Locus 2084

Sequence ID	2R_DroMel_CAF1
Location	7,816,426 – 7,816,529
Length	103
Max. P	0.949267

overview

Window 1

Location	7,816,426 – 7,816,529
Length	103
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.06
Mean single sequence MFE	-31.73
Consensus MFE	-19.57
Energy contribution	-20.90
Covariance contribution	1.33
Combinations/Pair	1.08
Mean z-score	-2.40
Structure conservation index	0.62
SVM decision value	1.33
SVM RNA-class probability	0.942751
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7816426 103 + 20766785
UGAUGGUCAAGGCCAUAAUGCAGGCGUAGUAGGUGGUGGCCAAGGCGGUGGAAUACACCUGACCAUAGGCAAUACCUAAACGAAAUA-------AAGAAAUUGCAACCAU
..(((((((.((((((..(((.......)))....)))))).....((((.....)))))))))))..(((((..((..........-------.))..)))))...... ( -31.20)
>DroVir_CAF1 76773 107 + 1
GUAUGGUCAGGGCCAUGAUGCAGGCAUAAUAUGUGGUAGCCAAUGCGGUUGAGUACACCUGGCCAUAGGCCACACCUGGAAGUUAGCAAAAGUCUAGAU---GAAAACAG
.(((((((((((((........)))......((((.(((((.....)))))..)))))))))))))).....((.(((((..((....))..))))).)---)....... ( -33.60)
>DroSec_CAF1 67826 103 + 1
UGAUGGUCAAGGCCAUAAUGCAGGCGUAGUAGGUGGUGGCCAAGGCGGUGGAAUACACCUGACCAUAGGCAAUUCCUAAACGAAAGA-------AAGAAAUUGCAACCAU
..(((((((.((((((..(((.......)))....)))))).....((((.....)))))))))))..((((((.((...(....).-------.)).))))))...... ( -35.50)
>DroEre_CAF1 72182 103 + 1
GGAUGGUCAAUGCCAUAAUGCAGGCGUAGUAGGUUGUGGCCAAGGCGGUCGAAUACACCUGACCAUAGGCAAUUCCUGAACGAAUGU-------AAGAAAUGGCAACCAU
..(((((...((((((..((((..(((..((((((((.((....))(((((........)))))....))))..)))).)))..)))-------)....))))))))))) ( -32.80)
>DroYak_CAF1 71783 103 + 1
UGAUGGUCAGGGCCAUAAUGCAGGCGUAGUAGGUGGUGGCCAAGGCGGUGGAAUACACCUGACCAUAGGCAAUUCCUGAACGAAAGA-------CAGAAAUAGCAACCAG
..(((((((.((((((..(((.......)))....)))))).....((((.....)))))))))))..((.(((.(((..(....).-------))).))).))...... ( -33.90)
>DroMoj_CAF1 90829 97 + 1
GGAUAGUCAGAGCCAUAAUGCAGGCGUAGUAUGUUGUAGCCAAGGCAGUGGAAUACACCUGGCCAUAGGCAACACCUGAAAAUUAGAA----------U---UGAAAUAC
.(((..((((.(((........))).........(((.(((..(((.(((.....)))...)))...))).))).))))..)))....----------.---........ ( -23.40)
>consensus
GGAUGGUCAAGGCCAUAAUGCAGGCGUAGUAGGUGGUGGCCAAGGCGGUGGAAUACACCUGACCAUAGGCAAUACCUGAACGAAAGA_______AAGAAAU_GCAACCAU
..(((((....)))))....((((.((.((..(((((.((....))((((.....))))..)))))..)).)).))))................................ (-19.57 = -20.90 +   1.33)

alignment

secondary structure

dotplot

Window 2

Location	7,816,426 – 7,816,529
Length	103
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	79.06
Mean single sequence MFE	-27.81
Consensus MFE	-20.73
Energy contribution	-20.37
Covariance contribution	-0.36
Combinations/Pair	1.19
Mean z-score	-2.18
Structure conservation index	0.75
SVM decision value	1.39
SVM RNA-class probability	0.949267
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7816426 103 - 20766785
AUGGUUGCAAUUUCUU-------UAUUUCGUUUAGGUAUUGCCUAUGGUCAGGUGUAUUCCACCGCCUUGGCCACCACCUACUACGCCUGCAUUAUGGCCUUGACCAUCA
((((((..........-------......((.(((((...(((...(((..((((.....)))))))..)))....)))))..))(((........)))...)))))).. ( -27.80)
>DroVir_CAF1 76773 107 - 1
CUGUUUUC---AUCUAGACUUUUGCUAACUUCCAGGUGUGGCCUAUGGCCAGGUGUACUCAACCGCAUUGGCUACCACAUAUUAUGCCUGCAUCAUGGCCCUGACCAUAC
..((((..---....))))................((((((.(...((((((((.......)))(((..(((.............))))))....)))))..).)))))) ( -25.82)
>DroSec_CAF1 67826 103 - 1
AUGGUUGCAAUUUCUU-------UCUUUCGUUUAGGAAUUGCCUAUGGUCAGGUGUAUUCCACCGCCUUGGCCACCACCUACUACGCCUGCAUUAUGGCCUUGACCAUCA
(((((((((((((((.-------..........)))))))))(((((((((((((((.......((....))..........)))))))).)))))))....)))))).. ( -30.43)
>DroEre_CAF1 72182 103 - 1
AUGGUUGCCAUUUCUU-------ACAUUCGUUCAGGAAUUGCCUAUGGUCAGGUGUAUUCGACCGCCUUGGCCACAACCUACUACGCCUGCAUUAUGGCAUUGACCAUCC
(((((((((((.....-------.((..(((..(((..(((....((((((((((........)))).))))))))))))...)))..))....))))))...))))).. ( -28.10)
>DroYak_CAF1 71783 103 - 1
CUGGUUGCUAUUUCUG-------UCUUUCGUUCAGGAAUUGCCUAUGGUCAGGUGUAUUCCACCGCCUUGGCCACCACCUACUACGCCUGCAUUAUGGCCCUGACCAUCA
.(((((((.(((((((-------.........))))))).))(((((((((((((((.......((....))..........)))))))).)))))))....)))))... ( -28.83)
>DroMoj_CAF1 90829 97 - 1
GUAUUUCA---A----------UUCUAAUUUUCAGGUGUUGCCUAUGGCCAGGUGUAUUCCACUGCCUUGGCUACAACAUACUACGCCUGCAUUAUGGCUCUGACUAUCC
........---.----------.........((((((((((....((((((((.(((......))))))))))))))))).....(((........))).))))...... ( -25.90)
>consensus
AUGGUUGC_AUUUCUU_______UCUUUCGUUCAGGAAUUGCCUAUGGUCAGGUGUAUUCCACCGCCUUGGCCACCACCUACUACGCCUGCAUUAUGGCCCUGACCAUCA
.(((((...........................(((.....))).((((((((((........)))).))))))...........(((........)))...)))))... (-20.73 = -20.37 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:49 2006