Locus 6767

Sequence ID	3L_DroMel_CAF1
Location	18,161,454 – 18,161,558
Length	104
Max. P	0.909130

overview

Window 9

Location	18,161,454 – 18,161,558
Length	104
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.30
Mean single sequence MFE	-36.90
Consensus MFE	-22.36
Energy contribution	-21.45
Covariance contribution	-0.91
Combinations/Pair	1.24
Mean z-score	-1.76
Structure conservation index	0.61
SVM decision value	0.42
SVM RNA-class probability	0.729867
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18161454 104 + 23771897
--------CUGCUGCCGAUUUCCCCUUUGGGGCAAUUAUUGUGGCCAACUCUGCGGGCUGGC--UGCCAUUUAUAAUUGCUGGUCCGAGGCUUUCAGUUUUCAGCUACUGGCCG------
--------..((..(.((((.((((...)))).))))...)..))........(((((..((--..............))..))))).((((...(((.....)))...)))).------ ( -32.94)
>DroPse_CAF1 88270 113 + 1
GUCUACUGCUGCUGCUGAUUUCCCCUUUGGGGCAAUUAU-GUGGCCAGCUCCCCAGGUUGCG--GGCCAUUUAUAAUUGCGGGUCUAAGACUC----UUUCCAGCUACUGGUUGCAGCUU
.......(((((.((((....(((....)))((((((((-((((((.((..(....)..)).--))))))..))))))))(((((...)))))----....))))........))))).. ( -41.80)
>DroEre_CAF1 64742 110 + 1
--------GUGCUGCCGAUUUCCCCUUUGGGGCAAUUAUUGUGGCCAACUCUGCGGGCUGGC--UGCCAUUUAUAAUUGCUGGUCCGAGGCUUUCAGUUUUCAGCUACUGGCCGCUGCUU
--------..((....((((.((((...)))).))))...(((((((......(((((..((--..............))..))))).((((..........))))..))))))).)).. ( -36.54)
>DroYak_CAF1 65758 110 + 1
--------CUGCUGCCGAUUUCCCCUUUGGGGCAAUUAUUGUGGCCAACUCUGCGGGCUGGC--UGCCAUUUAUAAUUGCUGGUUUGAGGCUUUCAGUUUUCAGCUACUGGCCGCUGCUG
--------..((.((((....(((....)))((((((((.(..((((.((.....)).))))--..).....))))))))(((((.(((((.....))))).))))).)))).))..... ( -34.80)
>DroAna_CAF1 70307 105 + 1
--------CUGCUGCUGAUUUCCCCUUUGGGGCAAUUAUAGUGGCCAGCUCUCCAAGCUGGCACAGUCAUUUAUAAUUGCGGGUCCGAGACUUUCA-------GCUACUGGUUGCUGCUA
--------.....(((((...(((....)))(((((((((((((((((((.....))))))).)).....))))))))))(((((...))))))))-------))...((((....)))) ( -33.50)
>DroPer_CAF1 76827 113 + 1
GUCUACUGCUGCUGCUGAUUUCCCCUUUGGGGCAAUUAU-GUGGCCAGCUCCCCAGGUUGCG--GGCCAUUUAUAAUUGCGGGUCUAAGACUC----UUUCCAGCUACUGGUUGCAGCUU
.......(((((.((((....(((....)))((((((((-((((((.((..(....)..)).--))))))..))))))))(((((...)))))----....))))........))))).. ( -41.80)
>consensus
________CUGCUGCCGAUUUCCCCUUUGGGGCAAUUAUUGUGGCCAACUCUCCAGGCUGGC__UGCCAUUUAUAAUUGCGGGUCCGAGACUUUCA_UUUUCAGCUACUGGCCGCUGCUU
..........((.(((((((.((((...)))).))))...(((((..........(((.......))).............((((...))))...........))))).))).))..... (-22.36 = -21.45 +  -0.91)

alignment

secondary structure

dotplot

Window 0

Location	18,161,454 – 18,161,558
Length	104
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.30
Mean single sequence MFE	-34.13
Consensus MFE	-22.43
Energy contribution	-23.02
Covariance contribution	0.58
Combinations/Pair	1.12
Mean z-score	-2.07
Structure conservation index	0.66
SVM decision value	1.06
SVM RNA-class probability	0.909130
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18161454 104 - 23771897
------CGGCCAGUAGCUGAAAACUGAAAGCCUCGGACCAGCAAUUAUAAAUGGCA--GCCAGCCCGCAGAGUUGGCCACAAUAAUUGCCCCAAAGGGGAAAUCGGCAGCAG--------
------.........((((....((((...((((......((((((((...((...--((((((.......))))))..))))))))))......))))...))))))))..-------- ( -30.00)
>DroPse_CAF1 88270 113 - 1
AAGCUGCAACCAGUAGCUGGAAA----GAGUCUUAGACCCGCAAUUAUAAAUGGCC--CGCAACCUGGGGAGCUGGCCAC-AUAAUUGCCCCAAAGGGGAAAUCAGCAGCAGCAGUAGAC
..(((((..((((...))))...----((...........((((((((...(((((--.((..(....)..)).))))).-))))))))(((....)))...)).))))).......... ( -38.20)
>DroEre_CAF1 64742 110 - 1
AAGCAGCGGCCAGUAGCUGAAAACUGAAAGCCUCGGACCAGCAAUUAUAAAUGGCA--GCCAGCCCGCAGAGUUGGCCACAAUAAUUGCCCCAAAGGGGAAAUCGGCAGCAC--------
..((.(((((((((........))))...))).(((....((((((((...((...--((((((.......))))))..))))))))))(((....)))...))))).))..-------- ( -31.60)
>DroYak_CAF1 65758 110 - 1
CAGCAGCGGCCAGUAGCUGAAAACUGAAAGCCUCAAACCAGCAAUUAUAAAUGGCA--GCCAGCCCGCAGAGUUGGCCACAAUAAUUGCCCCAAAGGGGAAAUCGGCAGCAG--------
((((.((.....)).))))....(((...(((........((((((((...((...--((((((.......))))))..))))))))))(((....))).....)))..)))-------- ( -33.10)
>DroAna_CAF1 70307 105 - 1
UAGCAGCAACCAGUAGC-------UGAAAGUCUCGGACCCGCAAUUAUAAAUGACUGUGCCAGCUUGGAGAGCUGGCCACUAUAAUUGCCCCAAAGGGGAAAUCAGCAGCAG--------
..((.((.....)).((-------(((...((((......(((((((((......((.((((((((...)))))))))).)))))))))......))))...))))).))..-------- ( -33.70)
>DroPer_CAF1 76827 113 - 1
AAGCUGCAACCAGUAGCUGGAAA----GAGUCUUAGACCCGCAAUUAUAAAUGGCC--CGCAACCUGGGGAGCUGGCCAC-AUAAUUGCCCCAAAGGGGAAAUCAGCAGCAGCAGUAGAC
..(((((..((((...))))...----((...........((((((((...(((((--.((..(....)..)).))))).-))))))))(((....)))...)).))))).......... ( -38.20)
>consensus
AAGCAGCAACCAGUAGCUGAAAA_UGAAAGCCUCAGACCAGCAAUUAUAAAUGGCA__GCCAGCCCGCAGAGCUGGCCACAAUAAUUGCCCCAAAGGGGAAAUCAGCAGCAG________
............((.(((((....................((((((((...((((.....((((.......))))))))..))))))))(((....)))...))))).)).......... (-22.43 = -23.02 +   0.58)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:31 2006