Locus 6725

Sequence ID	2L_DroMel_CAF1
Location	18,789,079 – 18,789,214
Length	135
Max. P	0.992682

overview

Window 7

Location	18,789,079 – 18,789,174
Length	95
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	95.54
Mean single sequence MFE	-37.08
Consensus MFE	-32.93
Energy contribution	-32.77
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.97
Structure conservation index	0.89
SVM decision value	2.34
SVM RNA-class probability	0.992682
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18789079 95 + 22407834
ACGGGUGGAGCUCCCGAAACUUCGUCGCACCACCAACCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGUUU
...(((((.((...(((....)))..)).)))))....((((.((.((((((.((.(((((((....)))))))...)).)))))).---------)).)))). ( -37.20)
>DroSec_CAF1 51686 95 + 1
ACGGGUGGAGCUCCCGAAACUUCGUCGCACCACCAACCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGUUU
...(((((.((...(((....)))..)).)))))....((((.((.((((((.((.(((((((....)))))))...)).)))))).---------)).)))). ( -37.20)
>DroSim_CAF1 50674 95 + 1
ACGGGUGGAGCUCCCGAAACUUCGUCGCACCACCAACCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGUUU
...(((((.((...(((....)))..)).)))))....((((.((.((((((.((.(((((((....)))))))...)).)))))).---------)).)))). ( -37.20)
>DroEre_CAF1 52513 104 + 1
ACGGGUGGAGCUCCCGAAACUUCGUCGCACCACCAACCAACCACACAGGCACGUGCUCACCACGCCAGUGGUGAUUUCAGGUGUUUCUUGGGUUUCUGGGGUUU
...(((((.((...(((....)))..)).)))))..((((((....((((((.((.(((((((....)))))))...)).))))))....)))...)))..... ( -37.90)
>DroYak_CAF1 52595 95 + 1
ACGGGUGGAGCUCCCGAAACUUCGUCGCACCACCAACCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGCUU
...(((((.((...(((....)))..)).)))))......((.((.((((((.((.(((((((....)))))))...)).)))))).---------)))).... ( -35.90)
>consensus
ACGGGUGGAGCUCCCGAAACUUCGUCGCACCACCAACCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC_________UGGGGUUU
...(((((.((...(((....)))..)).)))))..(((.......((((((.((.(((((((....)))))))...)).))))))..........)))..... (-32.93 = -32.77 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	18,789,079 – 18,789,174
Length	95
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	95.54
Mean single sequence MFE	-37.62
Consensus MFE	-34.60
Energy contribution	-34.44
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.51
Structure conservation index	0.92
SVM decision value	1.44
SVM RNA-class probability	0.954037
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18789079 95 - 22407834
AAACCCCA---------GAAACACCUGAAAUCACCACUGGCGCGGUGAGCACGUGCCUGUGUGGUUGGUUGGUGGUGCGACGAAGUUUCGGGAGCUCCACCCGU
.((((.((---------(......))).((((((.((.((((((.......)))))).))))))))))))(((((.((..(((....)))...)).)))))... ( -37.80)
>DroSec_CAF1 51686 95 - 1
AAACCCCA---------GAAACACCUGAAAUCACCACUGGCGCGGUGAGCACGUGCCUGUGUGGUUGGUUGGUGGUGCGACGAAGUUUCGGGAGCUCCACCCGU
.((((.((---------(......))).((((((.((.((((((.......)))))).))))))))))))(((((.((..(((....)))...)).)))))... ( -37.80)
>DroSim_CAF1 50674 95 - 1
AAACCCCA---------GAAACACCUGAAAUCACCACUGGCGCGGUGAGCACGUGCCUGUGUGGUUGGUUGGUGGUGCGACGAAGUUUCGGGAGCUCCACCCGU
.((((.((---------(......))).((((((.((.((((((.......)))))).))))))))))))(((((.((..(((....)))...)).)))))... ( -37.80)
>DroEre_CAF1 52513 104 - 1
AAACCCCAGAAACCCAAGAAACACCUGAAAUCACCACUGGCGUGGUGAGCACGUGCCUGUGUGGUUGGUUGGUGGUGCGACGAAGUUUCGGGAGCUCCACCCGU
.((((.....((((((.....(((.((...(((((((....))))))).)).)))....)).))))))))(((((.((..(((....)))...)).)))))... ( -36.90)
>DroYak_CAF1 52595 95 - 1
AAGCCCCA---------GAAACACCUGAAAUCACCACUGGCGCGGUGAGCACGUGCCUGUGUGGUUGGUUGGUGGUGCGACGAAGUUUCGGGAGCUCCACCCGU
.((((.((---------(......))).((((((.((.((((((.......)))))).))))))))))))(((((.((..(((....)))...)).)))))... ( -37.80)
>consensus
AAACCCCA_________GAAACACCUGAAAUCACCACUGGCGCGGUGAGCACGUGCCUGUGUGGUUGGUUGGUGGUGCGACGAAGUUUCGGGAGCUCCACCCGU
............................(((((((((.((((((.......))))))...)))).)))))(((((.((..(((....)))...)).)))))... (-34.60 = -34.44 +  -0.16)

alignment

secondary structure

dotplot

Window 9

Location	18,789,115 – 18,789,214
Length	99
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	80.57
Mean single sequence MFE	-35.18
Consensus MFE	-27.56
Energy contribution	-26.84
Covariance contribution	-0.72
Combinations/Pair	1.15
Mean z-score	-1.54
Structure conservation index	0.78
SVM decision value	0.29
SVM RNA-class probability	0.670145
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18789115 99 + 22407834
CCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGUUUCUGGUGCUUCGGUGGCUUGGGUGGCUUGGGUUGUUUUGAU
.(((((.((.((.(((.(((.(((((((((((....(((..((((....))---------))..))).)))))))...))))))..).))).)))))))))....... ( -41.20)
>DroSec_CAF1 51722 86 + 1
CCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGUUUCUGGGGUUUCAGGUGCUUCGGUGGCUU-------------
....((((..((((((.((.(((((((....)))))))...)).)))))).---------((((((.(((((....))))).))))))))))...------------- ( -31.90)
>DroSim_CAF1 50710 99 + 1
CCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGUUUCUGGGGUUUCAGGUGCUUCGGUGGCUUGGGUGGCUUUGAU
.(((((((.(((((((.((.(((((((....)))))))...)).))....(---------((((((.(((((....))))).)))))))..))))).))))..))).. ( -37.20)
>DroEre_CAF1 52549 91 + 1
CCAACCACACAGGCACGUGCUCACCACGCCAGUGGUGAUUUCAGGUGUUUCUUGGGUUUCUGGGGUUUCUGGGGUCUCGGGUACUUGGGUU-----------------
(((((((...((((((.((.(((((((....)))))))...)).))))))..)))((.((((((..(.....)..)))))).))))))...----------------- ( -32.50)
>DroYak_CAF1 52631 82 + 1
CCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC---------UGGGGCUUCUGGCGUUUCAGGUGCUUGGGUG-----------------
.....(((.(((((((.((......(((((((.(((...((((((....))---------))))))).)))))))..)).))))))).)))----------------- ( -33.10)
>consensus
CCAACCACACAGGCACGUGCUCACCGCGCCAGUGGUGAUUUCAGGUGUUUC_________UGGGGUUUCUGGGGUUUCAGGUGCUUGGGUGGCUU_____________
...(((....((((((.((.(((((((....)))))))...)).))))))............((((..((((....))))..)))).))).................. (-27.56 = -26.84 +  -0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:29 2006