Locus 7270

Sequence ID 2L_DroMel_CAF1
Location 20,355,946 – 20,356,043
Length 97
Max. P 0.878354
window11632 window11633

overview

Window 2

Location 20,355,946 – 20,356,043
Length 97
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 71.21
Mean single sequence MFE -31.55
Consensus MFE -7.12
Energy contribution -8.69
Covariance contribution 1.56
Combinations/Pair 1.44
Mean z-score -2.20
Structure conservation index 0.23
SVM decision value -0.05
SVM RNA-class probability 0.510125
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20355946 97 + 22407834
----U------UGAUCUUCAAAACCGUUCGGUUUGAAUGGAUCGUGGGUCAGCACUGUGCUGGCCAUAAGUCAGC-CCC-AUGCGUCCACAUGAAGGCCAUUCGAUCCG
----.------.((((....(((((....)))))((((((.(((((((...(((..(.((((((.....))))))-.).-.)))..)).)))))...)))))))))).. ( -36.80)
>DroPse_CAF1 13336 80 + 1
----U------------ACCAAACUG--CAAUUUGUACUUGUUUAG--GUUGGACAGUGUUAAUAACAAGACUG-------UGCAUG--UAUGUGGCUCUUUCGAGCCG
----.------------(((((((((--(.....)))...)))).)--))((.(((((.((......)).))))-------).))..--.....(((((....))))). ( -20.50)
>DroSec_CAF1 12868 98 + 1
----U------UGAUCUUCAAAACCGUUCGGUUUGAAUGGAUCGUGGGGCAGCACAGUGCUGGCCAUAACUCAGCACCC-AUGCGUCCACAUGAAGGCCAUUCGAUCCG
----.------.((((....(((((....)))))((((((.(((((((((.(((..(((((((.......)))))))..-.))))))).)))))...)))))))))).. ( -39.90)
>DroSim_CAF1 11916 99 + 1
----U------UGAUCUUCAAAACCGUACGGUUUGACUGGAUCGUGGGGCAGCACAGUGCUGGCCAUAAGUCAGCACCCAAUGCAUCCACAUGAAGGCCAUUCGAUCCG
----.------......(((((.((....)))))))..(((((((((((((.....((((((((.....))))))))....))).)))))..(((.....)))))))). ( -37.10)
>DroEre_CAF1 13463 105 + 1
GCAAAAACUGAAAAGCCGAAAAGCCGUUCGAU-UGAAUUGUGCUUG--GCAGCACAGUGCUGGCCAUAAGUCAGCCUCC-AUGCGUCUACAUGAAGGCCUUUCGAUCCG
.......((....)).(((((.(((.......-...((((((((..--..))))))))((((((.....))))))...(-(((......))))..))).)))))..... ( -29.90)
>DroYak_CAF1 12860 96 + 1
----U------UAAUUUUCAAAACCGUUCGAUUUGAAUUGAUCUUG--GCAGCACAGUGCUGGCAAUAAGUCAGCCUCC-AUGCGUCUACAUGAAGGCCAUUCGAUCCG
----.------.................((..((((((((((.(((--.((((.....)))).)))...))))((((.(-(((......)))).)))).))))))..)) ( -25.10)
>consensus
____U______UGAUCUUCAAAACCGUUCGAUUUGAAUGGAUCGUG__GCAGCACAGUGCUGGCCAUAAGUCAGC_CCC_AUGCGUCCACAUGAAGGCCAUUCGAUCCG
...............(((((.........((((......)))).....(((.......((((((.....))))))......))).......)))))............. ( -7.12 =  -8.69 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 3

Location 20,355,946 – 20,356,043
Length 97
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 71.21
Mean single sequence MFE -32.77
Consensus MFE -7.79
Energy contribution -8.85
Covariance contribution 1.06
Combinations/Pair 1.29
Mean z-score -2.55
Structure conservation index 0.24
SVM decision value 0.90
SVM RNA-class probability 0.878354
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20355946 97 - 22407834
CGGAUCGAAUGGCCUUCAUGUGGACGCAU-GGG-GCUGACUUAUGGCCAGCACAGUGCUGACCCACGAUCCAUUCAAACCGAACGGUUUUGAAGAUCA------A----
.((((((...(((((.(((((....))))-)))-))).......((.((((.....)))).))..)))))).((((((((....)).)))))).....------.---- ( -36.40)
>DroPse_CAF1 13336 80 - 1
CGGCUCGAAAGAGCCACAUA--CAUGCA-------CAGUCUUGUUAUUAACACUGUCCAAC--CUAAACAAGUACAAAUUG--CAGUUUGGU------------A----
.(((((....))))).....--..((.(-------((((.(((....))).))))).))((--(.((((..(((.....))--).)))))))------------.---- ( -22.70)
>DroSec_CAF1 12868 98 - 1
CGGAUCGAAUGGCCUUCAUGUGGACGCAU-GGGUGCUGAGUUAUGGCCAGCACUGUGCUGCCCCACGAUCCAUUCAAACCGAACGGUUUUGAAGAUCA------A----
..((((((((((...((.((.((..((((-((.(((((.((....)))))))))))))..)).)).)).))))))(((((....)))))....)))).------.---- ( -37.10)
>DroSim_CAF1 11916 99 - 1
CGGAUCGAAUGGCCUUCAUGUGGAUGCAUUGGGUGCUGACUUAUGGCCAGCACUGUGCUGCCCCACGAUCCAGUCAAACCGUACGGUUUUGAAGAUCA------A----
.((((((((.....)))..((((..((((..(((((((.(.....).)))))))))))....)))))))))..(((((((....)).)))))......------.---- ( -33.40)
>DroEre_CAF1 13463 105 - 1
CGGAUCGAAAGGCCUUCAUGUAGACGCAU-GGAGGCUGACUUAUGGCCAGCACUGUGCUGC--CAAGCACAAUUCA-AUCGAACGGCUUUUCGGCUUUUCAGUUUUUGC
..(((.(((.(((((((((((....))))-)))))))......((((.(((.....)))))--)).......))).-)))(((.((((....)))).)))......... ( -35.20)
>DroYak_CAF1 12860 96 - 1
CGGAUCGAAUGGCCUUCAUGUAGACGCAU-GGAGGCUGACUUAUUGCCAGCACUGUGCUGC--CAAGAUCAAUUCAAAUCGAACGGUUUUGAAAAUUA------A----
..((((....(((((((((((....))))-)))))))......(((.((((.....)))).--)))))))..((((((((....)).)))))).....------.---- ( -31.80)
>consensus
CGGAUCGAAUGGCCUUCAUGUGGACGCAU_GGG_GCUGACUUAUGGCCAGCACUGUGCUGC__CAAGAUCAAUUCAAACCGAACGGUUUUGAAGAUCA______A____
.((.((....))))...........((((.(...((((.........)))).).))))..............((((((((....))))).)))................ ( -7.79 =  -8.85 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:57 2006