Locus 3333

Sequence ID 3L_DroMel_CAF1
Location 9,780,464 – 9,780,594
Length 130
Max. P 0.960480
window5177 window5178

overview

Window 7

Location 9,780,464 – 9,780,557
Length 93
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 76.67
Mean single sequence MFE -30.61
Consensus MFE -19.97
Energy contribution -20.22
Covariance contribution 0.25
Combinations/Pair 1.15
Mean z-score -1.26
Structure conservation index 0.65
SVM decision value 0.22
SVM RNA-class probability 0.639950
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9780464 93 - 23771897
ACGCUCAUAGUUUGCCCCCC-----A-------------AAUCCAUUUGCAUUUACCUGGUGAACCAGGAGAGGUCGGUGCCCGUGAAUCGCUCGGCGAAAUUGUGCAGUG
.(((((((((((((((....-----.-------------................(((((....))))).(((..((((........)))))))))).)))))))).)))) ( -29.80)
>DroSec_CAF1 75142 91 - 1
ACGCUCAUAGUUCGCCCCC--------------------AAACCAUUUGCAUUUACCUGGUGAACCAGGAGAGGUCGGUGCCCGUGAAUCGCUCGGCGAAAUUGUGCAGCG
.(((((((((((((((...--------------------................(((((....))))).(((..((((........))))))))))).))))))).)))) ( -33.50)
>DroSim_CAF1 77273 91 - 1
ACGCUCAUAGUUCGCCCCC--------------------AAACCAUUUGCAUUUACCUGGUGAACCAGGAUAGGUCGGUGCCCGUGAAUCGCUCGGCGAAAUUGUGCAGUG
.(((((((((((((((...--------------------................(((((....)))))...(..((((........))))..))))).))))))).)))) ( -30.40)
>DroEre_CAF1 77179 80 - 1
ACGCCUAUA------------------------------CAUCCACUUGCAU-UACCUGGUGAACCAGGAGAGGUCGGUGCCCGUGAAGCGCUCGGCGAAAUUGUGCAGUG
.........------------------------------....((((.((((-..(((((....)))))....((((((((.......)))).))))......)))))))) ( -27.30)
>DroYak_CAF1 86814 111 - 1
ACGCUGAUAUUUCACCACCCCUCCGAAAAGCAUUUUCACCAACUAUUUGCAUUUACCUGGUGAACCAGGAGAGGUCGGUGCCCGUGAAGCGUUCGGCGAAAUUGUGCAGUG
.((((((..((((((((((((((......(((...............))).....(((((....))))).))))..))))...))))))...))))))............. ( -36.06)
>DroAna_CAF1 80806 79 - 1
UCGCUUAC-------CCG-----------------------CUUACUC--GCUUACCUGGUGAACCAGGAGGGGUCGGUGCCCGUAAAACGCUCGGCGAAAUUGUGCAGCG
.((((.((-------(((-----------------------(......--))...(((((....)))))..)))).)))).........((((..(((......))))))) ( -26.60)
>consensus
ACGCUCAUAGUUCGCCCCC____________________AAACCAUUUGCAUUUACCUGGUGAACCAGGAGAGGUCGGUGCCCGUGAAUCGCUCGGCGAAAUUGUGCAGUG
..............................................((((((...(((((....))))).((..(((.((..((.....))..)).)))..)))))))).. (-19.97 = -20.22 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 9,780,504 – 9,780,594
Length 90
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 73.49
Mean single sequence MFE -21.28
Consensus MFE -15.95
Energy contribution -16.53
Covariance contribution 0.58
Combinations/Pair 1.18
Mean z-score -1.45
Structure conservation index 0.75
SVM decision value 1.51
SVM RNA-class probability 0.960480
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9780504 90 - 23771897
CUGUGAGCUCCAAGGAUUACCGGUCA-AAUCAAUCAACACGCUCAUAGUUUGCCCCCC-----A-------------AAUCCAUUUGCAUUUACCUGGUGAACCAGGAG
((((((((.....((....))(((..-.....))).....))))))))..........-----.-------------................(((((....))))).. ( -22.10)
>DroSec_CAF1 75182 88 - 1
CUGUGAGCUCCAAGGAUUACCGGUCA-AAUCAAUCAACACGCUCAUAGUUCGCCCCC--------------------AAACCAUUUGCAUUUACCUGGUGAACCAGGAG
((((((((.....((....))(((..-.....))).....)))))))).........--------------------................(((((....))))).. ( -22.10)
>DroSim_CAF1 77313 88 - 1
CUGUGAGCUCCAAGGAUUACCGGUCA-AAUCAAUCAACACGCUCAUAGUUCGCCCCC--------------------AAACCAUUUGCAUUUACCUGGUGAACCAGGAU
((((((((.....((....))(((..-.....))).....)))))))).........--------------------................(((((....))))).. ( -22.10)
>DroEre_CAF1 77219 77 - 1
CUGUGAGCUCCAAGGAUUACCGGCCA-ACUCAAUCAACACGCCUAUA------------------------------CAUCCACUUGCAU-UACCUGGUGAACCAGGAG
.((..((......((((((..(((..-.............)))..))------------------------------.)))).))..)).-..(((((....))))).. ( -17.86)
>DroYak_CAF1 86854 108 - 1
CUGUGAGCUCCAAGGAUUACCGGUCA-AAUCAAUCAACACGCUGAUAUUUCACCACCCCUCCGAAAAGCAUUUUCACCAACUAUUUGCAUUUACCUGGUGAACCAGGAG
..(((((((....(((.....(((.(-(((..((((......)))))))).))).....)))....)))....))))................(((((....))))).. ( -23.30)
>DroAna_CAF1 80846 77 - 1
CUCGGGGCUCAAAGGAUUUUCGGUGGCAAUCAUGAAACUCGCUUAC-------CCG-----------------------CUUACUC--GCUUACCUGGUGAACCAGGAG
..((((.....(((((.(((((.((.....))))))).)).))).)-------)))-----------------------.......--.....(((((....))))).. ( -20.20)
>consensus
CUGUGAGCUCCAAGGAUUACCGGUCA_AAUCAAUCAACACGCUCAUAGUUCGCCCCC____________________AAACCAUUUGCAUUUACCUGGUGAACCAGGAG
.(((((((.....((....))(((....))).........)))))))..............................................(((((....))))).. (-15.95 = -16.53 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:01 2006