Locus 7562

Sequence ID 3R_DroMel_CAF1
Location 20,267,410 – 20,267,545
Length 135
Max. P 0.944793
window12205 window12206

overview

Window 5

Location 20,267,410 – 20,267,521
Length 111
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.77
Mean single sequence MFE -15.77
Consensus MFE -12.98
Energy contribution -12.98
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.82
SVM decision value 0.91
SVM RNA-class probability 0.878969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20267410 111 + 27905053
AAACCACUUAUUCCCCCCCCCCCCUUGACUAU---CCUCUCGUUCGCUCCACGCUGCUUCUUCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
.......................(((((....---..........((........)).......(((((((.((((((...........)))))).)))))))..))))).... ( -15.70)
>DroPse_CAF1 84965 101 + 1
CCACCACU---GUAUC----CGACUCCACUCC---ACUGCCAUUCAUUCCAUGCUGCU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
........---.....----............---...............(((((...---...(((((((.((((((...........)))))).))))))).....))))). ( -14.30)
>DroSec_CAF1 76822 104 + 1
AAACGAGCCAUUCGUG----CCACUUGACUCC---CCUCCCGCUCGCUCCACGCUGCU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
..(((((...))))).----..((((((....---......((..((.....)).)).---...(((((((.((((((...........)))))).)))))))..))))))... ( -20.50)
>DroEre_CAF1 79398 100 + 1
ACACCACCCAU----G----ACUCUGGACUCC---CCGCUCGUUCCCUCCACGCUGCU---CCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
..........(----(----(...((((....---..((.(((.......)))..)))---)))(((((((.((((((...........)))))).)))))))..)))...... ( -15.10)
>DroAna_CAF1 79782 92 + 1
---------------U----CCACUUGACUCCUCCACUUCUGUUCAUUCCACGCUGCU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
---------------.----..((((((.......((....))...............---...(((((((.((((((...........)))))).)))))))..))))))... ( -14.70)
>DroPer_CAF1 83529 101 + 1
CCACCACU---GUAUC----CGACUCCACUCC---ACUGCCAUUCAUUCCAUGCUGCU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
........---.....----............---...............(((((...---...(((((((.((((((...........)))))).))))))).....))))). ( -14.30)
>consensus
ACACCACU______UC____CCACUUGACUCC___ACUCCCGUUCACUCCACGCUGCU___UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUU
......................................................((((......(((((((.((((((...........)))))).))))))).....)))).. (-12.98 = -12.98 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,267,447 – 20,267,545
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.28
Mean single sequence MFE -23.04
Consensus MFE -14.18
Energy contribution -14.10
Covariance contribution -0.08
Combinations/Pair 1.15
Mean z-score -2.48
Structure conservation index 0.62
SVM decision value 1.35
SVM RNA-class probability 0.944793
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20267447 98 + 27905053
CGUUCGCUCCACGCUG------CUUCUUCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACU----------GCGGCAACUACAUAUA------
............((((------(.......(((((((.((((((...........)))))).))))))).....((((......))))----------)))))...........------ ( -21.20)
>DroPse_CAF1 84995 103 + 1
CAUUCAUUCCAUGCUG------CU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACUGCCUGGCU--GUGGCAACUACUCCCA------
...........(((..------(.---...(((((((.((((((...........)))))).)))))))(((..((((......))))....))).--)..)))..........------ ( -22.30)
>DroWil_CAF1 85646 106 + 1
AA-----UCCAAUUCA------AU---CCAAAUGACAAGUUAAUCAUUUAUUUACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACCUCUUGGCUCAGCGGCAAUGGCAACUUUGUGUA
..-----.........------..---...(((((((.((((((...........)))))).)))))))((.((((.............))))))......((((.(....).))))... ( -18.72)
>DroYak_CAF1 80112 109 + 1
CGUUCACUCCACGCUGCUGCUGCU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACUGCCUGGCU--GCGGCAGCUACACACA------
............((((((((.(((---...(((((((.((((((...........)))))).))))))).....((((......))))....))).--))))))))........------ ( -32.00)
>DroAna_CAF1 79803 107 + 1
UGUUCAUUCCACGCUG------CU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACUGCCUGGAU--GAAGCAACUACAAAUAUACA--
(((((((.(((.((..------..---...(((((((.((((((...........)))))).))))))).....((((......)))))).)))))--).))))..............-- ( -22.50)
>DroPer_CAF1 83559 103 + 1
CAUUCAUUCCAUGCUG------CU---UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACUGCCUGCCU--GUGGCAACUACCCUCA------
...........(((..------(.---...(((((((.((((((...........)))))).)))))))((...((((......))))....))..--)..)))..........------ ( -21.50)
>consensus
CAUUCAUUCCACGCUG______CU___UCAAAUGACAAGUUAAUCAUUUAUUAACGUUGACAUGUCAUUGCUCAAGUAUUUAUUUACUGCCUGGCU__GCGGCAACUACACACA______
............(((...............(((((((.((((((...........)))))).))))))).....((((......))))............)))................. (-14.18 = -14.10 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:56 2006