGGUGAACAA
((((((..((.(--((...(..(..((.....))..)..)...)))((((((...(((..----...))).))-------------))))))..)---------)))))........ ( -19.40)
>consensus
CUUUAGUGAAGG__GGCAAAUGAUGGGAUUUUCUUUUUGUGUGGUUAUCAAUAACAAAAU____AAAUUCAAUUGGACUUAAAUGGUUGUUUUGUCACUUUUGCUAGAGGUGAACUA
((((((((((((...(((((..(..((.....))..)..)...((((....))))....................................))))..))))))))))))........ ( -7.72 = -10.32 +   2.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,224,418 – 17,224,533
Length 115
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 76.41
Mean single sequence MFE -13.70
Consensus MFE -0.04
Energy contribution 0.08
Covariance contribution -0.12
Combinations/Pair 1.25
Mean z-score -1.27
Structure conservation index 0.00
SVM decision value 0.14
SVM RNA-class probability 0.600528
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17224418 115 - 22407834
AAGCUCACCAUUAGCAAAAGUGACAAAACAACCAUUUAAGUCCAAUUGAAUUUAUUUAUUUUGUUAUUGAUAACCACACAAAAAGAAAAUCCCAUCAUUUGCC--CCUUCACUAAAG
.............(((((((((((((((.....((((((......)))))).......))))))))))................((........)).))))).--............ ( -10.90)
>DroSec_CAF1 67630 113 - 1
UAGCUCACCUCUAGCAAAAGGGGCAAAACAACCAUUUAAGUCCAAUUGAAUUU----AUUUUGUUAUUGAUAAACACACAAUAAGAAAAUCCCAUCAUUUGCCCCCCUUCACUAAAG
..(((.......)))....((((((((......((((((......))))))..----(((((.((((((.........)))))).))))).......))))))))............ ( -21.50)
>DroSim_CAF1 69698 111 - 1
AAGUUCACCUCUAGCAAAAGUGACAAAACAACCAUUUAAGUCCAAUUGAAUUU----AUUUUGUUAUUGAUAACCACACAAAAAGAAAAUCCCAUCAUUUGCC--CCUUCACUAAAG
.............(((((((((((((((.((..((((((......))))))))----.))))))))))................((........)).))))).--............ ( -11.40)
>DroEre_CAF1 67299 95 - 1
UCGUUCACCUCAA----AGGUGAAAAAGCCACC-----------AUUGAAUUU----AUGUCGCUAUU-GUAGCCACACAAAAAGAAAAUCCCAUCAUUUGCC--CCUCCACUAAAG
...(((...((((----.((((.......))))-----------.)))).(((----.(((.((((..-.)))).))).)))..)))................--............ ( -13.50)
>DroYak_CAF1 68182 89 - 1
UUGUUCACCUUUA---------GCAAAACCA-------------AUUGAAUUU----GUUUCGUUAUUGGUAACCACACAACAAGAUAAACCCAUCAUUUUGC--CCUUCACUAAAG
........(((((---------(....((((-------------((((((...----..))))..))))))..........((((((.........)))))).--......)))))) ( -11.20)
>consensus
UAGUUCACCUCUAGCAAAAGUGACAAAACAACCAUUUAAGUCCAAUUGAAUUU____AUUUUGUUAUUGAUAACCACACAAAAAGAAAAUCCCAUCAUUUGCC__CCUUCACUAAAG
..............................................................((((....))))........................................... ( -0.04 =   0.08 +  -0.12)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:26 2006