Locus 940

Sequence ID 2L_DroMel_CAF1
Location 2,711,566 – 2,711,703
Length 137
Max. P 0.633373
window1512 window1513

overview

Window 2

Location 2,711,566 – 2,711,663
Length 97
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 77.94
Mean single sequence MFE -36.90
Consensus MFE -20.68
Energy contribution -22.10
Covariance contribution 1.42
Combinations/Pair 1.31
Mean z-score -1.71
Structure conservation index 0.56
SVM decision value 0.21
SVM RNA-class probability 0.633373
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2711566 97 - 22407834
CAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCGGUGCCCAAGAUGGGCGCUGCUGUCCAUGAGG---CGCUUUUCGAUUUGGAGGAGGUGGAG
(((((((..((((..((((..((....)))).(((.((((((((((.....)))))))))).))).))...---))))...)))))))............ ( -39.90)
>DroSec_CAF1 130530 97 - 1
CAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUACUGUCCAUGAGG---UGCUUUUCGAGGGCGAGGAGCUGGAG
....(((((....)))))...((....))((((((.((.(((.(((.....))).))).)).)))......---.((((((((....))))))))))).. ( -32.90)
>DroSim_CAF1 133957 97 - 1
CAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUGCUGUCCAUGAGG---UGCUUUUCGAGGGCGAGAAGCUGGAG
....(((((....)))))...((....))((((((.((((((.(((.....))).)))))).)))......---.((((((((....))))))))))).. ( -39.90)
>DroEre_CAF1 148685 100 - 1
CAGAUUGCUGGCGGGCAGGAACGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUGCUGUCCAUGCUGUCCAGCUUUUCGAGGCGGAGGAGGUGGAG
(((.((((((...........)))))).....(((.((((((.(((.....))).)))))).)))...)))((((.((((((......)))))).)))). ( -41.80)
>DroYak_CAF1 137937 87 - 1
CAGAUUGCUGGCGGGCAGGAAUGGCAACACUACGAAGGCAGUGCCCAAGAUGGGCGCUGCUUGCCACGAGG---AGCUCUUCGUGGUGGA----------
....(((((....)))))...((....))......(((((((((((.....)))))))))))(((((((((---....)))))))))...---------- ( -40.60)
>DroAna_CAF1 223146 91 - 1
CAAAUUGCUGGCGGGCAGGAACGGCAUCACCAGGAAGGCGACGCACAUCAAGCGAGUCGGCGCAUAGCAAG---GACUCUUGGAGGCGGUGAAG------
....(..(((.(..((..((...((.((.((.....)).)).))...))..))(((((.((.....))...---))))).....).)))..)..------ ( -26.30)
>consensus
CAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUGCUGUCCAUGAGG___AGCUUUUCGAGGCGGAGGAG_UGGAG
.....((((....))))((..((....)))).(((.((((((.(((.....))).)))))).)))...........((((((......))))))...... (-20.68 = -22.10 +   1.42) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,711,587 – 2,711,703
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 84.73
Mean single sequence MFE -44.22
Consensus MFE -32.56
Energy contribution -32.77
Covariance contribution 0.20
Combinations/Pair 1.30
Mean z-score -1.97
Structure conservation index 0.74
SVM decision value 0.01
SVM RNA-class probability 0.539741
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2711587 116 - 22407834
AGAGCACCCUUUCGGCCAUUACGAAUCCCACGUAGAAGAGCAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCGGUGCCCAAGAUGGGCGCUGCUGUCCAUGAGG---CGCUU
.((((..(((.((.(((.(((((.......)))))...(((.....)))))).)).)))....((..((...(((.((((((((((.....)))))))))).))).))..)---))))) ( -47.30)
>DroSec_CAF1 130551 116 - 1
AGAGCACCCUUUCGGCCAUUACGAAUCCCACGUAGAAGAGCAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUACUGUCCAUGAGG---UGCUU
.(((((((......(((.(((((.......)))))...(((.....))))))((((((...((....))..........(((.(((.....))).))).))))))....))---))))) ( -42.00)
>DroSim_CAF1 133978 115 - 1
AGAGCACCCUUUCGGCCAUUAC-AAUCCCACGUAGAAAAGCAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUGCUGUCCAUGAGG---UGCUU
.(((((((......((((((.(-....((.(((.....(((.....))).)))))...))))))).......(((.((((((.(((.....))).)))))).)))....))---))))) ( -48.20)
>DroEre_CAF1 148706 119 - 1
AGAGCACCCUUUCGGCCAUUACAAAUCCCACGUAGAAGAGCAGAUUGCUGGCGGGCAGGAACGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUGCUGUCCAUGCUGUCCAGCUU
.((((.........(((.((((.........))))...(((.....))))))((((((.(..(....)....(((.((((((.(((.....))).)))))).))).).)))))).)))) ( -45.20)
>DroYak_CAF1 137948 116 - 1
AGAGCACCCUUUCCGCCAUUACGAAUCCCACGUAGAAGAGCAGAUUGCUGGCGGGCAGGAAUGGCAACACUACGAAGGCAGUGCCCAAGAUGGGCGCUGCUUGCCACGAGG---AGCUC
.((((..(((.((((((.(((((.......)))))...(((.....))))))))).)))..((((((..((....))(((((((((.....))))))))))))))).....---.)))) ( -51.40)
>DroAna_CAF1 223161 116 - 1
AGAGAACUCUCUCGGCCACAGUGAAUCCCACAUAAAAUAGCAAAUUGCUGGCGGGCAGGAACGGCAUCACCAGGAAGGCGACGCACAUCAAGCGAGUCGGCGCAUAGCAAG---GACUC
((((....))))(.(((...(((.....))).......(((.....)))))).)((..((...((.((.((.....)).)).))...))..))(((((.((.....))...---))))) ( -31.20)
>consensus
AGAGCACCCUUUCGGCCAUUACGAAUCCCACGUAGAAGAGCAGAUUGCUGGCGGGCAGGAAUGGCAACACCAGGAAGGCAGUGCCCAAGAUGGGGGCUGCUGUCCAUGAGG___AGCUU
.((((..(((.((.(((.(((((.......)))))...(((.....)))))).)).)))...(....)....(((.((((((.(((.....))).)))))).)))..........)))) (-32.56 = -32.77 +   0.20) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:15 2006