Locus 10132

Sequence ID 3R_DroMel_CAF1
Location 27,180,927 – 27,181,022
Length 95
Max. P 0.828005
window16128 window16129

overview

Window 8

Location 27,180,927 – 27,181,022
Length 95
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 78.93
Mean single sequence MFE -25.49
Consensus MFE -16.34
Energy contribution -16.45
Covariance contribution 0.11
Combinations/Pair 1.33
Mean z-score -1.77
Structure conservation index 0.64
SVM decision value 0.70
SVM RNA-class probability 0.828005
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27180927 95 + 27905053
AGACAACAAGUAGCUAGUAG-------CUGGUAGAUGGAAGAUGGUAGCUUUGGUAGUAGAUAGCAGA-------UAGAGGACGCCAAAUGGCUGGAGCUGCCGAAAGU
...((.(.(.((((.....)-------))).).).)).....(((((((((..((........((...-------........))......))..)))))))))..... ( -23.24)
>DroSec_CAF1 77284 95 + 1
AGACAACAAGUAGCUAGUAG-------CUGGUAGAUGGAAGAUGGUAGCUUCAGUAGCAGAUAGCAGA-------UAGAGGACGCCAAAUGGCUGGAGCUGCCGAAAGU
...((.(.(.((((.....)-------))).).).)).....(((((((((((...((.....))...-------........(((....))))))))))))))..... ( -27.40)
>DroSim_CAF1 80608 95 + 1
AGACAACAAGUAGCUAGUAG-------CUGGUAGAUGGAAGAUGGUAGCUUCGGUAGCAGAUAGCAGA-------UAGAGGACGCCAAAUGGCUGGAGCUGCCGAAAGU
...((.(.(.((((.....)-------))).).).)).....(((((((((((...((.....))...-------........(((....))))))))))))))..... ( -26.70)
>DroEre_CAF1 78232 88 + 1
AGACAACAAGUAGCUGG--------------UAGAUGGAAGAUGGUAGCUCUGGUAGCAGAUAGCAGA-------UAGAGGACGCCAAAUGGCUGGAGCUGCCGAAAGU
.................--------------...........((((((((((....((.....))...-------........(((....))).))))))))))..... ( -22.30)
>DroYak_CAF1 81572 109 + 1
AGACAACAAGUAGCUGGUAGCUGGUAGCUGGUAGCUGGAAGAUGGUAGCCUUGGUAGCAGAUAGCAGAUAGCGGAUAGAGGACGCCAAAUGGCUGGAGCUGCCGAAAGU
..........((((((.((((.....)))).)))))).............((((((((...((((.....(((.........)))......))))..)))))))).... ( -32.90)
>DroPer_CAF1 150262 78 + 1
AGCCAACAAGUAGCUGCUUG-------GUGCU---------CUGGCAGCGGC-------GAUAGAAGA-------UAGAAGACACCGAAUGGG-GCAGCUUCUGAAACU
.(((..(((((....)))))-------.(((.---------...)))..)))-------.........-------((((((...((.....))-....))))))..... ( -20.40)
>consensus
AGACAACAAGUAGCUAGUAG_______CUGGUAGAUGGAAGAUGGUAGCUUCGGUAGCAGAUAGCAGA_______UAGAGGACGCCAAAUGGCUGGAGCUGCCGAAAGU
..........................................((((((((((....((.....))..................(((....))).))))))))))..... (-16.34 = -16.45 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 27,180,927 – 27,181,022
Length 95
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 78.93
Mean single sequence MFE -18.60
Consensus MFE -10.29
Energy contribution -11.18
Covariance contribution 0.89
Combinations/Pair 1.14
Mean z-score -1.68
Structure conservation index 0.55
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27180927 95 - 27905053
ACUUUCGGCAGCUCCAGCCAUUUGGCGUCCUCUA-------UCUGCUAUCUACUACCAAAGCUACCAUCUUCCAUCUACCAG-------CUACUAGCUACUUGUUGUCU
......((((((....(((....)))........-------..................(((((..................-------....)))))....)))))). ( -14.35)
>DroSec_CAF1 77284 95 - 1
ACUUUCGGCAGCUCCAGCCAUUUGGCGUCCUCUA-------UCUGCUAUCUGCUACUGAAGCUACCAUCUUCCAUCUACCAG-------CUACUAGCUACUUGUUGUCU
......((((((....(((....)))........-------...((((...(((...((((.......))))........))-------)...)))).....)))))). ( -17.80)
>DroSim_CAF1 80608 95 - 1
ACUUUCGGCAGCUCCAGCCAUUUGGCGUCCUCUA-------UCUGCUAUCUGCUACCGAAGCUACCAUCUUCCAUCUACCAG-------CUACUAGCUACUUGUUGUCU
......((((((....(((....)))........-------...((((...(((...((((.......))))........))-------)...)))).....)))))). ( -17.80)
>DroEre_CAF1 78232 88 - 1
ACUUUCGGCAGCUCCAGCCAUUUGGCGUCCUCUA-------UCUGCUAUCUGCUACCAGAGCUACCAUCUUCCAUCUA--------------CCAGCUACUUGUUGUCU
......((.(((((..(((....)))........-------...((.....)).....))))).))............--------------.((((.....))))... ( -18.90)
>DroYak_CAF1 81572 109 - 1
ACUUUCGGCAGCUCCAGCCAUUUGGCGUCCUCUAUCCGCUAUCUGCUAUCUGCUACCAAGGCUACCAUCUUCCAGCUACCAGCUACCAGCUACCAGCUACUUGUUGUCU
......((((((...((((...(((((.........)))))...((.....))......))))..........((((...(((.....)))...))))....)))))). ( -25.00)
>DroPer_CAF1 150262 78 - 1
AGUUUCAGAAGCUGC-CCCAUUCGGUGUCUUCUA-------UCUUCUAUC-------GCCGCUGCCAG---------AGCAC-------CAAGCAGCUACUUGUUGGCU
((((.(((.((((((-.......((((.......-------........)-------)))(((.....---------)))..-------...)))))).).))..)))) ( -17.76)
>consensus
ACUUUCGGCAGCUCCAGCCAUUUGGCGUCCUCUA_______UCUGCUAUCUGCUACCAAAGCUACCAUCUUCCAUCUACCAG_______CUACCAGCUACUUGUUGUCU
......((((((....(((....))).................................(((((.............................)))))....)))))). (-10.29 = -11.18 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:36 2006