Locus 2273

Sequence ID 3L_DroMel_CAF1
Location 6,347,552 – 6,347,666
Length 114
Max. P 0.996975
window3511 window3512

overview

Window 1

Location 6,347,552 – 6,347,646
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 79.76
Mean single sequence MFE -26.68
Consensus MFE -17.81
Energy contribution -20.00
Covariance contribution 2.19
Combinations/Pair 1.16
Mean z-score -1.33
Structure conservation index 0.67
SVM decision value 0.12
SVM RNA-class probability 0.593046
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6347552 94 - 23771897
CCAAUCCCCCAUCGGAUACUCAGUUCUGGCCAGGCCCAGAACUCAGGCUAGGCCAGCCAAACGGGCGGCGACAGCUCGACCAAGCUCACCGAAU
...........((((.......(((((((((.((((.........)))).))))))...)))(((((((((....))).))..)))).)))).. ( -32.00)
>DroSec_CAF1 112277 76 - 1
CCAAUCCCCCAUGGGAUACUCAGUUCUGGCC------------------AGGCCAGCCAAACGGGCGGCGACAGCUCGACCAAGCUCACCGAAU
((.(((((....))))).....((((((((.------------------..)))))...))))).(((.((..(((......))))).)))... ( -21.10)
>DroSim_CAF1 118240 86 - 1
CCAAUCCCCCAUCGGAUACUCAGUUCUGGCCAGGCCC--------GGCCAGGCCAGCCAAACGGGCGGCGACAGCUCGACCAAGCUCACCGAAU
...........((((.......(((((((((......--------))))))(((.(((.....)))))))))((((......))))..)))).. ( -29.90)
>DroEre_CAF1 115407 81 - 1
CCAAUCCCCCAUCGGAUAGCCAGUUCUGGC-----CU--------GGCCAGGCCAGCCAAACGGGCGGCGACAGUCCGACCAAGCUCGCCGAAU
...........((((..(((.....(((((-----((--------....))))))).....((((((....).))))).....)))..)))).. ( -29.80)
>DroYak_CAF1 123071 83 - 1
CCAUUCCCCCAUUGGAUACCCAGUUCUGACCAGCUCU--------GGCCAGCCCAGCCAAACGGGCGGCGACAGCCCGACCAAGCUCACCG---
..........(((((....))))).......((((.(--------((.(.((((........))))(((....))).).))))))).....--- ( -22.40)
>DroAna_CAF1 112997 87 - 1
CCAAUUCCCCGUCCUAUUCCCAGUUCUGGCCUGGCCCAU------GGUCAUGCCAGCCAAACGGGCGGCGACAAG-CGGCCAAACUCACAAAAU
.....................((((.((((((((((...------)))))((((.(((.....))))))).....-.)))))))))........ ( -24.90)
>consensus
CCAAUCCCCCAUCGGAUACCCAGUUCUGGCCAGGCCC________GGCCAGGCCAGCCAAACGGGCGGCGACAGCUCGACCAAGCUCACCGAAU
...........((((.......(((((((((.((((.........)))).))))))...)))((((((((......)).))..)))).)))).. (-17.81 = -20.00 +   2.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,347,573 – 6,347,666
Length 93
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 73.22
Mean single sequence MFE -26.32
Consensus MFE -15.04
Energy contribution -16.40
Covariance contribution 1.36
Combinations/Pair 1.25
Mean z-score -2.48
Structure conservation index 0.57
SVM decision value 2.78
SVM RNA-class probability 0.996975
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6347573 93 - 23771897
-----------UCCCAUUCCCAUUCCCUAGCCCAAUCCCCCAUCGGAUACUCAGUUCUGGCCAGGCCCAGAACUCAGGCUAGGCCAGCCAAACGGGCGGCGACA
-----------......((((....(((((((..((((......))))....((((((((......))))))))..)))))))...(((.....))))).)).. ( -32.90)
>DroSim_CAF1 118261 79 - 1
-----------UCC------CAUUCCCUAGCCCAAUCCCCCAUCGGAUACUCAGUUCUGGCCAGGCCC--------GGCCAGGCCAGCCAAACGGGCGGCGACA
-----------...------...((((..((((.((((......)))).....(((((((((.(((..--------.))).))))))...))))))))).)).. ( -28.20)
>DroEre_CAF1 115428 80 - 1
-----------UCCCAUUCCCAUUCCCUAACCCAAUCCCCCAUCGGAUAGCCAGUUCUGGC-----CU--------GGCCAGGCCAGCCAAACGGGCGGCGACA
-----------......((((.............((((......)))).(((.((((((((-----((--------....)))))))...))).))))).)).. ( -25.10)
>DroYak_CAF1 123089 96 - 1
CCCAUACCCAUUCCCAUUGCCAUUCCCUAACCCAUUCCCCCAUUGGAUACCCAGUUCUGACCAGCUCU--------GGCCAGCCCAGCCAAACGGGCGGCGACA
................(((((......................(((....((((..((....))..))--------)))))((((........))))))))).. ( -22.10)
>DroAna_CAF1 113017 74 - 1
-----------UCC------CACU-------CCAAUUCCCCGUCCUAUUCCCAGUUCUGGCCUGGCCCAU------GGUCAUGCCAGCCAAACGGGCGGCGACA
-----------...------....-------.....((.((((((........((((((((.(((((...------))))).)))))...))))))))).)).. ( -23.30)
>consensus
___________UCCCAUU_CCAUUCCCUAACCCAAUCCCCCAUCGGAUACCCAGUUCUGGCCAGGCCC________GGCCAGGCCAGCCAAACGGGCGGCGACA
....................................(((((...((....)).(((((((((.((((.........)))).))))))...)))))).))..... (-15.04 = -16.40 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:21 2006