Locus 6564

Sequence ID X_DroMel_CAF1
Location 16,415,729 – 16,415,899
Length 170
Max. P 0.921226
window10724 window10725

overview

Window 4

Location 16,415,729 – 16,415,839
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.24
Mean single sequence MFE -26.27
Consensus MFE -21.79
Energy contribution -22.23
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.84
Structure conservation index 0.83
SVM decision value 0.28
SVM RNA-class probability 0.664426
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16415729 110 - 22224390
GUUACCCCUAUGACAGAUAAACAGCUGAAUCUUCAGCUGAUUUAC---------UUA-AACUGAAAACUCUAUUACAAAAUAGUUGGGCAGCUGUGGUAGUUGAACCCGGACCACUGUUA
..........((((((.(((((((((((....))))))).)))).---------...-..(((.....((.(((((...((((((....)))))).))))).))...)))....)))))) ( -26.10)
>DroSec_CAF1 36352 116 - 1
GUUACAGAUAUG---CAUAAACAGCUGAAUCUUCAGCUUAUUUACAUAAUUUACUUA-AACAGAAAACACUAUUACAAAAUAGUUGGGCAGCAGUGGUAGUUGGACCCAGACCACUGUUA
...........(---(......((((((....))))))...................-.........(((((((....))))).)).))(((((((((...((....)).))))))))). ( -25.50)
>DroSim_CAF1 32659 117 - 1
GUUACAGAUAUG---CAUAAACAGCUGAAUCUUCAGCUGAUUUACUUAAUUUACUUAAAACAGAAAACACUAUUACAAAAUAGUUGGGCAGCAGUGGUAGUUGAACCCGGACCACUGUUU
..........((---(.(((((((((((....))))))).)))).......................(((((((....))))).)).)))((((((((...((....)).)))))))).. ( -27.20)
>consensus
GUUACAGAUAUG___CAUAAACAGCUGAAUCUUCAGCUGAUUUAC_UAAUUUACUUA_AACAGAAAACACUAUUACAAAAUAGUUGGGCAGCAGUGGUAGUUGAACCCGGACCACUGUUA
(((..............(((((((((((....))))))).)))).........................(((((....)))))...)))(((((((((...((....)).))))))))). (-21.79 = -22.23 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,415,799 – 16,415,899
Length 100
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 82.14
Mean single sequence MFE -26.39
Consensus MFE -19.67
Energy contribution -19.67
Covariance contribution 0.00
Combinations/Pair 1.10
Mean z-score -2.28
Structure conservation index 0.75
SVM decision value 1.14
SVM RNA-class probability 0.921226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16415799 100 + 22224390
UCAGCUGAAGAUUCAGCUGUUUAUCUGUCAUAGGGGUAACAAUUUUUU-----UUGCCAAUUUUUUCCUGUGCAAAAAGCUCUUCUUUUGAUGAGGAAGUGCAGA--------
.(((((((....)))))))......((.(((((((((((.........-----)))))........))))))))....((.(((((((....))))))).))...-------- ( -28.60)
>DroSec_CAF1 36431 110 + 1
UAAGCUGAAGAUUCAGCUGUUUAUG---CAUAUCUGUAACACAUUUAUACAAAUUGCAAUUUUUUUUCUGUGUAAAAAGCUCUUCUUCUGAUGAGAAAGUGCAGACCCACGCA
..((((((....)))))).....((---(...((((((.....((((((((.................))))))))...(((.((....)).)))....)))))).....))) ( -21.93)
>DroSim_CAF1 32739 110 + 1
UCAGCUGAAGAUUCAGCUGUUUAUG---CAUAUCUGUAACACAUUUAUACAAAUUGCAAUUUUUUUUCUGUGUAAAAAGCUCUUCUUCUGAUGAGGAAGUGCAGACCCACGCA
.(((((((....)))))))....((---(..............((((((((.................))))))))..((.(((((((....))))))).))........))) ( -28.63)
>consensus
UCAGCUGAAGAUUCAGCUGUUUAUG___CAUAUCUGUAACACAUUUAUACAAAUUGCAAUUUUUUUUCUGUGUAAAAAGCUCUUCUUCUGAUGAGGAAGUGCAGACCCACGCA
.(((((((....)))))))...............(((((..............)))))....................((.(((((((....))))))).))........... (-19.67 = -19.67 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:03 2006