Locus 132

Sequence ID 2R_DroMel_CAF1
Location 1,391,996 – 1,392,192
Length 196
Max. P 0.973528
window275 window276 window277

overview

Window 5

Location 1,391,996 – 1,392,112
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.60
Mean single sequence MFE -29.14
Consensus MFE -26.39
Energy contribution -26.39
Covariance contribution 0.00
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.91
SVM decision value 1.71
SVM RNA-class probability 0.973528
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1391996 116 - 20766785
AAAUAAACUGUGUUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUUUUUUCA----UUUUUUAUUGUCUGCCAUUUUCUAACACUU
......(((((...((((((((...))))))))...)))))....((((((((((((....((((.....))))...........(----(.....)).))))))..))))))....... ( -28.20)
>DroSec_CAF1 18775 116 - 1
AAAUAAACUGUGCUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUUUUUUCG----GUUUUUAUUGUCUGCCAUUUUCUAACACUU
......(((((.(.((((((((...)))))))).).)))))....((((((((((((...(((..((((.(((.........))).----))))..)))))))))..))))))....... ( -31.40)
>DroSim_CAF1 23609 116 - 1
AAAUAAACUGUGCUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUUUUUUCG----GUUUUUAUUGUCUGCCAUUUUCUAACACUU
......(((((.(.((((((((...)))))))).).)))))....((((((((((((...(((..((((.(((.........))).----))))..)))))))))..))))))....... ( -31.40)
>DroEre_CAF1 17241 116 - 1
AAAUAAACUGUGUUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACAGAACAUUAUUUUUUCG----GCCUUUAUUGUCUGCCAUUUUCUAACACUU
......(((((...((((((((...))))))))...)))))....((((((((((((.((((..(.((.((((.....)))).)))----..))))...))))))..))))))....... ( -31.60)
>DroYak_CAF1 16364 120 - 1
AAAUAAACUGUGUUCACAAAGCACGGCAUUGUGUAAGCAGUCAAAGGAGAAACAGACCGAGGUUCAGACUGAGCAAUAUUUUUUUAUUAUUCUUUUAUUUUCUGUCAUUUUCUAACACUU
......(((((...(((((.((...)).)))))...)))))....(((((((((((.....((((.....))))((((......))))............)))))..))))))....... ( -23.10)
>consensus
AAAUAAACUGUGUUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUUUUUUCG____GUUUUUAUUGUCUGCCAUUUUCUAACACUU
......(((((...((((((((...))))))))...)))))....((((((((((((((((((((.....))))........)))).............))))))..))))))....... (-26.39 = -26.39 +   0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,392,032 – 1,392,152
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.25
Mean single sequence MFE -33.46
Consensus MFE -29.56
Energy contribution -29.88
Covariance contribution 0.32
Combinations/Pair 1.10
Mean z-score -1.44
Structure conservation index 0.88
SVM decision value 0.91
SVM RNA-class probability 0.878916
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1392032 120 - 20766785
AUUUUCUGGGUCAAUUUUGCAGACAGCAGCCGUUUGACUAAAAUAAACUGUGUUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUU
....((((.(.......).))))..((..((((((((((.......(((((...((((((((...))))))))...)))))....((.........))..)).)))))))).))...... ( -32.70)
>DroSec_CAF1 18811 120 - 1
AUUUUCUGGGUCAAUUUGGCAGACAGCAGCCGUUUGACUAAAAUAAACUGUGCUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUU
.((((((.((((((..((((........)))).)))))).......(((((.(.((((((((...)))))))).).)))))....))))))..........((((.....))))...... ( -34.60)
>DroSim_CAF1 23645 120 - 1
AUUUUCUGGGUCAAUUUGGCAGACAGCAGCCGUUUGACUAAAAUAAACUGUGCUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUU
.((((((.((((((..((((........)))).)))))).......(((((.(.((((((((...)))))))).).)))))....))))))..........((((.....))))...... ( -34.60)
>DroEre_CAF1 17277 120 - 1
AUUUUCUGGGUCAAUUUUGCAGGCAGCUGCCGUUUGGCUAAAAUAAACUGUGUUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACAGAACAUUAUU
...(((((..(.(((((((..(((....)))(((((.((.......(((((...((((((((...))))))))...)))))......))...)))))))))))).)..)))))....... ( -34.22)
>DroYak_CAF1 16404 120 - 1
ACUUUCUGGGUCAAUUUAUCAGGCAGCUGCCGUUUGACUAAAAUAAACUGUGUUCACAAAGCACGGCAUUGUGUAAGCAGUCAAAGGAGAAACAGACCGAGGUUCAGACUGAGCAAUAUU
.....((.((((..(((.((.(((....))).(((((((...((((.(((((((.....)))))))..))))......))))))).)).)))..)))).))((((.....))))...... ( -31.20)
>consensus
AUUUUCUGGGUCAAUUUGGCAGACAGCAGCCGUUUGACUAAAAUAAACUGUGUUCACAAAGCACGGCUUUGUGUGAGCAGUCAAAGGAGAAGCAGACCGAAGUUCAGACGGAGCAUUAUU
........((((..((((((((((.......))))).)))))....(((((...((((((((...))))))))...))))).............))))...((((.....))))...... (-29.56 = -29.88 +   0.32) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,392,072 – 1,392,192
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -27.10
Consensus MFE -21.87
Energy contribution -21.43
Covariance contribution -0.44
Combinations/Pair 1.18
Mean z-score -1.41
Structure conservation index 0.81
SVM decision value 0.10
SVM RNA-class probability 0.582243
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1392072 120 + 20766785
CUGCUCACACAAAGCCGUGCUUUGUGAACACAGUUUAUUUUAGUCAAACGGCUGCUGUCUGCAAAAUUGACCCAGAAAAUGCACAGCGAAAUAAUAAAAAAUUUAGCGGACCCAAGAAAU
(((((..((((((((...))))))))........(((((((((((....))))(((((..(((...((......))...)))))))))))))))..........)))))........... ( -26.90)
>DroSec_CAF1 18851 120 + 1
CUGCUCACACAAAGCCGUGCUUUGUGAGCACAGUUUAUUUUAGUCAAACGGCUGCUGUCUGCCAAAUUGACCCAGAAAAUGCACAGCGAAGUAAUAAAAAAUUUAGCGGACCCAAGAAAU
(((((..((((((((...)))))))).((...((.((((((.(((((..(((........)))...)))))....)))))).)).)).................)))))........... ( -27.60)
>DroSim_CAF1 23685 120 + 1
CUGCUCACACAAAGCCGUGCUUUGUGAGCACAGUUUAUUUUAGUCAAACGGCUGCUGUCUGCCAAAUUGACCCAGAAAAUGCACAGCGAAGUAAUAAAAAAUUUAGCGGACCCAAGAAAU
(((((..((((((((...)))))))).((...((.((((((.(((((..(((........)))...)))))....)))))).)).)).................)))))........... ( -27.60)
>DroEre_CAF1 17317 120 + 1
CUGCUCACACAAAGCCGUGCUUUGUGAACACAGUUUAUUUUAGCCAAACGGCAGCUGCCUGCAAAAUUGACCCAGAAAAUGCACAGCAAAGCAAUCAAAAAUUUAGCGGACCCAAGAAAU
(((((..((((((((...))))))))......((((......(((....))).((((..((((...((......))...)))))))).))))............)))))........... ( -28.30)
>DroYak_CAF1 16444 120 + 1
CUGCUUACACAAUGCCGUGCUUUGUGAACACAGUUUAUUUUAGUCAAACGGCAGCUGCCUGAUAAAUUGACCCAGAAAGUGCGUAGCAAAGUAAUACAAAAUGUAACGGACCCAAAAAAU
(((.(((((...(((((..((((.((....(((((((((...(.....)(((....))).)))))))))...)).))))..))..)))..(.....)....))))))))........... ( -25.10)
>consensus
CUGCUCACACAAAGCCGUGCUUUGUGAACACAGUUUAUUUUAGUCAAACGGCUGCUGUCUGCAAAAUUGACCCAGAAAAUGCACAGCGAAGUAAUAAAAAAUUUAGCGGACCCAAGAAAU
(((((.......(((((((((..((((((...))))))...)))...))))))((((((((...........))).......))))).................)))))........... (-21.87 = -21.43 +  -0.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:28:44 2006