Locus 2206

Sequence ID 3L_DroMel_CAF1
Location 6,087,591 – 6,087,688
Length 97
Max. P 0.895216
window3414 window3415

overview

Window 4

Location 6,087,591 – 6,087,688
Length 97
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 87.80
Mean single sequence MFE -23.85
Consensus MFE -17.92
Energy contribution -18.55
Covariance contribution 0.63
Combinations/Pair 1.04
Mean z-score -2.24
Structure conservation index 0.75
SVM decision value 0.99
SVM RNA-class probability 0.895216
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6087591 97 + 23771897
GCUGC-UUUUUUAAGCACAAUAAGUGACAACGAAAACAACAGCGGGCGGUGCAAGAACCACCCAGAAAAUCCACUUUCCUCUACAGAGCGAAAAAAAU
((((.-(((((....(((.....))).....)))))...))))(((.(((......))).)))...........(((((((....))).))))..... ( -22.80)
>DroSim_CAF1 37344 96 + 1
GCUGC-UUUUUUAAGCACAAUAAGUGACAACGAAAACAACAGCGGGCGGUGCAAGAACCACCCAGAAAAUCCACUUUCCUCUACAGAGCGAAA-AAAU
((((.-(((((....(((.....))).....)))))...))))(((.(((......))).)))...........(((((((....))).))))-.... ( -22.80)
>DroEre_CAF1 37583 96 + 1
GCUGCCUUUUUUAAGCACAAUAAGUGACAACGAAAACAACAGCGGGCGGUGCAAGAACCACCCAGAAAAUCUAGUGUCCUCUACAGAGCGAGA--AAU
((((..(((((....(((.....))).....)))))...))))(((.(((......))).)))...........(.(((((....))).)).)--... ( -21.90)
>DroAna_CAF1 40809 94 + 1
GCUGC-UUUUUU-AGCACAAUAACUGACAACGAAAACAACAGCGGGCGGUGCAAGCACCACCCAAC-GGUGUCCUGUAGUGUACACCGUGAAA-AAAU
(((((-(.....-))).((.....))..............)))(((.((((....)))).))).((-(((((.(......).)))))))....-.... ( -27.90)
>consensus
GCUGC_UUUUUUAAGCACAAUAAGUGACAACGAAAACAACAGCGGGCGGUGCAAGAACCACCCAGAAAAUCCACUGUCCUCUACAGAGCGAAA_AAAU
((((..(((((....(((.....))).....)))))...))))(((.(((......))).))).............(((((....))).))....... (-17.92 = -18.55 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 6,087,591 – 6,087,688
Length 97
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 87.80
Mean single sequence MFE -28.62
Consensus MFE -20.27
Energy contribution -20.65
Covariance contribution 0.38
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.71
SVM decision value 0.45
SVM RNA-class probability 0.739485
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6087591 97 - 23771897
AUUUUUUUCGCUCUGUAGAGGAAAGUGGAUUUUCUGGGUGGUUCUUGCACCGCCCGCUGUUGUUUUCGUUGUCACUUAUUGUGCUUAAAAAA-GCAGC
(((((((((........))))))))).........(((((((......)))))))((((((.((((....(.(((.....))))..)))).)-))))) ( -27.10)
>DroSim_CAF1 37344 96 - 1
AUUU-UUUCGCUCUGUAGAGGAAAGUGGAUUUUCUGGGUGGUUCUUGCACCGCCCGCUGUUGUUUUCGUUGUCACUUAUUGUGCUUAAAAAA-GCAGC
...(-((((.(((....))))))))..........(((((((......)))))))((((((.((((....(.(((.....))))..)))).)-))))) ( -26.90)
>DroEre_CAF1 37583 96 - 1
AUU--UCUCGCUCUGUAGAGGACACUAGAUUUUCUGGGUGGUUCUUGCACCGCCCGCUGUUGUUUUCGUUGUCACUUAUUGUGCUUAAAAAAGGCAGC
..(--((((........))))).............(((((((......)))))))(((((..((((....(.(((.....))))...))))..))))) ( -26.70)
>DroAna_CAF1 40809 94 - 1
AUUU-UUUCACGGUGUACACUACAGGACACC-GUUGGGUGGUGCUUGCACCGCCCGCUGUUGUUUUCGUUGUCAGUUAUUGUGCU-AAAAAA-GCAGC
....-....(((((((.(......).)))))-)).((((((((....))))))))((((((.((((.((...(((...))).)).-)))).)-))))) ( -33.80)
>consensus
AUUU_UUUCGCUCUGUAGAGGAAAGUAGAUUUUCUGGGUGGUUCUUGCACCGCCCGCUGUUGUUUUCGUUGUCACUUAUUGUGCUUAAAAAA_GCAGC
..........(((....)))...............(((((((......)))))))(((((..((((....(.(((.....))))..))))...))))) (-20.27 = -20.65 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:46 2006