Locus 342

Sequence ID 2R_DroMel_CAF1
Location 2,255,261 – 2,255,357
Length 96
Max. P 0.967198
window685 window686

overview

Window 5

Location 2,255,261 – 2,255,357
Length 96
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.10
Mean single sequence MFE -35.87
Consensus MFE -15.83
Energy contribution -17.03
Covariance contribution 1.20
Combinations/Pair 1.24
Mean z-score -2.78
Structure conservation index 0.44
SVM decision value 1.61
SVM RNA-class probability 0.967198
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2255261 96 + 20766785
UAGCAAGAACAAGCUGCGUCGCAUAUCUGCAAGCUACUUAAGCGACAAAGCA---GCAACCAGGGAGAACCGGGUGCGACGUCGCAAGAAGAUUGUGCG
..(((.......((.(((((((((..((((..(((.....)))......)))---)...((.((.....))))))))))))).))..........))). ( -29.43)
>DroVir_CAF1 39956 99 + 1
CAACAAGAACAAAUUGCGUCGCUUUUCCAUGUGCGCUUUUGGCGAGAAACCGAAUGCGCCCAGAGAGCAGCGAUUGCGGCGACGCAAAAAGUUUGUACG
......(.(((((((...(((((.(((..((.((((.(((((.......))))).)))).))..))).)))))(((((....)))))..))))))).). ( -35.50)
>DroGri_CAF1 26996 99 + 1
CAGCAAAAACAAAUUGCGUCGCAUUUCCAUGUCCACAUUUGGCGACAAGAGCAAUGCGCCAAGGGAGCAGCGUUUGCGGCGACGCAAGAAGUUUGUGCG
..(((.((((...(((((((((..(((((((....)))((((((.((.......))))))))))))((((...)))).)))))))))...)))).))). ( -38.20)
>DroSim_CAF1 22248 96 + 1
UAGCAAGAACAAACUGCGUCGAAUAUCGGCAAGCUGCUUAAGUGACAAAGCC---GCAACCAGGGAGAACCGGGUGCGACGCCGCAAGAAGUUUGUGCG
..((....((((((((((((.......(((..(((.....)))......)))---(((.((.((.....)).))))))))))(....).))))))))). ( -31.20)
>DroEre_CAF1 22143 96 + 1
UAGUAAGAACAAGCUGCGUCGCAUAUCUGCAAGCUGCUUAAGCGACAAGGCU---GCAACCCGGGAGCACCGGGUGCGACGCCGCAAGAAGUUUGUGAG
........((((((((((((((.....((((.(((((....)).....))))---)))((((((.....)))))))))))))(....).)))))))... ( -40.50)
>DroYak_CAF1 18294 96 + 1
UAGCAAGAACAAGCUGCGUCGCAUAUCUGUAAGCUGCUUAAGCGACAAGGCU---GCAACCCGGGAACACCGGGUGCGACGCCGCAAAAAGUUUGUGCG
..(((.((((..((.(((((((..........((.((((........)))).---)).((((((.....))))))))))))).)).....)))).))). ( -40.40)
>consensus
UAGCAAGAACAAACUGCGUCGCAUAUCUGCAAGCUGCUUAAGCGACAAAGCC___GCAACCAGGGAGCACCGGGUGCGACGCCGCAAGAAGUUUGUGCG
........((((((((((((((((........(((.....)))...................((.....))..))))))))).......)))))))... (-15.83 = -17.03 +   1.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,255,261 – 2,255,357
Length 96
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 77.10
Mean single sequence MFE -33.10
Consensus MFE -13.48
Energy contribution -15.34
Covariance contribution 1.86
Combinations/Pair 1.24
Mean z-score -2.12
Structure conservation index 0.41
SVM decision value -0.05
SVM RNA-class probability 0.506153
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2255261 96 - 20766785
CGCACAAUCUUCUUGCGACGUCGCACCCGGUUCUCCCUGGUUGC---UGCUUUGUCGCUUAAGUAGCUUGCAGAUAUGCGACGCAGCUUGUUCUUGCUA
.(((..........(((((((.(((.((((......)))).)))---.))...))))).(((((.(((((((....))))).)).)))))....))).. ( -30.30)
>DroVir_CAF1 39956 99 - 1
CGUACAAACUUUUUGCGUCGCCGCAAUCGCUGCUCUCUGGGCGCAUUCGGUUUCUCGCCAAAAGCGCACAUGGAAAAGCGACGCAAUUUGUUCUUGUUG
...((((((...(((((((((.(((.....)))(((.((.((((.((.(((.....))).)).)))).)).)))...)))))))))...))..)))).. ( -32.70)
>DroGri_CAF1 26996 99 - 1
CGCACAAACUUCUUGCGUCGCCGCAAACGCUGCUCCCUUGGCGCAUUGCUCUUGUCGCCAAAUGUGGACAUGGAAAUGCGACGCAAUUUGUUUUUGCUG
.(((.((((...(((((((((.(((.....)))(((.((((((((.......)).))))))(((....))))))...)))))))))...)))).))).. ( -36.30)
>DroSim_CAF1 22248 96 - 1
CGCACAAACUUCUUGCGGCGUCGCACCCGGUUCUCCCUGGUUGC---GGCUUUGUCACUUAAGCAGCUUGCCGAUAUUCGACGCAGUUUGUUCUUGCUA
.(((..(((.....((.((((((((.((((......)))).)))---(((.((((.......))))...))).......))))).))..)))..))).. ( -29.30)
>DroEre_CAF1 22143 96 - 1
CUCACAAACUUCUUGCGGCGUCGCACCCGGUGCUCCCGGGUUGC---AGCCUUGUCGCUUAAGCAGCUUGCAGAUAUGCGACGCAGCUUGUUCUUACUA
..............((.(((((((((((((.....)))))((((---(((((((.....))))..)).)))))...)))))))).))............ ( -34.10)
>DroYak_CAF1 18294 96 - 1
CGCACAAACUUUUUGCGGCGUCGCACCCGGUGUUCCCGGGUUGC---AGCCUUGUCGCUUAAGCAGCUUACAGAUAUGCGACGCAGCUUGUUCUUGCUA
.(((..(((.....((.((((((((.((((.....))))(((((---(((......)))...))))).........)))))))).))..)))..))).. ( -35.90)
>consensus
CGCACAAACUUCUUGCGGCGUCGCACCCGGUGCUCCCUGGUUGC___AGCCUUGUCGCUUAAGCAGCUUACAGAUAUGCGACGCAGCUUGUUCUUGCUA
.(((..(((...(((((((...(((.((((......)))).)))....)))..(((((...................)))))))))...)))..))).. (-13.48 = -15.34 +   1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:59 2006