Locus 3553

Sequence ID 2R_DroMel_CAF1
Location 11,870,413 – 11,870,504
Length 91
Max. P 0.982555
window5781 window5782

overview

Window 1

Location 11,870,413 – 11,870,504
Length 91
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 80.84
Mean single sequence MFE -22.22
Consensus MFE -18.47
Energy contribution -18.47
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.83
SVM decision value 1.92
SVM RNA-class probability 0.982555
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11870413 91 + 20766785
-----------------------GCAUUUAUAAAAAGGGCAUGCCCUACAGCUUAUAAAUGCAUGGGUAUUAAAAAAAUACAAACGCAGGCGAGCGCCCACAAACAUGCAACAU
-----------------------((((((((((..((((....)))).....))))))))))(((.(((((.....)))))....((((((....)))........)))..))) ( -22.80)
>DroSec_CAF1 11001 113 + 1
ACUU-GAAAUAUACUCUAGAAAAGCAUUUAUAAAAAGGGCAUGCCCUUCAGCCUAAAAAUGCAUGGGUAUUAAAAAAAUACAAACGCAGGCGAGCGCCCACAAACAUGCAACAU
....-.............................(((((....)))))...........((((((.(((((.....))))).......(((....)))......)))))).... ( -21.10)
>DroSim_CAF1 10452 113 + 1
ACUU-GAAAUAUACUCUAAAAAAGCAUUUAUAAAAAGGGCAUGCCCUUCAGCCUAAAAAUGCAUGGGUAUUAAAAAAAUACAAACGCAGGCGAGCGCCCACAAACAUGCAACAU
....-.............................(((((....)))))...........((((((.(((((.....))))).......(((....)))......)))))).... ( -21.10)
>DroEre_CAF1 12989 98 + 1
---UUUAAA----------AGCAGCAU---UAAAAUGGGCAUGCCCUUAAGCUGACAAAUGAAUGGGUAUUAAAAAAAUACAAACGCAGGCGAGCGCCCACAAACAUGCAACAU
---......----------....((((---.....(((((((((((.....(........)...))))))...............((......))))))).....))))..... ( -21.60)
>DroYak_CAF1 10833 101 + 1
ACUUUGUAA----------GGCAGCAU---UAAAAUGGGCAUGCCCUGAGGCUUACAAGUUAAUGGGUAUUAAAAAAAUACAAACGCAGGCGAGCGCCCACAAACAUGCAACAU
.........----------....((((---.....(((((((((((...((((....))))...))))))...............((......))))))).....))))..... ( -24.50)
>consensus
ACUU_GAAA__________AAAAGCAUUUAUAAAAAGGGCAUGCCCUUCAGCUUAAAAAUGCAUGGGUAUUAAAAAAAUACAAACGCAGGCGAGCGCCCACAAACAUGCAACAU
.......................((((.........((((((((((..................))))))...............((......))))))......))))..... (-18.47 = -18.47 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,870,413 – 11,870,504
Length 91
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 80.84
Mean single sequence MFE -27.56
Consensus MFE -19.86
Energy contribution -20.46
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.47
Structure conservation index 0.72
SVM decision value 1.84
SVM RNA-class probability 0.979640
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11870413 91 - 20766785
AUGUUGCAUGUUUGUGGGCGCUCGCCUGCGUUUGUAUUUUUUUAAUACCCAUGCAUUUAUAAGCUGUAGGGCAUGCCCUUUUUAUAAAUGC-----------------------
.....(((((...(..(((....)))..)....(((((.....))))).)))))(((((((((....((((....)))).)))))))))..----------------------- ( -27.50)
>DroSec_CAF1 11001 113 - 1
AUGUUGCAUGUUUGUGGGCGCUCGCCUGCGUUUGUAUUUUUUUAAUACCCAUGCAUUUUUAGGCUGAAGGGCAUGCCCUUUUUAUAAAUGCUUUUCUAGAGUAUAUUUC-AAGU
....((((((...(..(((....)))..)....(((((.....))))).))))))...(((....((((((....))))))...)))((((((.....)))))).....-.... ( -29.70)
>DroSim_CAF1 10452 113 - 1
AUGUUGCAUGUUUGUGGGCGCUCGCCUGCGUUUGUAUUUUUUUAAUACCCAUGCAUUUUUAGGCUGAAGGGCAUGCCCUUUUUAUAAAUGCUUUUUUAGAGUAUAUUUC-AAGU
....((((((...(..(((....)))..)....(((((.....))))).))))))...(((....((((((....))))))...)))((((((.....)))))).....-.... ( -29.70)
>DroEre_CAF1 12989 98 - 1
AUGUUGCAUGUUUGUGGGCGCUCGCCUGCGUUUGUAUUUUUUUAAUACCCAUUCAUUUGUCAGCUUAAGGGCAUGCCCAUUUUA---AUGCUGCU----------UUUAAA---
..((.((((....((((((((((....((....(((((.....))))).((......))...))....))))..))))))....---)))).)).----------......--- ( -25.40)
>DroYak_CAF1 10833 101 - 1
AUGUUGCAUGUUUGUGGGCGCUCGCCUGCGUUUGUAUUUUUUUAAUACCCAUUAACUUGUAAGCCUCAGGGCAUGCCCAUUUUA---AUGCUGCC----------UUACAAAGU
...(((((.(((.((((((((......))))..(((((.....))))))))).))).))))).....((((((.((........---..))))))----------))....... ( -25.50)
>consensus
AUGUUGCAUGUUUGUGGGCGCUCGCCUGCGUUUGUAUUUUUUUAAUACCCAUGCAUUUGUAAGCUGAAGGGCAUGCCCUUUUUAUAAAUGCUGCU__________UUUC_AAGU
....((((((...(..(((....)))..)....(((((.....))))).)))))).............(((....))).................................... (-19.86 = -20.46 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:17 2006