Locus 1156

Sequence ID X_DroMel_CAF1
Location 3,446,831 – 3,447,032
Length 201
Max. P 0.959296
window1858 window1859

overview

Window 8

Location 3,446,831 – 3,446,924
Length 93
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 81.27
Mean single sequence MFE -18.42
Consensus MFE -11.27
Energy contribution -11.51
Covariance contribution 0.24
Combinations/Pair 1.19
Mean z-score -2.56
Structure conservation index 0.61
SVM decision value 1.50
SVM RNA-class probability 0.959296
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3446831 93 + 22224390
AUUCCGCCCGCUUUUCGUUUCCAAUCCGAAUCAUUUUCGGGCACUUAAAAAGGGAAGAAUUUCUAGCUUUUCCCACCCCUU-------UUUUUUCUUCAA
.....(((((...((((.........)))).......))))).........(((((((.........))))))).......-------............ ( -18.00)
>DroSec_CAF1 19019 89 + 1
AUU-UGCCCGCUUUUCGUUUCCAAUCCGAAUCAUUUU-GGGCACUUAU-AAGGGAAGGUUUUCCAGCUUUUCCCACCCCUU-------C-UCUUCUUCAA
...-((((((...((((.........))))......)-))))).....-(((((((((...................))))-------)-))))...... ( -18.31)
>DroSim_CAF1 19119 90 + 1
AUU-UGCCCGCUUUUCGUUUCCAAUCCGAAUCAUUUU-GGGCACUUUU-AAGGGAAGGUUUUCCAGCUUUUCCCACCCCUC-------CUUCUUCUUCAA
...-((((((...((((.........))))......)-))))).....-..((((((((......))))))))........-------............ ( -17.80)
>DroEre_CAF1 22255 97 + 1
AUU-CGGCCUCUUUUGGUUUUCCAUCCGAAUCAUUUG-GGUCACUUAU-AAGGGAAGGUUCUGUAACUUUUCCCACCCGUUAAUAAUUCCUCUUUUUCAA
...-.(((((....((((((.......))))))...)-))))......-..(((((((((....)))))))))........................... ( -17.60)
>DroYak_CAF1 20287 97 + 1
AUU-UGCCCGCUUUUGGUUACCCAUCCGAAUCAUUUC-GGUCUCUUAU-AGGGGAAGGUUUUUUAACUUUUCCCACCCGUUCAUAACUCCUCUUCUUCAA
...-...........(((((.....(((((....)))-))........-.((((((((((....)))))))))).........)))))............ ( -20.40)
>consensus
AUU_UGCCCGCUUUUCGUUUCCAAUCCGAAUCAUUUU_GGGCACUUAU_AAGGGAAGGUUUUCUAGCUUUUCCCACCCCUU_______CCUCUUCUUCAA
.....((((.........(((......)))........)))).........(((((((((....)))))))))........................... (-11.27 = -11.51 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 3,446,924 – 3,447,032
Length 108
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 84.03
Mean single sequence MFE -31.65
Consensus MFE -19.03
Energy contribution -19.57
Covariance contribution 0.53
Combinations/Pair 1.28
Mean z-score -3.15
Structure conservation index 0.60
SVM decision value 0.27
SVM RNA-class probability 0.661391
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3446924 108 - 22224390
-CUUCUUUUUGUUUCUUUCUUUGUGUGGUAGAUU-UGGGGAAAAUGUCAAAUUAAGUUUGAUAAUUUGCUAAGCGGCUUUUCCUGCAGCUUAGCUGAAACGGAGAAGGGA
-((..(((((((((((((((..(.((.....)).-)..))))).((((((((...))))))))....(((((((.((.......)).))))))).))))))))))..)). ( -32.20)
>DroSec_CAF1 19108 104 - 1
-CCUCUUUUUGUUU----CUUUGUGUGGUAGAUU-UGGCGAAAAUGUCAAAUUAAGUUUGAUAAUUAGCUAAGCGGUUUUUUCUGCAGCAUAGCUGAAACGGAGAAGGGA
-((..(((((((((----(.((((((.(((((((-((((.....((((((((...))))))))....))))))........))))).))))))..))))))))))..)). ( -32.80)
>DroSim_CAF1 19209 104 - 1
-CCUCUUUUUGUUU----CUUUGUGUGGUAGAUU-UGGCGAAAAUGUCAAAUUAAGUUUGAUAAUUUGCUAAGCGGCUUUUUCUGCAGCUUAGCUGAAACGGAGAAGGGA
-((..(((((((((----(...........((((-((((......))))))))..............(((((((.((.......)).))))))).))))))))))..)). ( -33.30)
>DroEre_CAF1 22352 105 - 1
CUGCUUUUUUGUUU----CUUUGUGCGGCAGAUU-UGGGGAAAAUGUCAAAUUAAGUUUGAUAAUUUGCUAAGCGGCUUUUUCGGCGGCUUAGCUGAAAUGGAGAAGGGA
...((((((..(((----(.........((((((-(((.((.....))...))))))))).......(((((((.(((.....))).))))))).))))..))))))... ( -32.40)
>DroYak_CAF1 20384 104 - 1
-UUUCUUUUUGUUU----CUUUGUGUGGUAGAUU-UGCGAAAAAUGUCAAAUUAAGAUUGAUAAUUUGCUAAGCGGCUUUUUCUGCGGCUUAGCCGAAAUGGAGAAGGGA
-(..(((((..(((----(....((..(.....)-..)).....((((((.......))))))....(((((((.((.......)).))))))).))))..))).))..) ( -26.70)
>DroAna_CAF1 33333 99 - 1
-UUUCGCUUUGAU-----UUUUGUGUGGGAGCUUCUUAGCCAAAUGUCAAAUUAUGUUUGAUAAUUUGCUAAGCGGCUUU-----CGGCAAAUCUGUCAUGAAGAAGAGA
-((((....((((-----.(((((.((..((((.((((((.((.((((((((...)))))))).)).)))))).))))..-----)))))))...))))....))))... ( -32.50)
>consensus
_CUUCUUUUUGUUU____CUUUGUGUGGUAGAUU_UGGGGAAAAUGUCAAAUUAAGUUUGAUAAUUUGCUAAGCGGCUUUUUCUGCAGCUUAGCUGAAACGGAGAAGGGA
.(((.(((((((((..............................((((((((...))))))))....(((((((.((.......)).)))))))..))))))))).))). (-19.03 = -19.57 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:42 2006