Locus 8588

Sequence ID X_DroMel_CAF1
Location 21,305,301 – 21,305,445
Length 144
Max. P 0.812008
window14120 window14121

overview

Window 0

Location 21,305,301 – 21,305,405
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.97
Mean single sequence MFE -33.40
Consensus MFE -20.94
Energy contribution -21.54
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -2.22
Structure conservation index 0.63
SVM decision value 0.49
SVM RNA-class probability 0.757197
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21305301 104 - 22224390
CACUUUGC-UGUCAAAGCUAAUAAAGUUGCAGCUCGUAUUGCAGCUACU-------GUAUUUUGUUGCAGUUUUCAUACCC-------UGGCGGGAA-UGUGGCAACUAAUUGGUGGCAU
.....(((-..((((.........((((((((......))))))))...-------.......(((((......(((.(((-------....))).)-))..)))))...))))..))). ( -29.80)
>DroSec_CAF1 46814 105 - 1
CACUUUGCUUGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUACU-------GUAUUUUGUUGCAGUUUUCAUACCC-------UGCCGGGAA-UGUGGCAACUAAUUGGUGGCAU
.(((((((((....))))....)))))((((((....))))))((((((-------(.(((..(((((......(((.(((-------....))).)-))..))))).)))))))))).. ( -32.20)
>DroEre_CAF1 44765 104 - 1
CACUUUGC-UGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUGCA-------GUAUUUUGUUGCAGUUUUGAUACCC-------UGCCAGGAA-UGUUGCAAUUUACUGAUGGCAG
........-((((((((((.....(((((((((....)))))))))(((-------(.......))))))))))))))..(-------(((((.(((-(......)))).....)))))) ( -34.40)
>DroYak_CAF1 48093 104 - 1
CACUUUGC-UGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUGCU-------GUAUUUUGUUGCAGUUUUGAUACCC-------UGCCAGGAA-UGUUGCAAUCUACUGAUGGCAG
.....(((-(((((.(((......(((((((((....))))))))))))-------(((..((((.(((.(((((......-------...))))).-))).))))..))))))))))). ( -32.50)
>DroAna_CAF1 38591 118 - 1
CACUUGGC-UGUCAAAGCUAAUAAAGUUGCAACUCGUGUUGCAGCUGCUUUUUGCCGGAUUUUGUUGCAAUGUUGAUACCCCAAGCCCCGCCACAAAUUGUGGCAAU-UGCUAGUGGCAG
((((((((-(.....))))))...(((((((((....)))))))))((...((((((.(.(((((.((...(((.........)))...)).))))).).)))))).-.))..))).... ( -38.10)
>consensus
CACUUUGC_UGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUGCU_______GUAUUUUGUUGCAGUUUUGAUACCC_______UGCCAGGAA_UGUGGCAAUUUACUGGUGGCAG
.........((((((((((.....(((((((((....)))))))))..........(((......)))))))))))))...........((((......((........))...)))).. (-20.94 = -21.54 +   0.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,305,333 – 21,305,445
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.26
Mean single sequence MFE -26.22
Consensus MFE -19.16
Energy contribution -19.88
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.71
Structure conservation index 0.73
SVM decision value 0.65
SVM RNA-class probability 0.812008
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21305333 112 - 22224390
GAUCUCACCCUGAUUUCCUCGGCUUUGCCUGCACGCUUUUCACUUUGC-UGUCAAAGCUAAUAAAGUUGCAGCUCGUAUUGCAGCUACU-------GUAUUUUGUUGCAGUUUUCAUACC
((((.......)))).....(((((((.(.(((............)))-.).))))))).....((((((((......))))))))(((-------(((......))))))......... ( -24.70)
>DroSec_CAF1 46846 111 - 1
GAU--CACCCCGAUUUCCCCGGCAUUGCCUGCACGCUUUUCACUUUGCUUGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUACU-------GUAUUUUGUUGCAGUUUUCAUACC
(((--(.....)))).....(((.(((...(((.((..........)).)))))).))).....(((((((((....)))))))))(((-------(((......))))))......... ( -25.10)
>DroEre_CAF1 44797 98 - 1
--------------UACCCCGGAUUUUCCUGCACGCUUUUCACUUUGC-UGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUGCA-------GUAUUUUGUUGCAGUUUUGAUACC
--------------......((.....)).....((..........))-((((((((((.....(((((((((....)))))))))(((-------(.......)))))))))))))).. ( -26.70)
>DroYak_CAF1 48125 110 - 1
GAU--UUCCCCCAUUUCCCCGGCUUUUCCAGCACGCUUCUCACUUUGC-UGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUGCU-------GUAUUUUGUUGCAGUUUUGAUACC
...--...............((((((..(((((............)))-))..)))))).....(((((((((....)))))))))(((-------(((......))))))......... ( -30.70)
>DroAna_CAF1 38630 102 - 1
-----------------CCCGCCUCACGCCACCCACUUUUCACUUGGC-UGUCAAAGCUAAUAAAGUUGCAACUCGUGUUGCAGCUGCUUUUUGCCGGAUUUUGUUGCAAUGUUGAUACC
-----------------..........((((.............))))-((((((.((.((((((((((((((....)))))))))((.....))......)))))))....)))))).. ( -23.92)
>consensus
GAU____CCC__AUUUCCCCGGCUUUGCCUGCACGCUUUUCACUUUGC_UGUCAAAGCUAAUAAAGUUGCAGCUCGUGUUGCAGCUGCU_______GUAUUUUGUUGCAGUUUUGAUACC
....................((.....))....................((((((((((.....(((((((((....)))))))))..........(((......))))))))))))).. (-19.16 = -19.88 +   0.72)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:53 2006