Locus 997

Sequence ID 2L_DroMel_CAF1
Location 2,873,983 – 2,874,099
Length 116
Max. P 0.876903
window1595 window1596

overview

Window 5

Location 2,873,983 – 2,874,079
Length 96
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 85.61
Mean single sequence MFE -21.96
Consensus MFE -18.98
Energy contribution -18.90
Covariance contribution -0.08
Combinations/Pair 1.18
Mean z-score -1.84
Structure conservation index 0.86
SVM decision value 0.60
SVM RNA-class probability 0.796794
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2873983 96 + 22407834
GCUGUCAAUUUUUUAAUC----UUUGUCUUUCUAACCCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUU
..................----......((((......)))).((((((((...(((.(((((..............))))).))).....)))))))). ( -21.44)
>DroSec_CAF1 8856 96 + 1
GCCGUCAGUUUUUUAAUC----UUUGUCUUUCUAACUCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUU
..................----......((((......)))).((((((((...(((.(((((..............))))).))).....)))))))). ( -21.44)
>DroSim_CAF1 9237 95 + 1
GCCGUCAGUUU-UUAAUC----UUUGUCUUUCUAACUCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUU
...........-......----......((((......)))).((((((((...(((.(((((..............))))).))).....)))))))). ( -21.44)
>DroEre_CAF1 9284 96 + 1
GCUAUCUGGUUUUUAAUC----UUUGUCUUUCUAACUCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUU
....((.((((.......----...........)))).))...((((((((...(((.(((((..............))))).))).....)))))))). ( -21.91)
>DroYak_CAF1 9239 96 + 1
GCUGUCUGGUUUUUAAUC----UUUGUCUUUCUAACUCGAAACGUUACCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUU
..(((((((((..((((.----((((...........))))..))))..)))))(((.(((((..............))))).))).......))))... ( -18.34)
>DroAna_CAF1 9193 84 + 1
-------GUUU-UCGAUUGGGGUUUGUUGU--------CAAACGUUUCUAAUCAGGAAGCACCUAUGCAGAAGCUUUGGUGUUUCCAGUUUUUGGCAAUU
-------....-..((((((((((((....--------)))))...))))))).(((((((((...((....))...))))))))).............. ( -27.20)
>consensus
GCUGUCAGUUUUUUAAUC____UUUGUCUUUCUAACUCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUU
...........................................((((((((...(((.(((((...(......)...))))).))).....)))))))). (-18.98 = -18.90 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,874,007 – 2,874,099
Length 92
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 73.90
Mean single sequence MFE -22.62
Consensus MFE -11.74
Energy contribution -11.10
Covariance contribution -0.64
Combinations/Pair 1.38
Mean z-score -1.90
Structure conservation index 0.52
SVM decision value 0.90
SVM RNA-class probability 0.876903
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2874007 92 + 22407834
UUUCUAACCCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUUCUACACGACUGUCUUUGCCG-----------
((((......)))).((((((((...(((.(((((..............))))).))).....)))))))).....................----------- ( -21.34)
>DroPse_CAF1 10207 92 + 1
-----------GAGUUAUUUUGAUCAGGACGCAGCUAUGCAAAAGCUUUGAUGCUUCCAAUUUUUAGCAAUCCUACACAAUUGUCUUUGGUGGUAUUGCUGCU
-----------...............(((.(((.....((....)).....))).)))......(((((((.((((.(((......))))))).))))))).. ( -23.10)
>DroEre_CAF1 9308 92 + 1
UUUCUAACUCGAAACGUUGCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUUCUACACGACUGUCUUUGCCG-----------
........(((....((((((((...(((.(((((..............))))).))).....))))))))......)))............----------- ( -21.94)
>DroYak_CAF1 9263 92 + 1
UUUCUAACUCGAAACGUUACCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUUCUACACGACUGUCUUUGCCG-----------
((((......))))............(((.(((((..............))))).))).......(((((....(((....)))..))))).----------- ( -19.44)
>DroAna_CAF1 9213 84 + 1
GU--------CAAACGUUUCUAAUCAGGAAGCACCUAUGCAGAAGCUUUGGUGUUUCCAGUUUUUGGCAAUUUUACACGAUUGUCUCUGGCG-----------
((--------((..............(((((((((...((....))...))))))))).......(((((((......)))))))..)))).----------- ( -26.80)
>DroPer_CAF1 10186 92 + 1
-----------NNNNNAUUUUGAUCAGGACGCAGCUAUGCAAAAGCUUUGAUGCUUCCAAUUUUUAGCAAUCCUACACAAUUGUCUUUGGUGGUAUUGCUGCU
-----------...............(((.(((.....((....)).....))).)))......(((((((.((((.(((......))))))).))))))).. ( -23.10)
>consensus
UU________GAAACGUUUCCGAUCAGGACGCACCUAUGCAAAAACUUUGGUGCUUCCAAUUUUUGGCAAUUCUACACGACUGUCUUUGCCG___________
...................((((...(((.(((((...(......)...))))).))).....)))).................................... (-11.74 = -11.10 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:34 2006