Locus 715

Sequence ID	2L_DroMel_CAF1
Location	2,082,737 – 2,082,896
Length	159
Max. P	0.998854

overview

Window 0

Location	2,082,737 – 2,082,829
Length	92
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	94.41
Mean single sequence MFE	-39.07
Consensus MFE	-34.99
Energy contribution	-34.88
Covariance contribution	-0.11
Combinations/Pair	1.07
Mean z-score	-2.81
Structure conservation index	0.90
SVM decision value	3.25
SVM RNA-class probability	0.998854
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2082737 92 - 22407834
UGGC------UCCGUGUGAGCGAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCGGCAAACGCACUCGC----ACAC
..((------((.....))))(.(((((((((.((..(((((..((((((((.....))))))))........)))))..)).))))).)))))----.... ( -37.60)
>DroSec_CAF1 99873 92 - 1
UGGC------UCCGUGUGAGCGAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCGGCAAACACACUCGC----ACAC
..((------((.....))))(.(((((((((.((..(((((..((((((((.....))))))))........)))))..)).))))).)))))----.... ( -38.00)
>DroSim_CAF1 99662 92 - 1
UGGC------UCCGUGUGAGCGAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCGGCAAACACACUCGC----ACAC
..((------((.....))))(.(((((((((.((..(((((..((((((((.....))))))))........)))))..)).))))).)))))----.... ( -38.00)
>DroEre_CAF1 102309 98 - 1
UGGCUCCGGCUCCGUGUGAGCGAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCGGCAAACACACUCGC----ACAC
..((....((((.....))))...((((((((.((..(((((..((((((((.....))))))))........)))))..)).))))).)))))----.... ( -39.60)
>DroYak_CAF1 103938 92 - 1
UGGC------UCCGUGUGAGCGAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCGGCAAACACACUCGC----ACAC
..((------((.....))))(.(((((((((.((..(((((..((((((((.....))))))))........)))))..)).))))).)))))----.... ( -38.00)
>DroAna_CAF1 99045 96 - 1
UGGU------UUCGUGUGAGUAAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCAGCAAACACACUCGCUCGCACAC
....------...((((((((...((((((((.(((.(((((..((((((((.....))))))))........))))).))).))))).))))))))))).. ( -43.20)
>consensus
UGGC______UCCGUGUGAGCGAUGAGGUGUUGGUUAGCCUUUGGGCCAGGCAAAUUGCUUGGUCAGUUCUUUGAGGCCGGCAAACACACUCGC____ACAC
.............((((..((((....(((((.((..(((((..((((((((.....))))))))........)))))..)).)))))..))))....)))) (-34.99 = -34.88 +  -0.11)

alignment

secondary structure

dotplot

Window 1

Location	2,082,797 – 2,082,896
Length	99
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	81.48
Mean single sequence MFE	-33.26
Consensus MFE	-22.05
Energy contribution	-24.17
Covariance contribution	2.12
Combinations/Pair	1.12
Mean z-score	-2.22
Structure conservation index	0.66
SVM decision value	1.09
SVM RNA-class probability	0.912901
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2082797 99 + 22407834
CUAACCAACACCUCAUCGCUCACACGGA------GCCAAAGAGCCA-AGAGCCAAUGGAUGAGAUAAAACAAUGGUGA-GUGGC-AAGUGGU---G-----AAGUGGAGACGAUGG
.............((((((((.(((...------((((....((((-...((((.((..(......)..)).))))..-.))))-...))))---.-----..)))))).))))). ( -34.20)
>DroSec_CAF1 99933 102 + 1
CUAACCAACACCUCAUCGCUCACACGGA------GCCAAAGAGCCA-AGAGCCAAUGGGCGAGAUAAAACAAUGGUGA-GUGGC-AAGUGGCGAUG-----GAGUGGAGGCGAUGG
.............(((((((..(((...------((((....((((-...((((.((............)).))))..-.))))-...))))....-----..)))..))))))). ( -35.90)
>DroSim_CAF1 99722 102 + 1
CUAACCAACACCUCAUCGCUCACACGGA------GCCAAAGAGCCA-AGAGCCAAUGGGCGAGAUAAAACAAUGGUGA-GUGGC-AAGUGGCGAUG-----GAGUGGAGGCGAUGG
.............(((((((..(((...------((((....((((-...((((.((............)).))))..-.))))-...))))....-----..)))..))))))). ( -35.90)
>DroEre_CAF1 102369 99 + 1
CUAACCAACACCUCAUCGCUCACACGGAGCCGGAGCCAAAGAGCCGAAGAGCCAAUGGGCGAGAUAAAACAAUGGUGA-----------------GUGGCAAAGUGGCGGCAGUGG
....(((...((((...((((.....))))..))((((....((((....((((.((............)).))))..-----------------.))))....))))))...))) ( -28.80)
>DroYak_CAF1 103998 109 + 1
CUAACCAACACCUCAUCGCUCACACGGA------GCCAAAGAGCCAAUGGGCCAAUGGGCGAGAUAAAACAAUGGUGAAGUGGUGAAGUGGCGAAGUGGCAAUGUGGC-GAAGUGG
........(((.((..(((...(((...------((((....((((....((((.((............)).))))....))))....))))...))).....)))..-)).))). ( -31.50)
>consensus
CUAACCAACACCUCAUCGCUCACACGGA______GCCAAAGAGCCA_AGAGCCAAUGGGCGAGAUAAAACAAUGGUGA_GUGGC_AAGUGGCGA_G_____AAGUGGAGGCGAUGG
.............(((((((..(((.........((((....((((....((((.((............)).))))....))))....))))...........)))..))))))). (-22.05 = -24.17 +   2.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:40 2006