Locus 7205

Sequence ID 3R_DroMel_CAF1
Location 18,970,094 – 18,970,210
Length 116
Max. P 0.999928
window11657 window11658

overview

Window 7

Location 18,970,094 – 18,970,210
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.03
Mean single sequence MFE -43.03
Consensus MFE -40.55
Energy contribution -40.88
Covariance contribution 0.33
Combinations/Pair 1.03
Mean z-score -2.95
Structure conservation index 0.94
SVM decision value 4.61
SVM RNA-class probability 0.999928
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18970094 116 + 27905053
CGGCAUGGA----AUCCAUGGGCAAGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUCCGUCUGCUUUUAAUUUCUUUUAAUGGAA
.........----.(((((.(((.....))).((((((((((((((((((.........((((....))))(....).......))))).)))))))))))))...........))))). ( -46.50)
>DroSec_CAF1 81188 115 + 1
CGCCAUGGA----AUCCAUGGAC-AGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUCCGUCUGCUUUUAAUUUCUUUUAAUGGAA
.(((((((.----..)))))).)-........((((((((((((((((((.........((((....))))(....).......))))).)))))))))))))...((((......)))) ( -44.80)
>DroSim_CAF1 82991 115 + 1
CGGCAUGGA----AUCCAUGGAC-AGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUCCGUCUGCUUUUAAUUUCUUUUAAUGGAA
.(((((...----.((....)).-..))))).((((((((((((((((((.........((((....))))(....).......))))).)))))))))))))...((((......)))) ( -44.50)
>DroEre_CAF1 81768 115 + 1
UGGCAUGGA----AUCCAUGGAC-AGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUUCGUCUGCUUUUAAUUUCUUUUAAUGGAA
((((((...----.((....)).-..))))))((((((((((((((((((.........((((....))))(....).......))))).)))))))))))))...((((......)))) ( -42.00)
>DroYak_CAF1 84320 115 + 1
CGGCAUGGA----AUCCAUGGUC-AGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUUCGUCUGCUUUUAAUUUCUUUUAAUGGAA
.(((((.((----........))-..))))).((((((((((((((((((.........((((....))))(....).......))))).)))))))))))))...((((......)))) ( -41.50)
>DroAna_CAF1 83775 115 + 1
C--CAUGGACAGAUGCCA--GCC-AGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUGCGUCUGCUUUUAAUUUCUUUUAAUGGAA
(--(((((.((..((...--..)-)..)))).(((((((((((.((((((.........((((....))))(....).......))))).).)))))))))))...........)))).. ( -38.90)
>consensus
CGGCAUGGA____AUCCAUGGAC_AGAUGCCAAAGAGCAGAUGGAACGCCAUUUUCUGUGCGCCAUGGCGCGUCCGCAUCCAACGGCGUCUCCGUCUGCUUUUAAUUUCUUUUAAUGGAA
..............(((((.....(((.....((((((((((((((((((.........((((....))))(....).......))))).)))))))))))))....)))....))))). (-40.55 = -40.88 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,970,094 – 18,970,210
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 95.03
Mean single sequence MFE -39.98
Consensus MFE -34.53
Energy contribution -35.03
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.86
SVM decision value 1.54
SVM RNA-class probability 0.962164
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18970094 116 - 27905053
UUCCAUUAAAAGAAAUUAAAAGCAGACGGAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCUUGCCCAUGGAU----UCCAUGCCG
.(((((...((((..(((((((((((.((((.(((((((...((.....((((....)))).))...))))))))))).)))))).)))))..))))....))))).----......... ( -41.70)
>DroSec_CAF1 81188 115 - 1
UUCCAUUAAAAGAAAUUAAAAGCAGACGGAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCU-GUCCAUGGAU----UCCAUGGCG
..........(((..(((((((((((.((((.(((((((...((.....((((....)))).))...))))))))))).)))))).)))))..)))-(.((((((..----.))))))). ( -42.60)
>DroSim_CAF1 82991 115 - 1
UUCCAUUAAAAGAAAUUAAAAGCAGACGGAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCU-GUCCAUGGAU----UCCAUGCCG
....................((((((.((((.(((((((...((.....((((....)))).))...))))))))))).))))))....(((((..-(((....)))----...))))). ( -41.80)
>DroEre_CAF1 81768 115 - 1
UUCCAUUAAAAGAAAUUAAAAGCAGACGAAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCU-GUCCAUGGAU----UCCAUGCCA
....................((((((....(((((((((...((.....((((....)))).))...)))))))))...))))))...((((((..-(((....)))----...)))))) ( -37.40)
>DroYak_CAF1 84320 115 - 1
UUCCAUUAAAAGAAAUUAAAAGCAGACGAAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCU-GACCAUGGAU----UCCAUGCCG
.(((((....(((..(((((((((((....(((((((((...((.....((((....)))).))...)))))))))...)))))).)))))..)))-....))))).----......... ( -36.70)
>DroAna_CAF1 83775 115 - 1
UUCCAUUAAAAGAAAUUAAAAGCAGACGCAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCU-GGC--UGGCAUCUGUCCAUG--G
......................((...(((((.(((((..((((((((.(((((((..(.....)...)))))))))).....(.....)))))).-.))--.))).)))))...))--. ( -39.70)
>consensus
UUCCAUUAAAAGAAAUUAAAAGCAGACGGAGACGCCGUUGGAUGCGGACGCGCCAUGGCGCACAGAAAAUGGCGUUCCAUCUGCUCUUUGGCAUCU_GUCCAUGGAU____UCCAUGCCG
..........(((..(((((((((((....(((((((((...((.....((((....)))).))...)))))))))...)))))).)))))..)))....((((((.....))))))... (-34.53 = -35.03 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:05 2006