Locus 9890

Sequence ID	3R_DroMel_CAF1
Location	26,401,499 – 26,401,593
Length	94
Max. P	0.999956

overview

Window 6

Location	26,401,499 – 26,401,593
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	95.53
Mean single sequence MFE	-23.93
Consensus MFE	-23.00
Energy contribution	-23.16
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-2.56
Structure conservation index	0.96
SVM decision value	4.68
SVM RNA-class probability	0.999938
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26401499 94 + 27905053
AACAUAUACCACAUAUAUCGAUAAAGAUCGCAGAUCGAGCAGACUCGUGAUCCAUGGAUAUAGCCUAAUACCCAUGUGCCACGAGUCAUGUUUU
.........................((((...))))(((((((((((((...(((((.(((......))).)))))...)))))))).))))). ( -25.60)
>DroSec_CAF1 130813 94 + 1
AACAUAUACCACAUAUAUCGAUAAAGAUCGCAGAUCGAGCAGACUCGUGAUCCAUGGAUAUAGCCUAAUACCCAUGUGCCACGAGUCAUGUUUU
.........................((((...))))(((((((((((((...(((((.(((......))).)))))...)))))))).))))). ( -25.60)
>DroSim_CAF1 128549 94 + 1
AACAUAUACCACAUAUAUCGAUAAAGAUCGCAGAUCGAGCAGACUCGUGAUCCAUGGAUAUAGCCUAAUACCCAUGUGCCACGAGUCAUGUUUU
.........................((((...))))(((((((((((((...(((((.(((......))).)))))...)))))))).))))). ( -25.60)
>DroEre_CAF1 135361 94 + 1
UACAUAUGCCACACUUAUCGAUAAAGAUCGCAGAUCGAGCAGACUCGUGAUCCAUGGAUUUAGCAUAAUACCCAUGUGCCACGAGUUAUGUUUU
.........................((((...))))(((((((((((((...(((((..............)))))...)))))))).))))). ( -21.24)
>DroYak_CAF1 130110 94 + 1
UACAUAUACCACAUAUAUCGAUAAAGAUCGCAGAUCGAGCAGACUCGUGAUCCAUGGAUAUAGCAUAAUACCCAUGAGCCACGAGUUAUCUUUU
......................((((((.((.......)).((((((((...(((((.(((......))).)))))...)))))))))))))). ( -21.60)
>consensus
AACAUAUACCACAUAUAUCGAUAAAGAUCGCAGAUCGAGCAGACUCGUGAUCCAUGGAUAUAGCCUAAUACCCAUGUGCCACGAGUCAUGUUUU
.........................((((...))))(((((((((((((...(((((.(((......))).)))))...)))))))).))))). (-23.00 = -23.16 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	26,401,499 – 26,401,593
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	95.53
Mean single sequence MFE	-32.02
Consensus MFE	-29.50
Energy contribution	-30.14
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-3.73
Structure conservation index	0.92
SVM decision value	4.85
SVM RNA-class probability	0.999956
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26401499 94 - 27905053
AAAACAUGACUCGUGGCACAUGGGUAUUAGGCUAUAUCCAUGGAUCACGAGUCUGCUCGAUCUGCGAUCUUUAUCGAUAUAUGUGGUAUAUGUU
..((((((((((((((..(((((((((......)))))))))..)))))))))((((((.....((((....)))).....)).)))).))))) ( -32.90)
>DroSec_CAF1 130813 94 - 1
AAAACAUGACUCGUGGCACAUGGGUAUUAGGCUAUAUCCAUGGAUCACGAGUCUGCUCGAUCUGCGAUCUUUAUCGAUAUAUGUGGUAUAUGUU
..((((((((((((((..(((((((((......)))))))))..)))))))))((((((.....((((....)))).....)).)))).))))) ( -32.90)
>DroSim_CAF1 128549 94 - 1
AAAACAUGACUCGUGGCACAUGGGUAUUAGGCUAUAUCCAUGGAUCACGAGUCUGCUCGAUCUGCGAUCUUUAUCGAUAUAUGUGGUAUAUGUU
..((((((((((((((..(((((((((......)))))))))..)))))))))((((((.....((((....)))).....)).)))).))))) ( -32.90)
>DroEre_CAF1 135361 94 - 1
AAAACAUAACUCGUGGCACAUGGGUAUUAUGCUAAAUCCAUGGAUCACGAGUCUGCUCGAUCUGCGAUCUUUAUCGAUAAGUGUGGCAUAUGUA
...(((((((((((((..(((((((..........)))))))..)))))))).((((....((.((((....))))...))...))))))))). ( -29.90)
>DroYak_CAF1 130110 94 - 1
AAAAGAUAACUCGUGGCUCAUGGGUAUUAUGCUAUAUCCAUGGAUCACGAGUCUGCUCGAUCUGCGAUCUUUAUCGAUAUAUGUGGUAUAUGUA
.((((((.((((((((..(((((((((......)))))))))..)))))))).(((.......)))))))))....(((((((...))))))). ( -31.50)
>consensus
AAAACAUGACUCGUGGCACAUGGGUAUUAGGCUAUAUCCAUGGAUCACGAGUCUGCUCGAUCUGCGAUCUUUAUCGAUAUAUGUGGUAUAUGUU
...(((((((((((((..(((((((((......)))))))))..)))))))))((((((.....((((....)))).....)).)))).)))). (-29.50 = -30.14 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:19 2006