Locus 6350

Sequence ID	X_DroMel_CAF1
Location	16,002,836 – 16,002,956
Length	120
Max. P	0.899724

overview

Window 3

Location	16,002,836 – 16,002,956
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.74
Mean single sequence MFE	-26.14
Consensus MFE	-24.26
Energy contribution	-24.14
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.30
Structure conservation index	0.93
SVM decision value	0.75
SVM RNA-class probability	0.839844
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16002836 120 + 22224390
UUAGGAAAAGAAAUCAUUUGCGUUUUAUAUAAACGAGCUACCGAAACGAUAUGUAACGAUACAUUCCAGCGUAGCAGUAGCAAAACUGUAUAUGAAACAGAAUGUCUACAUUUGGUCGCA
..................(((((((((((((.....(((((.(..(((..(((((....))))).....)))..).))))).......)))))))))).(((((....)))))....))) ( -25.90)
>DroSec_CAF1 70754 120 + 1
UUAGAAAAUGAAAUCAUUUGCGUUUUAUAUAAACGAGCUAACGAAACGAUUUGUAACGAUACAUUCCAGCGUAGCAGUAGCAAAACUGUGUAUGAAACAGAAUGUCUACAUUUGGUCGCA
.....(((((....)))))((((((((((((.....((((..(..(((...((((....))))......)))..)..)))).......)))))))))).(((((....)))))....)). ( -23.60)
>DroSim_CAF1 65380 120 + 1
UUAGAAAACGAAAUCAUUUGCGUUUUAUAUAAACGAGCUACCGAAACGAUUUGUAACGAUACAUUCCAGCGUAGCAGUAGCAAAACUGUGUAUGAAACAGAAUGUCUACAUUUGGUCGCA
..................(((((((((((((.....(((((.(..(((...((((....))))......)))..).))))).......)))))))))).(((((....)))))....))) ( -24.60)
>DroEre_CAF1 69912 118 + 1
UUAGAAAAAGAAAUCAUUUGCGUUUCAUAUAAACGAGCUACCGAAACGAUUUGUAACGAUACAUUCCUGCGUAGCAGUAGCA--ACUGUGUAUGAAACCGAAUGUCUACAUUUGGUCGCA
..................((((.((((((((.....(((((.(..(((...((((....))))......)))..).))))).--....))))))))((((((((....)))))))))))) ( -30.80)
>DroYak_CAF1 53980 118 + 1
UUAGGAAAAGAAAUCAUUUGCGUUUUAUAUAAACGAGCUACCGAAACGAUUUGUAACGAUACAUUCCUGCGUAGCAGUAGCA--ACUGUGUAUGAAACAGAAUGUCUACAUUUGGUCGCA
..................(((((((((((((.....(((((.(..(((...((((....))))......)))..).))))).--....)))))))))).(((((....)))))....))) ( -25.80)
>consensus
UUAGAAAAAGAAAUCAUUUGCGUUUUAUAUAAACGAGCUACCGAAACGAUUUGUAACGAUACAUUCCAGCGUAGCAGUAGCAAAACUGUGUAUGAAACAGAAUGUCUACAUUUGGUCGCA
..................(((((((((((((.....(((((.(..(((...((((....))))......)))..).))))).......)))))))))).(((((....)))))....))) (-24.26 = -24.14 +  -0.12)

alignment

secondary structure

dotplot

Window 4

Location	16,002,836 – 16,002,956
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.74
Mean single sequence MFE	-25.92
Consensus MFE	-24.16
Energy contribution	-24.56
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.36
Structure conservation index	0.93
SVM decision value	1.01
SVM RNA-class probability	0.899724
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16002836 120 - 22224390
UGCGACCAAAUGUAGACAUUCUGUUUCAUAUACAGUUUUGCUACUGCUACGCUGGAAUGUAUCGUUACAUAUCGUUUCGGUAGCUCGUUUAUAUAAAACGCAAAUGAUUUCUUUUCCUAA
((((.....((((((((...((((.......))))....(((((((..(((.....(((((....)))))..)))..)))))))..))))))))....)))).................. ( -27.90)
>DroSec_CAF1 70754 120 - 1
UGCGACCAAAUGUAGACAUUCUGUUUCAUACACAGUUUUGCUACUGCUACGCUGGAAUGUAUCGUUACAAAUCGUUUCGUUAGCUCGUUUAUAUAAAACGCAAAUGAUUUCAUUUUCUAA
........((((...(((((((((.....)))((((...((....))...))))))))))..))))..(((((((((((((...............)))).))))))))).......... ( -21.66)
>DroSim_CAF1 65380 120 - 1
UGCGACCAAAUGUAGACAUUCUGUUUCAUACACAGUUUUGCUACUGCUACGCUGGAAUGUAUCGUUACAAAUCGUUUCGGUAGCUCGUUUAUAUAAAACGCAAAUGAUUUCGUUUUCUAA
.(((.....((((((((...((((.......))))....(((((((..(((......((((....))))...)))..)))))))..))))))))....)))(((((....)))))..... ( -26.20)
>DroEre_CAF1 69912 118 - 1
UGCGACCAAAUGUAGACAUUCGGUUUCAUACACAGU--UGCUACUGCUACGCAGGAAUGUAUCGUUACAAAUCGUUUCGGUAGCUCGUUUAUAUGAAACGCAAAUGAUUUCUUUUUCUAA
(((((((.((((....)))).)))((((((......--.(((((((..(((......((((....))))...)))..))))))).......)))))).)))).................. ( -27.94)
>DroYak_CAF1 53980 118 - 1
UGCGACCAAAUGUAGACAUUCUGUUUCAUACACAGU--UGCUACUGCUACGCAGGAAUGUAUCGUUACAAAUCGUUUCGGUAGCUCGUUUAUAUAAAACGCAAAUGAUUUCUUUUCCUAA
((((.....((((((((...((((.......)))).--.(((((((..(((......((((....))))...)))..)))))))..))))))))....)))).................. ( -25.90)
>consensus
UGCGACCAAAUGUAGACAUUCUGUUUCAUACACAGUUUUGCUACUGCUACGCUGGAAUGUAUCGUUACAAAUCGUUUCGGUAGCUCGUUUAUAUAAAACGCAAAUGAUUUCUUUUUCUAA
((((.....((((((((...((((.......))))....(((((((..(((......((((....))))...)))..)))))))..))))))))....)))).................. (-24.16 = -24.56 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:28 2006