Locus 4280

Sequence ID 2R_DroMel_CAF1
Location 14,083,793 – 14,083,928
Length 135
Max. P 0.941946
window6868 window6869

overview

Window 8

Location 14,083,793 – 14,083,906
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.08
Mean single sequence MFE -35.76
Consensus MFE -21.42
Energy contribution -21.48
Covariance contribution 0.06
Combinations/Pair 1.11
Mean z-score -2.26
Structure conservation index 0.60
SVM decision value 1.32
SVM RNA-class probability 0.941946
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14083793 113 + 20766785
CAACAAAGAGGCUGCCCC-CGGGGGCAGGCUGUACGGC-CCGACUCGAGAUUCUAAUUGCAACAUGCUGCAAAGUAAGUGCGGACACUUGCAAUUAAUAAGAAUUGCUGCCGCUG-----
......(.((.((((((.-...)))))).)).).((((-.(((.((...((..(((((((((....(((((.......)))))....)))))))))))..)).)))..))))...----- ( -38.50)
>DroPse_CAF1 800 96 + 1
CAACAGGCAGGCAGC------------------------CAGGCUCAAGAUUCUAAUUGCAACAUGUUGCAAAGUAAGUGCGGACACUUGCAAUUAAUAAGAAUUGCUGCUGCUGUGGCU
.....(((.((((((------------------------..(((....((((((..((((((....)))))).(((((((....)))))))........)))))))))))))))...))) ( -33.10)
>DroSim_CAF1 8778 111 + 1
CAACAAAGAGGCUGCC---UGGGGGCAGGCUGUUCGGC-CCGACUCGAGAUUCUAAUUGCAACAUGCUGCAAAGUAAGUGCGGACACUUGCAAUUAAUAAGAAUUGCUGCCGCUG-----
......((.(((.(((---(.(((.(.((((....)))-).).))).))(((((((((((((....(((((.......)))))....))))))))....))))).)).))).)).----- ( -35.10)
>DroYak_CAF1 9405 115 + 1
CAACAAAGAGGCUGCCCCGCAGUGGCAGGCUGUACGGCUCCGAGUCGAGAUUCUAAUUGCAACAUGCUGCAAAGUAAGUGCGGACACUUGCAAUUAAUAAGAAUUGCUGCCGCUG-----
.........((.....)).(((((((((......((((.....)))).((((((((((((((....(((((.......)))))....))))))))....)))))).)))))))))----- ( -37.10)
>DroPer_CAF1 835 96 + 1
CAACAGGCAGGCAGC------------------------CAGGCUCAAGAUUCUAAUUGCAACAUGUUGCAAAGUAAGUGCGGACACUUGCAAUUAAUAAGAAUUGCUGCUGCCGUGGCU
.....(((.((((((------------------------..(((....((((((..((((((....)))))).(((((((....)))))))........)))))))))))))))...))) ( -35.00)
>consensus
CAACAAAGAGGCUGCC_____G_GGCAGGCUGU_CGGC_CCGACUCGAGAUUCUAAUUGCAACAUGCUGCAAAGUAAGUGCGGACACUUGCAAUUAAUAAGAAUUGCUGCCGCUG_____
......((.(((.((.............(((....)))..........((((((..(((((......))))).(((((((....)))))))........)))))))).))).))...... (-21.42 = -21.48 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,083,831 – 14,083,928
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.36
Mean single sequence MFE -32.72
Consensus MFE -17.64
Energy contribution -17.44
Covariance contribution -0.20
Combinations/Pair 1.09
Mean z-score -2.48
Structure conservation index 0.54
SVM decision value 0.73
SVM RNA-class probability 0.834457
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14083831 97 - 20766785
GCACUUUUAUGGGUU-CCUUGUG----------------------CAGCGGCAGCAAUUCUUAUUAAUUGCAAGUGUCCGCACUUACUUUGCAGCAUGUUGCAAUUAGAAUCUCGAGUCG
(.((((....(((((-(....((----------------------(((((((.((((((......))))))(((((....)))))........)).)))))))....)))))).))))). ( -28.00)
>DroPse_CAF1 816 119 - 1
UCACUUUUAUGGGCU-CCUUGGGCUCGGUGCUCUGGCAGCAGCCACAGCAGCAGCAAUUCUUAUUAAUUGCAAGUGUCCGCACUUACUUUGCAACAUGUUGCAAUUAGAAUCUUGAGCCU
..........(((((-(...((..(((.((((.((((....)))).)))).).((((((......))))))(((((....)))))...((((((....))))))...))..)).)))))) ( -40.60)
>DroSim_CAF1 8814 97 - 1
GCACUUUUAUGGGUU-CCCUGUG----------------------CAGCGGCAGCAAUUCUUAUUAAUUGCAAGUGUCCGCACUUACUUUGCAGCAUGUUGCAAUUAGAAUCUCGAGUCG
(.((((....(((((-(....((----------------------(((((((.((((((......))))))(((((....)))))........)).)))))))....)))))).))))). ( -28.00)
>DroYak_CAF1 9445 98 - 1
GCACUUUUAUGGGUUUUCUUGUG----------------------CAGCGGCAGCAAUUCUUAUUAAUUGCAAGUGUCCGCACUUACUUUGCAGCAUGUUGCAAUUAGAAUCUCGACUCG
..........(((((((((..((----------------------(((((((.((((((......))))))(((((....)))))........)).)))))))...))))....))))). ( -28.10)
>DroPer_CAF1 851 119 - 1
UCACUUUUAUGGGCU-CCUUGUGCUCGGUGUUCUGGCAGCAGCCACGGCAGCAGCAAUUCUUAUUAAUUGCAAGUGUCCGCACUUACUUUGCAACAUGUUGCAAUUAGAAUCUUGAGCCU
..........(((((-(....((((.(.(((..((((....))))..))).))))).......((((((((((((((..(((.......))).)))).))))))))))......)))))) ( -38.90)
>consensus
GCACUUUUAUGGGUU_CCUUGUG______________________CAGCGGCAGCAAUUCUUAUUAAUUGCAAGUGUCCGCACUUACUUUGCAGCAUGUUGCAAUUAGAAUCUCGAGUCG
.......((((((....))))))........................((((((((((((......))))))(((((....)))))...........)))))).................. (-17.64 = -17.44 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:02 2006