Locus 2982

Sequence ID	2R_DroMel_CAF1
Location	10,285,693 – 10,285,784
Length	91
Max. P	0.998697

overview

Window 7

Location	10,285,693 – 10,285,784
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	99.56
Mean single sequence MFE	-27.27
Consensus MFE	-26.74
Energy contribution	-26.94
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.98
SVM decision value	1.19
SVM RNA-class probability	0.927842
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10285693 91 + 20766785
UAAGUUCGGGAUCCGAAAUCUCACGCACGCCCUUCACAAUCGAAAUCCACUGCCACGCGUGCUCCGUGCCGUAGAAACCGAGCACGGAUCA
....(((((...))))).......((((((..........................))))))(((((((((.......)).)))))))... ( -25.17)
>DroSec_CAF1 247 91 + 1
UAAGUUCGGGAUCCGAAAUCUCACGCACGCCCUUCGCAAUCGAAAUCCACUGCCACGCGUGCUCCGUGCCGUAGAAACCGAGCACGGAUCA
....(((((...))))).......((((((.....(((............)))...))))))(((((((((.......)).)))))))... ( -27.80)
>DroSim_CAF1 252 91 + 1
UAAGUUCGGGAUCCGAAAUCUCACGCACGCCCUUCGCAAUCGAAAUCCACUGCCACGCGUGCUCCGUGCCGUAGAAACCGAGCACGGAUCA
....(((((...))))).......((((((.....(((............)))...))))))(((((((((.......)).)))))))... ( -27.80)
>DroEre_CAF1 254 91 + 1
UAAGUUCGGGAUCCGAAAUCUCACGCACGCCCUUCGCAAUCGAAAUCCACUGCCACGCGUGCUCCGUGCCGUAGAAACCGAGCACGGAUCA
....(((((...))))).......((((((.....(((............)))...))))))(((((((((.......)).)))))))... ( -27.80)
>DroYak_CAF1 255 91 + 1
UAAGUUCGGGAUCCGAAAUCUCACGCACGCCCUUCGCAAUCGAAAUCCACUGCCACGCGUGCUCCGUGCCGUAGAAACCGAGCACGGAUCA
....(((((...))))).......((((((.....(((............)))...))))))(((((((((.......)).)))))))... ( -27.80)
>consensus
UAAGUUCGGGAUCCGAAAUCUCACGCACGCCCUUCGCAAUCGAAAUCCACUGCCACGCGUGCUCCGUGCCGUAGAAACCGAGCACGGAUCA
....(((((...))))).......((((((.....(((............)))...))))))(((((((((.......)).)))))))... (-26.74 = -26.94 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	10,285,693 – 10,285,784
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	99.56
Mean single sequence MFE	-37.70
Consensus MFE	-37.86
Energy contribution	-37.70
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.34
Structure conservation index	1.00
SVM decision value	3.19
SVM RNA-class probability	0.998697
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10285693 91 - 20766785
UGAUCCGUGCUCGGUUUCUACGGCACGGAGCACGCGUGGCAGUGGAUUUCGAUUGUGAAGGGCGUGCGUGAGAUUUCGGAUCCCGAACUUA
...(((((((.((.......)))))))))((((((.(.(((((.(....).))))).)...)))))).((((..(((((...))))))))) ( -36.50)
>DroSec_CAF1 247 91 - 1
UGAUCCGUGCUCGGUUUCUACGGCACGGAGCACGCGUGGCAGUGGAUUUCGAUUGCGAAGGGCGUGCGUGAGAUUUCGGAUCCCGAACUUA
...(((((((.((.......)))))))))((((((.(.(((((.(....).)))))...).)))))).((((..(((((...))))))))) ( -38.00)
>DroSim_CAF1 252 91 - 1
UGAUCCGUGCUCGGUUUCUACGGCACGGAGCACGCGUGGCAGUGGAUUUCGAUUGCGAAGGGCGUGCGUGAGAUUUCGGAUCCCGAACUUA
...(((((((.((.......)))))))))((((((.(.(((((.(....).)))))...).)))))).((((..(((((...))))))))) ( -38.00)
>DroEre_CAF1 254 91 - 1
UGAUCCGUGCUCGGUUUCUACGGCACGGAGCACGCGUGGCAGUGGAUUUCGAUUGCGAAGGGCGUGCGUGAGAUUUCGGAUCCCGAACUUA
...(((((((.((.......)))))))))((((((.(.(((((.(....).)))))...).)))))).((((..(((((...))))))))) ( -38.00)
>DroYak_CAF1 255 91 - 1
UGAUCCGUGCUCGGUUUCUACGGCACGGAGCACGCGUGGCAGUGGAUUUCGAUUGCGAAGGGCGUGCGUGAGAUUUCGGAUCCCGAACUUA
...(((((((.((.......)))))))))((((((.(.(((((.(....).)))))...).)))))).((((..(((((...))))))))) ( -38.00)
>consensus
UGAUCCGUGCUCGGUUUCUACGGCACGGAGCACGCGUGGCAGUGGAUUUCGAUUGCGAAGGGCGUGCGUGAGAUUUCGGAUCCCGAACUUA
...(((((((.((.......)))))))))((((((.(.(((((.(....).))))).)...)))))).((((..(((((...))))))))) (-37.86 = -37.70 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:32 2006