Locus 970

Sequence ID 2L_DroMel_CAF1
Location 2,797,925 – 2,798,028
Length 103
Max. P 0.963992
window1556 window1557

overview

Window 6

Location 2,797,925 – 2,798,028
Length 103
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.00
Mean single sequence MFE -34.50
Consensus MFE -18.26
Energy contribution -21.70
Covariance contribution 3.44
Combinations/Pair 1.31
Mean z-score -2.45
Structure conservation index 0.53
SVM decision value 1.56
SVM RNA-class probability 0.963992
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2797925 103 + 22407834
------CUGCCGUUCGGGCCAACUUGAUUAUU-------GGCAAUUAUGUGCGGCCUGCCGAGCUUGUUUGCAGCAUUUUUAUUGCUAUGCUUCGGCAAUGCCCUUAAUAGCCUGC--
------..((..((.((((............(-------((((((...((((((....))..((......)).))))....)))))))(((....)))..))))..))..))....-- ( -30.50)
>DroPse_CAF1 22864 97 + 1
GAGGGGGGGCUG-GGGGCCCAACUUGAUUAUU-------GGCUAUUAUGUGCGGUUUCC-AUACUUCGCAGGAGCCUUUUUACCCC----------CCAUGGCCUCCUCCAUCUAC--
(.((((((((((-((((..(.....)......-------((((....((((.(((....-..))).))))..)))).......)))----------))..))))))))))......-- ( -36.50)
>DroSec_CAF1 20985 99 + 1
------CGGCCGUUCGGGCCAACUUGAUUAUUUUGUUGUUGCAAUUAUGUGCGGACUCCCGAGCUUGUCUGCAGCAUUUUUAUUGCUAU-----------GCCCUUAAUAGCCUGC--
------.(((..((.((((((((...........))))..(((((.((((((((((..........))))))).)))....)))))...-----------))))..))..)))...-- ( -30.40)
>DroSim_CAF1 22362 103 + 1
------CGGCCGUUCGGGCCAACUUGAUUAUU-------GGCAAUUAUGUGCGGACUCCCGAGCUUGUCUGCAGCAUUUUUAUUGCUAUGCUUCGGCAAUGCCCUUAAUAGCCUGC--
------.(((..((.((((............(-------((((((.((((((((((..........))))))).)))....)))))))(((....)))..))))..))..)))...-- ( -36.40)
>DroEre_CAF1 21237 103 + 1
------CGGCUGUUCGGGCCAACUUGAUUAUU-------GGCAAUUAUGUGCGGAUUCCCGAGCUUGUCUGCAGCAUUUUUAUUGCUAUGCUUCGGCAAUGCCCUUAAUAGCCUGC--
------.(((((((.((((............(-------((((((.((((((((((..........))))))).)))....)))))))(((....)))..))))..)))))))...-- ( -38.40)
>DroYak_CAF1 20447 105 + 1
------CGGCCGUACGGGCCAACUUGAUUAUU-------GGCAAUUAUGUGCGGAUUGCCGAGCUUGUCUGCAGCAUUUUUAUUGCCAUGCUUCGGCAUUGCUCUUAAUAGCCUGCUC
------.(((..((.((((............(-------((((((.((((((((((.((...))..))))))).)))....)))))))(((....)))..)))).))...)))..... ( -34.80)
>consensus
______CGGCCGUUCGGGCCAACUUGAUUAUU_______GGCAAUUAUGUGCGGACUCCCGAGCUUGUCUGCAGCAUUUUUAUUGCUAUGCUUCGGCAAUGCCCUUAAUAGCCUGC__
.......(((.(((.((((....................((((((.((((((((((..........))))))).)))....)))))).(((....)))..))))..))).)))..... (-18.26 = -21.70 +   3.44) 

alignment

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secondary structure

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dotplot

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Window 7

Location 2,797,925 – 2,798,028
Length 103
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.00
Mean single sequence MFE -29.60
Consensus MFE -15.88
Energy contribution -16.73
Covariance contribution 0.85
Combinations/Pair 1.27
Mean z-score -1.74
Structure conservation index 0.54
SVM decision value 0.18
SVM RNA-class probability 0.622360
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2797925 103 - 22407834
--GCAGGCUAUUAAGGGCAUUGCCGAAGCAUAGCAAUAAAAAUGCUGCAAACAAGCUCGGCAGGCCGCACAUAAUUGCC-------AAUAAUCAAGUUGGCCCGAACGGCAG------
--....(((......(((.((((((((((((..........)))))((......))))))))))))..........(((-------(((......))))))......)))..------ ( -30.70)
>DroPse_CAF1 22864 97 - 1
--GUAGAUGGAGGAGGCCAUGG----------GGGGUAAAAAGGCUCCUGCGAAGUAU-GGAAACCGCACAUAAUAGCC-------AAUAAUCAAGUUGGGCCCC-CAGCCCCCCCUC
--....((((......))))((----------((((......((((..((((......-(....)))))......))))-------.........(((((....)-)))))))))).. ( -32.10)
>DroSec_CAF1 20985 99 - 1
--GCAGGCUAUUAAGGGC-----------AUAGCAAUAAAAAUGCUGCAGACAAGCUCGGGAGUCCGCACAUAAUUGCAACAACAAAAUAAUCAAGUUGGCCCGAACGGCCG------
--...((((.....((((-----------...(((((....(((.(((.(((..........))).)))))).)))))..((((...........))))))))....)))).------ ( -28.20)
>DroSim_CAF1 22362 103 - 1
--GCAGGCUAUUAAGGGCAUUGCCGAAGCAUAGCAAUAAAAAUGCUGCAGACAAGCUCGGGAGUCCGCACAUAAUUGCC-------AAUAAUCAAGUUGGCCCGAACGGCCG------
--...((((.....((((..(.(((((((((..........)))))((......)))))).)))))..........(((-------(((......))))))......)))).------ ( -28.30)
>DroEre_CAF1 21237 103 - 1
--GCAGGCUAUUAAGGGCAUUGCCGAAGCAUAGCAAUAAAAAUGCUGCAGACAAGCUCGGGAAUCCGCACAUAAUUGCC-------AAUAAUCAAGUUGGCCCGAACAGCCG------
--...((((.....(((((((.(((((((((..........)))))((......)))))).)))..(((......)))(-------(((......))))))))....)))).------ ( -28.10)
>DroYak_CAF1 20447 105 - 1
GAGCAGGCUAUUAAGAGCAAUGCCGAAGCAUGGCAAUAAAAAUGCUGCAGACAAGCUCGGCAAUCCGCACAUAAUUGCC-------AAUAAUCAAGUUGGCCCGUACGGCCG------
.....(((.((((.(.((..(((((((((((..........)))))((......))))))))....)).).)))).)))-------............((((.....)))).------ ( -30.20)
>consensus
__GCAGGCUAUUAAGGGCAUUGCCGAAGCAUAGCAAUAAAAAUGCUGCAGACAAGCUCGGGAAUCCGCACAUAAUUGCC_______AAUAAUCAAGUUGGCCCGAACGGCCG______
.....((((.....((((..(((....)))..(((((......(((.......))).(((....)))......))))).....................))))....))))....... (-15.88 = -16.73 +   0.85) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:57 2006