Locus 2608

Sequence ID	2L_DroMel_CAF1
Location	7,211,145 – 7,211,238
Length	93
Max. P	0.999479

overview

Window 6

Location	7,211,145 – 7,211,238
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	84.70
Mean single sequence MFE	-29.70
Consensus MFE	-24.16
Energy contribution	-24.00
Covariance contribution	-0.16
Combinations/Pair	1.14
Mean z-score	-4.17
Structure conservation index	0.81
SVM decision value	3.64
SVM RNA-class probability	0.999479
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7211145 93 + 22407834
UACAAACAGGCAUGAAUACAUGUACAUAUACAAUAUAUGUAUGUAGCAUGCCGCAUUUGGCGGCGUGCCUAAGCCUGCAAUGUAAACAAUUUU
((((..(((((........(((((((((((...))))))))))).(((((((((.....)))))))))....)))))...))))......... ( -35.90)
>DroSec_CAF1 5201 90 + 1
UACAAACAGGCAUGAAUACAUAUGGAUGUAC---AUAUACAUGUAGCAUGCCGCAUUUGGCGGCGUGCCUGAGCCUGCAAUGUAAACAAUUUU
((((..(((((...........((.(((((.---...))))).))(((((((((.....)))))))))....)))))...))))......... ( -31.90)
>DroSim_CAF1 5239 90 + 1
UACAAACAGGCAUGAAUACAUAUGGAUGUAC---AUAUAUAUGUAGCAUGCCGCAUUUGGCGGCGUGCCUGAGCCUGCAAUGUAAACAAUUUU
((((..(((((.....((((((((.((....---)).))))))))(((((((((.....)))))))))....)))))...))))......... ( -34.40)
>DroEre_CAF1 5233 80 + 1
UACAAACAGGCAUGAACACAUAU-------------ACGAGUAUACCGUGCCGCAUUUGGCGGUGUGCCUGAGCCUGCAAUGUAAACAAUUUU
((((..((((((((....)))..-------------.((.(((((((..((((....))))))))))).)).)))))...))))......... ( -23.50)
>DroYak_CAF1 5189 80 + 1
UACAAACAGGCAUGAAUACAUAU-------------ACGAAUGUACUAUGCCGCAUUUGGCGGUGUGCCUGAGCCUGCAAUGUAAACAAUUUU
((((..(((((.....(((((..-------------....))))).((((((((.....)))))))).....)))))...))))......... ( -22.80)
>consensus
UACAAACAGGCAUGAAUACAUAU__AU_UAC___AUAUGAAUGUAGCAUGCCGCAUUUGGCGGCGUGCCUGAGCCUGCAAUGUAAACAAUUUU
((((..((((((((....)))........................(((((((((.....)))))))))....)))))...))))......... (-24.16 = -24.00 +  -0.16)

alignment

secondary structure

dotplot

Window 7

Location	7,211,145 – 7,211,238
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	84.70
Mean single sequence MFE	-29.00
Consensus MFE	-20.98
Energy contribution	-22.18
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-4.10
Structure conservation index	0.72
SVM decision value	2.99
SVM RNA-class probability	0.998027
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7211145 93 - 22407834
AAAAUUGUUUACAUUGCAGGCUUAGGCACGCCGCCAAAUGCGGCAUGCUACAUACAUAUAUUGUAUAUGUACAUGUAUUCAUGCCUGUUUGUA
.........((((..((((((...((((.(((((.....))))).))))(((((((((((...))))))))..)))......)))))).)))) ( -32.40)
>DroSec_CAF1 5201 90 - 1
AAAAUUGUUUACAUUGCAGGCUCAGGCACGCCGCCAAAUGCGGCAUGCUACAUGUAUAU---GUACAUCCAUAUGUAUUCAUGCCUGUUUGUA
.........((((..((((((...((((.(((((.....))))).))))..(((.((((---(((......))))))).))))))))).)))) ( -30.80)
>DroSim_CAF1 5239 90 - 1
AAAAUUGUUUACAUUGCAGGCUCAGGCACGCCGCCAAAUGCGGCAUGCUACAUAUAUAU---GUACAUCCAUAUGUAUUCAUGCCUGUUUGUA
.........((((..((((((...((((.(((((.....))))).))))..((((((((---(......)))))))))....)))))).)))) ( -33.20)
>DroEre_CAF1 5233 80 - 1
AAAAUUGUUUACAUUGCAGGCUCAGGCACACCGCCAAAUGCGGCACGGUAUACUCGU-------------AUAUGUGUUCAUGCCUGUUUGUA
.........((((..((((((...((((((((((.....)))).((((.....))))-------------...))))))...)))))).)))) ( -25.60)
>DroYak_CAF1 5189 80 - 1
AAAAUUGUUUACAUUGCAGGCUCAGGCACACCGCCAAAUGCGGCAUAGUACAUUCGU-------------AUAUGUAUUCAUGCCUGUUUGUA
..............(((((((...(((.....)))......((((((((((((....-------------..))))))).))))).))))))) ( -23.00)
>consensus
AAAAUUGUUUACAUUGCAGGCUCAGGCACGCCGCCAAAUGCGGCAUGCUACAUACAUAU___GUA_AU__AUAUGUAUUCAUGCCUGUUUGUA
.........((((..((((((...((((.(((((.....))))).)))).......................(((....))))))))).)))) (-20.98 = -22.18 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:49 2006