Locus 1190

Sequence ID X_DroMel_CAF1
Location 3,554,775 – 3,554,919
Length 144
Max. P 0.927505
window1910 window1911

overview

Window 0

Location 3,554,775 – 3,554,880
Length 105
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 80.30
Mean single sequence MFE -26.56
Consensus MFE -19.83
Energy contribution -19.71
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -2.03
Structure conservation index 0.75
SVM decision value 1.18
SVM RNA-class probability 0.927505
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3554775 105 - 22224390
UCUA--UAUAUCUGCUUGACUGCUAGGUUUUUCUCUGGCUUCUAAAUGGAGUGACACACGAACUGA-----GUCACUUUUAUAUUGAAGUGCUGAUAAGUAC--GCUUAUCUAU
....--...((((((......)).)))).........(((((.....((((((((.((.....)).-----))))))))......)))))...((((((...--.))))))... ( -23.90)
>DroSec_CAF1 10499 86 - 1
--------UAUCUGCUUGGC-----------GCACUGGCUUCUAAAUGGAGUGACACACGAACUGA-----GUCACUUCU--AUCGAAGUGGUGAUAAGUGC--GCUUAUCUAU
--------.........(((-----------(((((.(((((.....((((((((.((.....)).-----)))))))).--...))))).......)))))--)))....... ( -27.70)
>DroSim_CAF1 8586 86 - 1
--------UAUCUGCUUGGC-----------GCUCUGGCUUCUAAAUGGAGUGACACACGAACUGA-----GUCACUUCU--AUCGAAGUGGUGAUAAGUGC--GCUUAUCUAU
--------.........(((-----------((.((.(((((.....((((((((.((.....)).-----)))))))).--...))))).......)).))--)))....... ( -23.70)
>DroEre_CAF1 10575 94 - 1
UACAAGUAUAUUUGCUUGGC-------------UCUGCCUUCUAAGUGGAGUGACACACGUACUGA-----GUCACUUCU--AUCGAAGUGAUGAUAAGUGCGCGCUUAUCUAU
..((((((....))))))((-------------((..(.......)..))))....(.((((((..-----((((((((.--...))))))))....)))))).)......... ( -31.60)
>DroYak_CAF1 12016 90 - 1
-------AUAUCUGCUUGAC-------------UCGGGCUUCUAAAUGGAGUGACACACGUACUGAGUUGAGUCACUCCU--AUCGAAGUGGUGAUAAGUGC--GCUUAUCUAU
-------......(((..((-------------(((((((((.....))))).((....)).))))))..)))((((.(.--...).))))..((((((...--.))))))... ( -25.90)
>consensus
_______AUAUCUGCUUGGC____________CUCUGGCUUCUAAAUGGAGUGACACACGAACUGA_____GUCACUUCU__AUCGAAGUGGUGAUAAGUGC__GCUUAUCUAU
.....................................(((((.....((((((((................))))))))......)))))...(((((((....)))))))... (-19.83 = -19.71 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,554,807 – 3,554,919
Length 112
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 79.73
Mean single sequence MFE -25.75
Consensus MFE -13.71
Energy contribution -13.39
Covariance contribution -0.32
Combinations/Pair 1.14
Mean z-score -2.16
Structure conservation index 0.53
SVM decision value 0.70
SVM RNA-class probability 0.825632
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3554807 112 - 22224390
UUCGCCUGUCCACUGUCAGUGUGUUCACAUAAAUAUAUAUCUA--UAUAUCUGCUUGACUGCUAGGUUUUUCUCUGGCUUCUAAAUGGAGUGACACACGAACUGA-----GUCACUUUU
........((((..(((((((....)))....((((((....)--))))).....)))).((((((......)))))).......))))(((((.((.....)).-----))))).... ( -23.40)
>DroSec_CAF1 10529 91 - 1
UCCGCCUGUCUACUGUCAGUGUGUUUACAUAAAUA------------UAUCUGCUUGGC-----------GCACUGGCUUCUAAAUGGAGUGACACACGAACUGA-----GUCACUUCU
..............(((((((((((..........------------.........)))-----------))))))))........((((((((.((.....)).-----)))))))). ( -25.51)
>DroSim_CAF1 8616 91 - 1
UCCGCCUGUCCACUGUCAGUGUGUUUACAUAAAUA------------UAUCUGCUUGGC-----------GCUCUGGCUUCUAAAUGGAGUGACACACGAACUGA-----GUCACUUCU
...(((.(((((..(.((((((((((....)))))------------)).)))).))).-----------))...)))........((((((((.((.....)).-----)))))))). ( -25.40)
>DroEre_CAF1 10607 100 - 1
UUCGCCUGUCCACU-UCAGUGUGUUUACAUAAAUACAUAUACAAGUAUAUUUGCUUGGC-------------UCUGCCUUCUAAGUGGAGUGACACACGUACUGA-----GUCACUUCU
........((((((-(..((((((((....))))))))...((((((....))))))..-------------..........)))))))(((((.((.....)).-----))))).... ( -26.50)
>DroYak_CAF1 12046 93 - 1
UUCGCCUGUCCACU-UCAGUGUGUUUACAUAAAU------------AUAUCUGCUUGAC-------------UCGGGCUUCUAAAUGGAGUGACACACGUACUGAGUUGAGUCACUCCU
...(((((......-.((((((((((....))))------------))).)))......-------------.)))))........((((((((.(((.......).)).)))))))). ( -27.94)
>consensus
UUCGCCUGUCCACUGUCAGUGUGUUUACAUAAAUA___________AUAUCUGCUUGGC____________CUCUGGCUUCUAAAUGGAGUGACACACGAACUGA_____GUCACUUCU
..((((((........))).)))...............................................................((((((((................)))))))). (-13.71 = -13.39 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:28 2006