Locus 2194

Sequence ID 2R_DroMel_CAF1
Location 8,108,313 – 8,108,446
Length 133
Max. P 0.902446
window3621 window3622

overview

Window 1

Location 8,108,313 – 8,108,425
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.47
Mean single sequence MFE -22.05
Consensus MFE -11.66
Energy contribution -12.58
Covariance contribution 0.92
Combinations/Pair 1.22
Mean z-score -1.85
Structure conservation index 0.53
SVM decision value 1.02
SVM RNA-class probability 0.902446
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8108313 112 - 20766785
CAAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUC--UCUCUCCGCCCCCUCC--CCAUUAGCUCU---ACAAGCAGCUGAAAGUUGUAGCCGCACUACAUUCA
..((((((.((((((((((((.-.....).)))))).))))).........--................--......((.((---((((.(........)))))))..))..)))))).. ( -21.90)
>DroPse_CAF1 24460 106 - 1
CAAAUGU--GAAGAAGCAGCAAGCUCACGCGCUUCUUUUCCCCU-ACCCUA----------CCUCCUGC-CAGCCUACCCUCAGGGCCAUCAGCUGAAAGUAAUAGUUGAUAAAAGCUGU
.......--((((((((.((........))))))))))......-......----------........-((((...(((...)))..((((((((.......))))))))....)))). ( -23.70)
>DroSec_CAF1 23342 115 - 1
CAAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUCUCUCUCUCCACCCCCUCC-CCCAUUAUCUCC---UCAAGGAGCUGAAAGUUGUAGCCGCACUACAUUCA
.........((((((((((((.-.....).)))))).)))))...........................-....(((.((((---....)))).)))....(((((.....))))).... ( -21.80)
>DroEre_CAF1 23555 112 - 1
CGAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUC----UCUCCAACCCCUCCCCCUAUUAGCUCC---ACAAGCAGCUGAAAGUUGUAGCCGCAAUACAUUAA
..((((((.((((((((((((.-.....).)))))).))))).........----................((.((((((.(---....).)))))).))((((....)))))))))).. ( -22.90)
>DroYak_CAF1 23484 112 - 1
CAAAUGUAAGAAGAAGUGGCCA-CUCACGCGCUACUCUCUUCCUUUUUCUC----UCUCCACCCCCUUCCCCUAUUAGCUCC---ACAAGCAGCUGAAAGUUGUAGCCGCAAUACAUUCA
..((((((.((((((((((((.-.....).)))))).))))).........----................((.((((((.(---....).)))))).))((((....)))))))))).. ( -21.90)
>DroPer_CAF1 24473 106 - 1
CAAAUGU--GAAGAAGCAGCAAGCUCACGCGCUUCUUUUCCCCU-ACCCUA----------CCUCCUGC-CAUCCUACCCUCAGGGCCAUCAGCUGAAUGUAAUAGUUGAUAAAAGCUGU
.......--((((((((.((........))))))))))......-......----------......((-..((((......))))..((((((((.......))))))))....))... ( -20.10)
>consensus
CAAAUGUAAGAAGAAGUAGCCA_CUCACGCGCUACUCUCUUCCUUUCUCUC____UCUCCACCCCCUCC_CCUAUUAGCUCC___ACAAGCAGCUGAAAGUUGUAGCCGCAAUACAUUCA
..((((((.(((((((((((..........)))))).)))))...............................................((.((((.......)))).))..)))))).. (-11.66 = -12.58 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,108,350 – 8,108,446
Length 96
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.48
Mean single sequence MFE -19.02
Consensus MFE -14.47
Energy contribution -14.67
Covariance contribution 0.20
Combinations/Pair 1.22
Mean z-score -2.10
Structure conservation index 0.76
SVM decision value 0.86
SVM RNA-class probability 0.869017
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8108350 96 - 20766785
AAUGUUUGCAUGUGU----UUGUUGCAAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUC--UCUCUCCGCCCCCUCC--CCAUUAGCU
.(((((((((.....----....)))))))))..((((((((((((.-.....).)))))).))))).........--................--......... ( -19.70)
>DroSec_CAF1 23379 99 - 1
AAUGUUUGCAUGUGU----UUGUUGCAAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUCUCUCUCUCCACCCCCUCC-CCCAUUAUCU
.(((((((((.....----....)))))))))..((((((((((((.-.....).)))))).)))))...........................-.......... ( -19.70)
>DroSim_CAF1 26297 99 - 1
AGUGUUUGCAUGUGU----UUGUUGCAAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUCUCUCUCUCCACCCCCUCC-CCCAUUAUCU
.(((.((((((.(((----.....))).))))))((((((((((((.-.....).)))))).))))).................))).......-.......... ( -20.40)
>DroEre_CAF1 23592 96 - 1
AGUGUUUGCAUGUGU----UUGUUGCGAAUGUAAGAAGAAGUAGCCA-CUCACGCGCUACUCUCUUCCUUUCUCUC----UCUCCAACCCCUCCCCCUAUUAGCU
.(..((((((.....----....))))))..)..((((((((((((.-.....).)))))).))))).........----......................... ( -19.00)
>DroYak_CAF1 23521 96 - 1
AGUGUUUGCAUGUGU----CUGUUGCAAAUGUAAGAAGAAGUGGCCA-CUCACGCGCUACUCUCUUCCUUUUUCUC----UCUCCACCCCCUUCCCCUAUUAGCU
.(((.((((((.(((----.....))).))))))((((((((((((.-.....).)))))).))))).........----....))).................. ( -19.30)
>DroPer_CAF1 24513 91 - 1
UGUACAUGCAUGUGUAUCUUUGUUGCAAAUGU--GAAGAAGCAGCAAGCUCACGCGCUUCUUUUCCCCU-ACCCUA----------CCUCCUGC-CAUCCUACCC
.......((((.((((.......)))).))))--((((((((.((........))))))))))......-......----------........-.......... ( -16.00)
>consensus
AGUGUUUGCAUGUGU____UUGUUGCAAAUGUAAGAAGAAGUAGCCA_CUCACGCGCUACUCUCUUCCUUUCUCUC____UCUCCACCCCCUCC_CCCAUUAGCU
.(..((((((.............))))))..)..(((((((((((..........)))))).)))))...................................... (-14.47 = -14.67 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:34 2006