Locus 3532

Sequence ID 2R_DroMel_CAF1
Location 11,818,741 – 11,818,869
Length 128
Max. P 0.999502
window5749 window5750

overview

Window 9

Location 11,818,741 – 11,818,834
Length 93
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.80
Mean single sequence MFE -27.75
Consensus MFE -20.69
Energy contribution -21.13
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.95
Structure conservation index 0.75
SVM decision value 0.43
SVM RNA-class probability 0.734188
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11818741 93 + 20766785
UUGGGCCGGCAUUAUGGAUGCAGGCUGCUCAUUAGGCUGACGUUGGGCAGGCCAUAAAUCCAAAAGCGAA-AACCGCCCACAACCGAAUCC------AAA
(((((.(((.....(((((...(((((((((...(.....)..)))))).)))....)))))...(((..-...)))......)))..)))------)). ( -28.70)
>DroPse_CAF1 8301 76 + 1
UUGGGCCGGUAUUAUGGAUGCAGGCAACUCAUUAAACUGACGCUGGGCAGGCCAUAAAUCC--------------GCCCACC--CG--UCC------AUA
.(((((.((..((((((.(((.(((...(((......))).)))..)))..))))))..))--------------)))))..--..--...------... ( -25.40)
>DroSec_CAF1 9243 100 + 1
UUGGGCCGGCAUUAUGGAUGCAGGCUGCUCAUUAGGCUGACGUUGGGCAGGCCAUAAAUCCAAAACCGAACAACCGCCCACAACCGAAUCCAAAUCCAAA
.((((((((.....(((((...(((((((((...(.....)..)))))).)))....)))))...))).......))))).................... ( -27.81)
>DroEre_CAF1 9083 93 + 1
UUGGGCCGGCAUUAUGGAUGCAGGCUGCUCAUUAGGCUGACGUUGGGCAGCCCAUAAAUCCAAAACCGAA-AACCGCCCACAACCGAAUCC------AAA
.((((((((.....(((((...(((((((((...(.....)..))))))))).....)))))...)))..-....)))))...........------... ( -31.20)
>DroYak_CAF1 9165 93 + 1
UUGGGCCGGCAUUAUGGAUGCAGGCUGCUCAUUAGGCUGACGUUGGGCAGGCCAUAAAUCCAAAACCGAA-AACCGCCCACAACCGAAUCC------AAA
.((((((((.....(((((...(((((((((...(.....)..)))))).)))....)))))...)))..-....)))))...........------... ( -28.00)
>DroPer_CAF1 9086 76 + 1
UUGGGCCGGUAUUAUGGAUGCAGGCAACUCAUUAAACUGACGCUGGGCAGGCCAUAAAUCC--------------GCCCACC--CG--UCC------AUA
.(((((.((..((((((.(((.(((...(((......))).)))..)))..))))))..))--------------)))))..--..--...------... ( -25.40)
>consensus
UUGGGCCGGCAUUAUGGAUGCAGGCUGCUCAUUAGGCUGACGUUGGGCAGGCCAUAAAUCCAAAACCGAA_AACCGCCCACAACCGAAUCC______AAA
.(((((..(((((...))))).(((((((((............))))))).))......................))))).................... (-20.69 = -21.13 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,818,778 – 11,818,869
Length 91
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 71.96
Mean single sequence MFE -8.28
Consensus MFE -7.97
Energy contribution -7.97
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.12
Structure conservation index 0.96
SVM decision value 3.66
SVM RNA-class probability 0.999502
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11818778 91 + 20766785
UGACGUUGGGCAGGCCAUAAAUCCAAAAGCGAAAACCGCCCACAACCGAAUCCAAAACCACAUCCAUAUCCAUAU--CCAAAUCCAAAUCCCA
....((.((((.((.....................))))))))................................--................ (  -8.20)
>DroWil_CAF1 14396 73 + 1
UGACGCUGGGCAGGCCAUAAAUCCAUU-----CAACCGCCCAC---CCAUUACAA------AUUC------AAAAAGAAAAAACCAAUUCCCA
......((((..(((............-----.....)))..)---)))......------....------...................... (  -8.43)
>DroYak_CAF1 9202 85 + 1
UGACGUUGGGCAGGCCAUAAAUCCAAAACCGAAAACCGCCCACAACCGAAUCCAAAUCCACAUCC------AUAU--CCAUAUCCAAAUCCCA
....((.((((.((.....................))))))))......................------....--................ (  -8.20)
>consensus
UGACGUUGGGCAGGCCAUAAAUCCAAAA_CGAAAACCGCCCACAACCGAAUCCAAA_CCACAUCC______AUAU__CCAAAUCCAAAUCCCA
......(((((.((.....................)))))))................................................... ( -7.97 =  -7.97 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:47 2006