Locus 8179

Sequence ID 3R_DroMel_CAF1
Location 21,993,433 – 21,993,579
Length 146
Max. P 0.998816
window13151 window13152

overview

Window 1

Location 21,993,433 – 21,993,552
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 82.18
Mean single sequence MFE -25.86
Consensus MFE -19.77
Energy contribution -19.68
Covariance contribution -0.09
Combinations/Pair 1.27
Mean z-score -2.02
Structure conservation index 0.76
SVM decision value 0.99
SVM RNA-class probability 0.896099
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21993433 119 - 27905053
UUGGGUUUCCGCUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUCACAAAUUCCUCGUAAAAUUUUAAUUUCAUCACGCAUAUGCAGGAUUUAAGAUAGACU
..(((..........)))(((((((((((((........)))))))))))))..((((((....))))))...((...(((((((....(((..((....))..))))))))))..)). ( -26.10)
>DroSim_CAF1 29730 119 - 1
UUGGUUUUCCGUUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUCACAAAUUCCUCGUAAAAUUUUAAUUUCAUCACGCAUAUGCAGGGCUUAAGGUAGAGU
....((((((.....((((((((((((((((........))))))))))))).((((((((.((.........))))))))))...........((....)).))).....)).)))). ( -26.30)
>DroEre_CAF1 35393 119 - 1
UUGGCUCUCCCUUUUCCCCUUCGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUGACAAAUUCCUCGUAAAAUUUUAAUUUCAUCCAGCGUAUGCAAGGCUCCAGGUGGAGU
...((((..(((.....((((.(((((((((........)))))))))...(((((((((....))))))..(((...................)))..)))))))....)))..)))) ( -25.51)
>DroYak_CAF1 34021 119 - 1
UUGGCCCACCGUUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUGACAAACUCCUCGUAAAAUUUUAAUUUCAUCACGCACAUGCAGGGCUAAAGUUAAAAA
(((((((...((((((..(((((((((((((........)))))))))))))..)))....)))..............................((....)).)))))))......... ( -32.60)
>DroAna_CAF1 39735 101 - 1
UUGG-------UUUUCCCCUCGGGCACUUAAACACCUACUUAAGUGCUUAAGCAAAAUUUUCGCACAUUCUCUGUAAAAUUUUAAUUUCCUCACGCACCUGCA---CUGAA--------
(..(-------(......((..(((((((((........)))))))))..)).((((((((.(((.......)))))))))))...........((....)))---)..).-------- ( -18.80)
>consensus
UUGGCUCUCCGUUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUCACAAAUUCCUCGUAAAAUUUUAAUUUCAUCACGCAUAUGCAGGGCUUAAGGUAGAGU
..(((((...........(((((((((((((........))))))))))))).((((((((.((.........))))))))))...........((....)).)))))........... (-19.77 = -19.68 +  -0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,993,473 – 21,993,579
Length 106
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 83.81
Mean single sequence MFE -26.08
Consensus MFE -21.82
Energy contribution -21.78
Covariance contribution -0.04
Combinations/Pair 1.19
Mean z-score -3.27
Structure conservation index 0.84
SVM decision value 3.24
SVM RNA-class probability 0.998816
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21993473 106 - 27905053
CUU-------------AAACAUUACCAUCAACUUUCGGUGUUGGGUUUCCGCUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUCACAAAUUCCUCGUAAAA
...-------------.....((((..(((((.......))))).........(((..(((((((((((((........)))))))))))))..)))................)))).. ( -23.70)
>DroSim_CAF1 29770 106 - 1
CUU-------------AAACAUUAGCAUCAACUUUCGGUGUUGGUUUUCCGUUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUCACAAAUUCCUCGUAAAA
...-------------..(((((((((((.......)))))))))........(((..(((((((((((((........)))))))))))))..)))................)).... ( -25.40)
>DroEre_CAF1 35433 106 - 1
CUU-------------AAACAUCAACAUCAACUUUUGGUGUUGGCUCUCCCUUUUCCCCUUCGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUGACAAAUUCCUCGUAAAA
...-------------.....(((((((((.....))))))))).............(((..(((((((((........))))))))).)))..((((((....))))))......... ( -23.10)
>DroYak_CAF1 34061 106 - 1
CUU-------------AAACAUCAACAUCAACUUUCGGUGUUGGCCCACCGUUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUGACAAACUCCUCGUAAAA
...-------------..((.((((((((.......))))))))......((((((..(((((((((((((........)))))))))))))..)))....))).........)).... ( -27.10)
>DroAna_CAF1 39764 112 - 1
CUGAACACCGACGCCGAAACAUUAGCAUUAACUUUUGGUGUUGG-------UUUUCCCCUCGGGCACUUAAACACCUACUUAAGUGCUUAAGCAAAAUUUUCGCACAUUCUCUGUAAAA
..(((.(((((((((((((.............))))))))))))-------).)))..((..(((((((((........)))))))))..))........................... ( -31.12)
>consensus
CUU_____________AAACAUUAACAUCAACUUUCGGUGUUGGCUCUCCGUUUUCCCCUUGGGCACUUAAACACCUACUUAAGUGCUCAGGCAGAAUUUUCACAAAUUCCUCGUAAAA
..................((.((((((((.......)))))))).........(((..(((((((((((((........)))))))))))))..)))................)).... (-21.82 = -21.78 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:26 2006