Locus 5776

Sequence ID X_DroMel_CAF1
Location 14,972,973 – 14,973,080
Length 107
Max. P 0.793827
window9372 window9373

overview

Window 2

Location 14,972,973 – 14,973,080
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.94
Mean single sequence MFE -33.20
Consensus MFE -25.72
Energy contribution -26.30
Covariance contribution 0.58
Combinations/Pair 1.15
Mean z-score -1.18
Structure conservation index 0.77
SVM decision value 0.22
SVM RNA-class probability 0.640931
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14972973 107 + 22224390
GUAGGAGGAGCGGCCACAGCGACGGCACAGGGUGUGCGUCUUAUUGUGGCGCUUACCAAAGCUGGAGGUACCCUUCGUCUGUAAU------GGAAACACGCA---G---GGU-AUUAGCA
...((..(((((.((((((.((((.(((.....)))))))...))))))))))).))...((((...(((((((.(((.......------(....)))).)---)---)))-)))))). ( -41.61)
>DroVir_CAF1 276 103 + 1
GUAGGAGGAGCGUCCACAGCGACGGCACAGAGUGUGCGUCUUGUUGUGGCGUUUACCAAAGCUCGAGGUACCCUUCGUCUGUAAU------CGAAU-----A---U---UGUAAUUAGUA
...(((((((((.(((((((((((.(((.....)))))))..)))))))))))((((.........)))).))))).........------.....-----.---.---........... ( -31.20)
>DroGri_CAF1 264 108 + 1
GUAUGAGGAACGUCCACAGCGACGGCACAAAGUGUGCGUCUUGUUGUGGCGUUUACCAAAGCUCGAGGUACCCUUCGUCUGCAAUAGCCAACAAAU-----A---A---UGC-AUUAGUA
(((((..(((((.(((((((((((.(((.....)))))))..))))))))))))..)...((.(((((....)))))...))..............-----.---)---)))-....... ( -33.50)
>DroWil_CAF1 2328 110 + 1
GUAGGAGGAGCGUCCACAACGACGGCACAAGGUGUGCGUCUUGUUAUGACGUUUACCAAAGCUUGAGGUACCCUUCGUCUGUAAG------CGAAAUACAAA---AAAAAGU-GGUUGCA
.........(((.((((...((((.(((.....)))))))((((.((..(((((((...((..(((((....))))).)))))))------))..)))))).---.....))-)).))). ( -30.30)
>DroMoj_CAF1 273 106 + 1
GUAGGAGGAUCGGCCACAACGACGGCACAGGGUGUGCGUCUUAUUGUGGCGUUUACCAAAACUCGAGGUACCUUUCGUCUGUAAA------CAAAG-----AGGAG---UUGAAUUAAUA
....(((((((.(((((((.((((.(((.....)))))))...)))))))((((....))))....))).))))((.(((.....------...))-----).)).---........... ( -29.50)
>DroAna_CAF1 272 104 + 1
GUAGGACGAGCGACCACAACGACGGCACAGUGUGUGCGUCUUGUUGUGGCGUUUACCAAAGCUGGAGGUACCCUUCGUCUGUAAU------CAAAAGA---A---U---UCC-AUUAGCG
...((..(((((.(((((((((((.(((.....)))))))..)))))))))))).))...((((((((...))))).(((.....------....)))---.---.---...-...))). ( -33.10)
>consensus
GUAGGAGGAGCGUCCACAACGACGGCACAGGGUGUGCGUCUUGUUGUGGCGUUUACCAAAGCUCGAGGUACCCUUCGUCUGUAAU______CAAAA_____A___A___UGU_AUUAGCA
...(((((((((.(((((((((((.(((.....)))))))..)))))))))))((((.........)))).)))))............................................ (-25.72 = -26.30 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,972,973 – 14,973,080
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.94
Mean single sequence MFE -30.38
Consensus MFE -20.68
Energy contribution -20.43
Covariance contribution -0.25
Combinations/Pair 1.14
Mean z-score -1.68
Structure conservation index 0.68
SVM decision value 0.59
SVM RNA-class probability 0.793827
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14972973 107 - 22224390
UGCUAAU-ACC---C---UGCGUGUUUCC------AUUACAGACGAAGGGUACCUCCAGCUUUGGUAAGCGCCACAAUAAGACGCACACCCUGUGCCGUCGCUGUGGCCGCUCCUCCUAC
.(((..(-(((---(---(...(((((..------.....))))).)))))).....)))...((..(((((((((....(((((((.....))).))))..))))).))))...))... ( -35.50)
>DroVir_CAF1 276 103 - 1
UACUAAUUACA---A---U-----AUUCG------AUUACAGACGAAGGGUACCUCGAGCUUUGGUAAACGCCACAACAAGACGCACACUCUGUGCCGUCGCUGUGGACGCUCCUCCUAC
...........---.---.-----.((((------........))))(((((((.........))))..(((((((....(((((((.....))).))))..))))).)).....))).. ( -23.80)
>DroGri_CAF1 264 108 - 1
UACUAAU-GCA---U---U-----AUUUGUUGGCUAUUGCAGACGAAGGGUACCUCGAGCUUUGGUAAACGCCACAACAAGACGCACACUUUGUGCCGUCGCUGUGGACGUUCCUCAUAC
((((((.-((.---.---.-----.((((((.((....)).))))))(((...)))..)).))))))(((((((((....(((((((.....))).))))..))))).))))........ ( -32.80)
>DroWil_CAF1 2328 110 - 1
UGCAACC-ACUUUUU---UUUGUAUUUCG------CUUACAGACGAAGGGUACCUCAAGCUUUGGUAAACGUCAUAACAAGACGCACACCUUGUGCCGUCGUUGUGGACGCUCCUCCUAC
.((....-.(((((.---((((((.....------..)))))).))))).((((.........))))...(((...(((((((((((.....))).)))).)))).)))))......... ( -28.20)
>DroMoj_CAF1 273 106 - 1
UAUUAAUUCAA---CUCCU-----CUUUG------UUUACAGACGAAAGGUACCUCGAGUUUUGGUAAACGCCACAAUAAGACGCACACCCUGUGCCGUCGUUGUGGCCGAUCCUCCUAC
...........---..(((-----.((((------((....)))))))))......(((..((((....)((((((((..(((((((.....))).)))))))))))))))..))).... ( -29.10)
>DroAna_CAF1 272 104 - 1
CGCUAAU-GGA---A---U---UCUUUUG------AUUACAGACGAAGGGUACCUCCAGCUUUGGUAAACGCCACAACAAGACGCACACACUGUGCCGUCGUUGUGGUCGCUCGUCCUAC
.(.((((-.((---(---.---...))).------))))).(((((.(..((((.........))))..)((((((((..(((((((.....))).))))))))))))...))))).... ( -32.90)
>consensus
UACUAAU_ACA___A___U_____UUUCG______AUUACAGACGAAGGGUACCUCGAGCUUUGGUAAACGCCACAACAAGACGCACACCCUGUGCCGUCGCUGUGGACGCUCCUCCUAC
...............................................(((((((.........))))..(((((((....(((((((.....))).))))..))))).)).....))).. (-20.68 = -20.43 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:07 2006