Locus 943

Sequence ID 3R_DroMel_CAF1
Location 3,124,515 – 3,124,634
Length 119
Max. P 0.999102
window1505 window1506

overview

Window 5

Location 3,124,515 – 3,124,634
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.32
Mean single sequence MFE -38.34
Consensus MFE -34.84
Energy contribution -35.28
Covariance contribution 0.44
Combinations/Pair 1.07
Mean z-score -1.95
Structure conservation index 0.91
SVM decision value 2.63
SVM RNA-class probability 0.995903
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3124515 119 + 27905053
AGCUCCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAAGGA-
..(((((((.((((((.(((..(((((((.(..((.((.....)).))..).)))))))...((((((........)))))).............)))))))))..))))).)).....- ( -41.10)
>DroSec_CAF1 203 120 + 1
AGAUCCCCUACCAACUUGGCACCGCUUGUCUCGGCCAUCUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCUGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAUGGAU
..(((((((.((((((.(((..(((((((.(..((...........))..).))))))).(((((((((((.....))))))...))))).....)))))))))...))))..))).... ( -40.40)
>DroSim_CAF1 287 119 + 1
AGCUCCCCUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUAGACGCAGCCAGU-GGCAAAGGGCAGAUGGAU
..((.((((.(((...((((..(((((((.(..((.((.....)).))..).)))))))(((((((((........))))))...))).......)))).)-))...)))).))...... ( -35.80)
>DroEre_CAF1 305 119 + 1
AGCUUCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAUGAA-
.((..((((.((((((.(((..(((((((.(..((.((.....)).))..).)))))))...((((((........)))))).............)))))))))..)))))).......- ( -38.30)
>DroYak_CAF1 431 119 + 1
AGCUUCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACAGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCACAUGAA-
.((..((((.((((((.(((..(((((((.(..((.((.....)).))..).))))))).(((((((((((.....)))..)).)))))).....)))))))))..)))))).......- ( -36.10)
>consensus
AGCUCCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAUGGA_
....(((((.((((((.(((..(((((((.(..((...........))..).)))))))...((((((........)))))).............)))))))))..)))))......... (-34.84 = -35.28 +   0.44) 

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 3,124,515 – 3,124,634
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.32
Mean single sequence MFE -41.74
Consensus MFE -38.86
Energy contribution -39.26
Covariance contribution 0.40
Combinations/Pair 1.06
Mean z-score -2.12
Structure conservation index 0.93
SVM decision value 3.37
SVM RNA-class probability 0.999102
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3124515 119 - 27905053
-UCCUUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGGAGCU
-.......(((((((((((((((((.....((((....((((((........))))))......((((....)))).....))))((((.......))))))).)))))))))))).)). ( -45.20)
>DroSec_CAF1 203 120 - 1
AUCCAUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACAGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGAUGGCCGAGACAAGCGGUGCCAAGUUGGUAGGGGAUCU
..........(((((((((((((((..((((.(((((..(((((.....)))))..)))))...((((....)))).....))))((((.......))))))).)))))))))))).... ( -44.00)
>DroSim_CAF1 287 119 - 1
AUCCAUCUGCCCUUUGCC-ACUGGCUGCGUCUACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAGGGGAGCU
........((((((((((-((((((((((...(((((..(((((.....)))))..)))))....)))).((((.......))))((((.......))))))).)).))))))))).)). ( -39.20)
>DroEre_CAF1 305 119 - 1
-UUCAUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGAAGCU
-.......((.((((((((((((((.....((((....((((((........))))))......((((....)))).....))))((((.......))))))).)))))))))))..)). ( -40.10)
>DroYak_CAF1 431 119 - 1
-UUCAUGUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCUGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGAAGCU
-.......((.((((((((((((((..(((......((.((((...((((((((.(((........))).)))))))).......)))).))...)))..))).)))))))))))..)). ( -40.20)
>consensus
_UCCAUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGGAGCU
........(((((((((((((((((((((...(((((..(((((.....)))))..)))))....))))................((((.......))))))).)))))))))))).)). (-38.86 = -39.26 +   0.40) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:10 2006