Locus 317

Sequence ID 2R_DroMel_CAF1
Location 2,087,141 – 2,087,238
Length 97
Max. P 0.777359
window642 window643

overview

Window 2

Location 2,087,141 – 2,087,238
Length 97
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 80.35
Mean single sequence MFE -32.42
Consensus MFE -21.11
Energy contribution -22.70
Covariance contribution 1.59
Combinations/Pair 1.11
Mean z-score -1.82
Structure conservation index 0.65
SVM decision value 0.55
SVM RNA-class probability 0.777359
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2087141 97 + 20766785
GCAAGUGUGAGUACGAGUGCGAUAGGGUAGCA--CUACCCAGCAGGGUGUGUUCCACUCUUG-------------------AACUGAAAAAAUAUCCUGCAUGAAAAUGUUCUCACGC
....(((((((.(((.........(((((...--.))))).(((((((((.(((........-------------------....)))...))))))))).......))).))))))) ( -32.60)
>DroSim_CAF1 74214 97 + 1
GCAAGUGUGCGUGCGAGUGCGAUAGGGUAGCA--CUACCCAGCAGGGUGUGUUCCACUCUUG-------------------AACUGAAAAAAUAUCCUGCAUGAAAAUGUUCUCACGC
(((....)))(((.(((.(((...(((((...--.))))).(((((((((.(((........-------------------....)))...))))))))).......))).))).))) ( -31.00)
>DroEre_CAF1 69684 97 + 1
GCGAGUGUGAGUGCGAGUGCGAUAGGGUAGCA--CUACCCAGCAGGGUGUGUUCCACUCUUG-------------------AACGGAAAAAAUAUCCUGCAUGAAAAUGUUCUCACGC
....(((((((.(((.........(((((...--.))))).(((((((((.((((.......-------------------...))))...))))))))).......))).))))))) ( -37.10)
>DroYak_CAF1 73710 97 + 1
GAUUAUUCGAGUGUGAGUGCAAUAGGGUAGCA--CUACCCAGCAGGGUGUGUUCCAUUCUUG-------------------AACUGAAAAAAUAUCCUGCAUGAAAAUGUUCUCACGG
...........((((((.(((...(((((...--.))))).(((((((((.(((..((....-------------------))..)))...))))))))).......))).)))))). ( -32.00)
>DroMoj_CAF1 122036 105 + 1
GUGCGUGCUUGUGUUGGUCUGAUAGGGUAGCAGACUUCCCACCAGGGUGUGUUCAACUCUUGAUGAGC-------------AGCCGCUAAAAUAUCCUGCAUGAAAAUGUUCUCACGC
..(((((((.(((..((((((.........))))))...))).))(((.((((((.(....).)))))-------------)))).............((((....))))...))))) ( -28.00)
>DroAna_CAF1 73906 113 + 1
GUGAGUG----UGUCAGUGCGAUGGGGUAGCA-ACUUCCCACCAGGGUGUGUUCCACACUUGAUGAGCAGCCACCGCAGCGAACUGAAAAAAUAUCCUGCAUGAAAAUGUUCUCACGC
(((((..----..(((((.((.((.(((.((.-.(((..((....((((((...))))))))..)))..)).))).)).)).)))))...........((((....)))).))))).. ( -33.80)
>consensus
GCGAGUGUGAGUGCGAGUGCGAUAGGGUAGCA__CUACCCAGCAGGGUGUGUUCCACUCUUG___________________AACUGAAAAAAUAUCCUGCAUGAAAAUGUUCUCACGC
..........(((.(((.(((...((((((....)))))).(((((((((.(((...............................)))...))))))))).......))).))).))) (-21.11 = -22.70 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,087,141 – 2,087,238
Length 97
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 80.35
Mean single sequence MFE -30.02
Consensus MFE -18.02
Energy contribution -18.88
Covariance contribution 0.86
Combinations/Pair 1.04
Mean z-score -1.86
Structure conservation index 0.60
SVM decision value 0.32
SVM RNA-class probability 0.688460
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2087141 97 - 20766785
GCGUGAGAACAUUUUCAUGCAGGAUAUUUUUUCAGUU-------------------CAAGAGUGGAACACACCCUGCUGGGUAG--UGCUACCCUAUCGCACUCGUACUCACACUUGC
((((((((....)))))))).(((......)))....-------------------((((.((((.((..((((....))))((--(((.........))))).)).).))).)))). ( -27.20)
>DroSim_CAF1 74214 97 - 1
GCGUGAGAACAUUUUCAUGCAGGAUAUUUUUUCAGUU-------------------CAAGAGUGGAACACACCCUGCUGGGUAG--UGCUACCCUAUCGCACUCGCACGCACACUUGC
(((((.((..........(((((......(((((.((-------------------...)).))))).....))))).(((((.--...)))))........)).)))))........ ( -26.60)
>DroEre_CAF1 69684 97 - 1
GCGUGAGAACAUUUUCAUGCAGGAUAUUUUUUCCGUU-------------------CAAGAGUGGAACACACCCUGCUGGGUAG--UGCUACCCUAUCGCACUCGCACUCACACUCGC
((((((((....)))))))).(((.......)))...-------------------...(((((((....((((....))))((--(((.........))))).....)).))))).. ( -30.50)
>DroYak_CAF1 73710 97 - 1
CCGUGAGAACAUUUUCAUGCAGGAUAUUUUUUCAGUU-------------------CAAGAAUGGAACACACCCUGCUGGGUAG--UGCUACCCUAUUGCACUCACACUCGAAUAAUC
..(((((...........(((((......(((((...-------------------......))))).....))))).(((((.--...))))).......)))))............ ( -23.50)
>DroMoj_CAF1 122036 105 - 1
GCGUGAGAACAUUUUCAUGCAGGAUAUUUUAGCGGCU-------------GCUCAUCAAGAGUUGAACACACCCUGGUGGGAAGUCUGCUACCCUAUCAGACCAACACAAGCACGCAC
((((((((....))))))))...........((((((-------------((((.....))))..........((((((((.((....)).))).))))).........))).))).. ( -31.30)
>DroAna_CAF1 73906 113 - 1
GCGUGAGAACAUUUUCAUGCAGGAUAUUUUUUCAGUUCGCUGCGGUGGCUGCUCAUCAAGUGUGGAACACACCCUGGUGGGAAGU-UGCUACCCCAUCGCACUGACA----CACUCAC
((((((((....))))))))...........(((((.((.((.((((((..(((((((.(((((...)))))..)))))))....-.)))))).)).)).)))))..----....... ( -41.00)
>consensus
GCGUGAGAACAUUUUCAUGCAGGAUAUUUUUUCAGUU___________________CAAGAGUGGAACACACCCUGCUGGGUAG__UGCUACCCUAUCGCACUCACACUCACACUCGC
((((((((....))))))))..((((................................((.(((.....))).))...((((((....)))))))))).................... (-18.02 = -18.88 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:17 2006