Locus 6178

Sequence ID 2R_DroMel_CAF1
Location 19,443,288 – 19,443,408
Length 120
Max. P 0.980078
window9893 window9894

overview

Window 3

Location 19,443,288 – 19,443,408
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.00
Mean single sequence MFE -25.63
Consensus MFE -24.39
Energy contribution -24.42
Covariance contribution 0.03
Combinations/Pair 1.03
Mean z-score -1.42
Structure conservation index 0.95
SVM decision value 1.85
SVM RNA-class probability 0.980078
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19443288 120 + 20766785
GGAGAACGCUGCGCGAUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAACUACAUACACUCUCUAUUUUGGCCCGGGAAAAUACUUUUAGCACGCACAA
.......(((((.....((((((((.(((.((((((....)))))).)))((((((........))))))......))))))))((((((........))))))......))).)).... ( -25.60)
>DroGri_CAF1 14434 120 + 1
GGAGAACGCUGCUUGAUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAAUUAGAUACACUCUCUAUUUUGGCCUGGGAAAAUACUUUUAGCACGCACAA
.......((((((.((.(((((((((((..((((((....))))))...(((((((........)))))))))))..)))))))((((((........))))))..)).)))).)).... ( -26.30)
>DroSec_CAF1 7794 120 + 1
GGAGAACGCUGCGCGAUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAACUACAUACACUCUCCAUUUUGGCCCGGGAAAAUACUUUUAGCACGCACAA
.........((.(((..((((((((.(((.((((((....)))))).)))((((((........))))))......)))))))).......((..(((......)))...)).))).)). ( -24.50)
>DroWil_CAF1 6956 120 + 1
GGAGAACGCUGUCUGAUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAACUACAUACACUCUCUAUUUUAGCCCGGGAAAAUACUUUUAGCACGCACAA
.......((((.((((.((((((((.(((.((((((....)))))).)))((((((........))))))......))))))))((((((........))))))...)))))).)).... ( -24.50)
>DroMoj_CAF1 12802 120 + 1
GGAGAACGCUGCCUGAUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAACUAGAUACACUCUCUAUUUUGGCCUGGGAAAAUACUUUUAGCACGCAUCA
.......((.(((.(((((((((((.(((.((((((....)))))).)))((((((........))))))......)))))))).)))..)))((((((......))))))...)).... ( -27.30)
>DroAna_CAF1 7005 120 + 1
GGAGAACGCUGCUCGUUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAACUACAUACACUCUCUAUUUUGGCCCGGGAAAAUACUUUUAGCACGCACAA
.......((((((....((((((((.(((.((((((....)))))).)))((((((........))))))......))))))))((((((........)))))).....)))).)).... ( -25.60)
>consensus
GGAGAACGCUGCCCGAUGAGAGUGUCUAUUUGAAUUACAAAAUUCAUAUAUUUUGGCAAAAUUCCCAAAACUACAUACACUCUCUAUUUUGGCCCGGGAAAAUACUUUUAGCACGCACAA
.......(((((.....((((((((.(((.((((((....)))))).)))((((((........))))))......))))))))((((((........))))))......))).)).... (-24.39 = -24.42 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,443,288 – 19,443,408
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.00
Mean single sequence MFE -30.28
Consensus MFE -27.29
Energy contribution -27.18
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -1.82
Structure conservation index 0.90
SVM decision value 1.75
SVM RNA-class probability 0.975319
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19443288 120 - 20766785
UUGUGCGUGCUAAAAGUAUUUUCCCGGGCCAAAAUAGAGAGUGUAUGUAGUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAUCGCGCAGCGUUCUCC
(((((((.(((....(......)...))).......((((((((.(((.(((((((........)))))))...((((((....)))))).))).))))))))..)))))))........ ( -31.60)
>DroGri_CAF1 14434 120 - 1
UUGUGCGUGCUAAAAGUAUUUUCCCAGGCCAAAAUAGAGAGUGUAUCUAAUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAUCAAGCAGCGUUCUCC
....((.((((.....((((((........))))))(((((((..(((((((((((........)))))))...((((((....))))))..)))))))))))....))))))....... ( -29.40)
>DroSec_CAF1 7794 120 - 1
UUGUGCGUGCUAAAAGUAUUUUCCCGGGCCAAAAUGGAGAGUGUAUGUAGUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAUCGCGCAGCGUUCUCC
(((((((.(((....(......)...))).......((((((((.(((.(((((((........)))))))...((((((....)))))).))).))))))))..)))))))........ ( -31.40)
>DroWil_CAF1 6956 120 - 1
UUGUGCGUGCUAAAAGUAUUUUCCCGGGCUAAAAUAGAGAGUGUAUGUAGUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAUCAGACAGCGUUCUCC
..(.((((.((.....((((((........))))))((((((((.(((.(((((((........)))))))...((((((....)))))).))).))))))))...))...)))).)... ( -27.30)
>DroMoj_CAF1 12802 120 - 1
UGAUGCGUGCUAAAAGUAUUUUCCCAGGCCAAAAUAGAGAGUGUAUCUAGUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAUCAGGCAGCGUUCUCC
.(((((.((((.....((((((........))))))(((((((..(((((((((((........)))))))...((((((....))))))..)))))))))))....))))))))).... ( -31.90)
>DroAna_CAF1 7005 120 - 1
UUGUGCGUGCUAAAAGUAUUUUCCCGGGCCAAAAUAGAGAGUGUAUGUAGUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAACGAGCAGCGUUCUCC
....((.((((.....((((((........))))))((((((((.(((.(((((((........)))))))...((((((....)))))).))).))))))))....))))))....... ( -30.10)
>consensus
UUGUGCGUGCUAAAAGUAUUUUCCCGGGCCAAAAUAGAGAGUGUAUGUAGUUUUGGGAAUUUUGCCAAAAUAUAUGAAUUUUGUAAUUCAAAUAGACACUCUCAUCAAGCAGCGUUCUCC
...(((.(((......((((((........))))))((((((((.....(((((((........)))))))...((((((....)))))).....)))))))).....))))))...... (-27.29 = -27.18 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:45 2006