Locus 2359

Sequence ID 2R_DroMel_CAF1
Location 8,569,091 – 8,569,225
Length 134
Max. P 0.998500
window3896 window3897

overview

Window 6

Location 8,569,091 – 8,569,185
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 95.32
Mean single sequence MFE -22.08
Consensus MFE -19.34
Energy contribution -19.50
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -2.44
Structure conservation index 0.88
SVM decision value 3.12
SVM RNA-class probability 0.998500
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8569091 94 + 20766785
AUGUACAUAUGUGGAUUUAUACAUAAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCCGCAGCGAGUGCACAUAAUGCGGUGCAGAUAAAAAU
.((((((((((((..(((.(((...(((((.....))))).))))))..))))))))(((((....(....)....)))))))))......... ( -20.90)
>DroSec_CAF1 44737 94 + 1
AUGUACAUAUGUGGGUUUAUACAUCAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCCGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAU
.(((.((((((((..(((....((((((((.....)))))))).)))..))))))))(((((....(....)....))))).)))......... ( -22.80)
>DroSim_CAF1 48421 94 + 1
AUGUACAUAUGUGGGUUUAUACAUCAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCCGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAU
.(((.((((((((..(((....((((((((.....)))))))).)))..))))))))(((((....(....)....))))).)))......... ( -22.80)
>DroEre_CAF1 35773 94 + 1
AUGUACAUAUGUGGGUUUGUACAUCAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCUGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAU
.((((((((((((..(((....((((((((.....)))))))).)))..)))))))).))))((...((((.....))))..)).......... ( -24.40)
>DroYak_CAF1 48344 94 + 1
AUAUACAUAUGUGGGUUUGUACAUCAUUUUAAUUAAAAGCGGUAAAAAACACAUGUGCUGCAGGCAGUGCACAUAAUGCGGAGCAGAUAAAACU
.....((((((((..(((.(((....((((....))))...))))))..))))))))((((..(((..........)))...))))........ ( -19.50)
>consensus
AUGUACAUAUGUGGGUUUAUACAUCAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCCGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAU
.....((((((((..(((....((((((((.....)))))))).)))..))))))))(((((....(....)....)))))............. (-19.34 = -19.50 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,569,109 – 8,569,225
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.30
Mean single sequence MFE -25.70
Consensus MFE -16.66
Energy contribution -18.72
Covariance contribution 2.06
Combinations/Pair 1.21
Mean z-score -1.66
Structure conservation index 0.65
SVM decision value 0.18
SVM RNA-class probability 0.623127
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8569109 116 + 20766785
----AUACAUAAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCCGCAGCGAGUGCACAUAAUGCGGUGCAGAUAAAAAUGCAAUGUGCCCGCAAUACCGCAAUUUGUUUAACAUUCCAG
----....................((((((........((((((.((.....))))))))..(((((.(((.((.........)).)))))))).))))))................... ( -28.40)
>DroPse_CAF1 2778 109 + 1
UGUCGUACAUCAUUUUAAUUAAACGCGGUAAAAAAAA----GGCAUCAGCACGGGUAUAUCA-------CAGAUAUAAAUUCAAUAUGUCCGCGAUGCCGUAAUUUGUUUAACAUUCCGU
........................((((.........----((((((.((..((..((((..-------..((.......)).))))..))))))))))......((.....))..)))) ( -18.80)
>DroSec_CAF1 44755 116 + 1
----AUACAUCAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCCGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAUGCAAUGUGCCCGCAAUACCGCAAUUGGUUUAACAUUCCAG
----....................((((((........((((((.((.....))))))))..(((((.(((.((.........)).)))))))).))))))...(((.........))). ( -29.40)
>DroEre_CAF1 35791 116 + 1
----GUACAUCAUUUUAAUUAAAAGUGGUAAAAAACACAUGUGCUGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAUGCAAUGUGCCCGCAAUACCGCAAUUUGUUUAACAUUCCAG
----....................((((((........((((((.((.....))))))))..(((((.(((.((.........)).)))))))).))))))................... ( -28.40)
>DroYak_CAF1 48362 116 + 1
----GUACAUCAUUUUAAUUAAAAGCGGUAAAAAACACAUGUGCUGCAGGCAGUGCACAUAAUGCGGAGCAGAUAAAACUGCAAUGUGCCCGCAAUACCGCAAUUUGUUUAACAUUCCAG
----....................((((((.........((..(((....)))..)).....(((((.(((.((.........)).)))))))).))))))................... ( -31.20)
>DroPer_CAF1 3032 108 + 1
UGUCGUACAUCAUUUUAAUUAAACGCGGUAAAA-AAA----GGCAUCAGCACGGGUAUAUCA-------CAGAUAUAAAUUCAAUAUGUCCGCCAUGCCGCAAUUUGUUUAACAUUCCGU
..................((((((((((((...-...----.((....)).(((..((((..-------..((.......)).))))..)))...)))))).....))))))........ ( -18.00)
>consensus
____GUACAUCAUUUUAAUUAAAAGCGGUAAAAAACACAUGUGCAGCAGCGAGUGCACAUAAUGCGGAGCAGAUAAAAAUGCAAUGUGCCCGCAAUACCGCAAUUUGUUUAACAUUCCAG
........................((((((........((((((.((.....))))))))..(((((.(((.((.........)).)))))))).))))))................... (-16.66 = -18.72 +   2.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:58 2006