Locus 934

Sequence ID 2L_DroMel_CAF1
Location 2,685,962 – 2,686,130
Length 168
Max. P 0.938335
window1504 window1505

overview

Window 4

Location 2,685,962 – 2,686,062
Length 100
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 76.87
Mean single sequence MFE -27.60
Consensus MFE -13.35
Energy contribution -13.72
Covariance contribution 0.36
Combinations/Pair 1.15
Mean z-score -2.02
Structure conservation index 0.48
SVM decision value 0.41
SVM RNA-class probability 0.725582
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2685962 100 + 22407834
UUUUUUUCAUCCU--GC---CCUUCCAUGGGCUUCCUGGCCUGUGGAGCCGCGUGUCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
........((((.--((---..(((((((((((....)))))))))))..))((((((.((.....)).)))))).................))))......... ( -30.60)
>DroVir_CAF1 160587 91 + 1
CUUUUGCCACCAUUC-------UUCGUUGGGGG-------AGUCCGUGCCGCGUGCCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
...............-------...(((((..(-------((((((.((.(.((((((.((.....)).)))))).)))............)))))))..))))) ( -25.42)
>DroPse_CAF1 132835 93 + 1
UUUGUUUCGUCCU--GGGGGCGGUCCUUGAGC----------CUUGAGCCGCGUGUCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
.......(((((.--..)))))(((((((((.----------..(((((.(.((((((.((.....)).)))))).))))))..)))))...))))......... ( -27.60)
>DroEre_CAF1 120156 99 + 1
UUUUUUUCAUCCU--GU---UCUGGCA-GGGCUUCCUGGCCUCCGAGGCCGCGUGUCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
.........((((--((---....)))-)))..(((.((((.....))))((((((((.((.....)).)))))..))).............))).......... ( -28.40)
>DroMoj_CAF1 160070 95 + 1
CUUUUGCCGCCAUCCGC---CGUUCGAUAGGGG-------CGACGCUGCCGCGUGCCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
...(((.....(((((.---.(((.((...(((-------((((((....)))(((((.((.....)).))))).))))))....)).)))))))).....))). ( -27.90)
>DroPer_CAF1 129664 92 + 1
UUUGUUUCGUCCU--GG-AGCGGUCCUUGAGC----------CUUGAGCCGCGUGUCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
...(((((.....--))-)))((((((((((.----------..(((((.(.((((((.((.....)).)))))).))))))..)))))...)))))........ ( -25.70)
>consensus
UUUUUUUCAUCCU__GC___CGUUCCAUGGGC________C_CCGGAGCCGCGUGUCUUGCUCAUUGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAAC
.............................................((((.(.((((((.((.....)).)))))).)))))........................ (-13.35 = -13.72 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,686,022 – 2,686,130
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.56
Mean single sequence MFE -27.39
Consensus MFE -23.56
Energy contribution -24.06
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.37
Structure conservation index 0.86
SVM decision value 1.27
SVM RNA-class probability 0.938335
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2686022 108 + 22407834
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCGCGCUGCCG------------CUGCCGCACAGGAUAAUGGCAACUUUUUU
(((((((((((((.......((......))..........))))))))..((((((((((.....))...(((....))------------)....))))))))...)))))........ ( -28.13)
>DroGri_CAF1 135022 104 + 1
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCUC----CCG------------UUGGCGCACAGGAUAAUGGCAGCUUUUCC
(((((((((((((.......((......))..........))))))))..((((((((..............----...------------.....))))))))...)))))........ ( -26.18)
>DroEre_CAF1 120215 114 + 1
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCUCGCUGCCGCUG------UCGCUGCCGCACAGGAUAAUGGCAACUUUUUU
(((((((((((((.......((......))..........))))))))..((((((((((.....))........((.((..------..)).)).))))))))...)))))........ ( -28.73)
>DroWil_CAF1 196136 96 + 1
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCUCGCU------------------------CAGGAUAAUGGCAACUUUUUU
(((((((((((((.......((......))..........))))))))..(((((.((..............)).------------------------)))))...)))))........ ( -22.67)
>DroYak_CAF1 110059 120 + 1
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCUCGCUGCCGCUGCCACUGCCGCUGCCGCACAGGAUAAUGGCAACUUUUUU
(((((((((((((.......((......))..........))))))))..((((((((((.....)).....((.((.((.......)).)).)).))))))))...)))))........ ( -32.33)
>DroAna_CAF1 186667 102 + 1
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCUCGCU------------------GCCGCACAGGAUAAUGGCAACGUUUCC
(((((((((((((.......((......))..........))))))))..((((((((.................------------------...))))))))...)))))........ ( -26.28)
>consensus
UGCCAGGCAUUCGCUCAUUUUCAAAUCGGAUUUUAUCAACUGAAUGCCAUUCUUGUGCAAAUAUCUUAUCUCGCU_CCG____________CUGCCGCACAGGAUAAUGGCAACUUUUUU
(((((((((((((.......((......))..........))))))))..((((((((......................................))))))))...)))))........ (-23.56 = -24.06 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:07 2006