Locus 3840

Sequence ID X_DroMel_CAF1
Location 10,208,521 – 10,208,622
Length 101
Max. P 0.631919
window6316 window6317

overview

Window 6

Location 10,208,521 – 10,208,622
Length 101
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 72.46
Mean single sequence MFE -22.44
Consensus MFE -17.57
Energy contribution -17.13
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -0.91
Structure conservation index 0.78
SVM decision value 0.17
SVM RNA-class probability 0.617565
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10208521 101 + 22224390
CAAAGUUCAAUGUAA-AAGCAUGGUAUUUUGGUUGCUUGAAUAAUACAUUUUUCUCUCUGUGUACCCAGCGCCGUGCAUUUGUAUCCGCUGUUUGCGCUGGA
((((((...((((..-..))))...)))))).......................(((..(((((..(((((..((((....)))).)))))..))))).))) ( -22.80)
>DroSim_CAF1 5297 102 + 1
CAACGUUAAAUAUUACCAGCAUGGUGUUUUGUGUGUUUGGAUAUUACAUUUUUCUCUCUGUGUACCCAGCGCCGUGCAUUUGUAUCCGCUGUUUGCACUGGA
...............(((((((((((((..(((..(..(((.............)))..)..)))..))))))))))..........((.....))..))). ( -24.72)
>DroYak_CAF1 5808 87 + 1
UAAAAUUUAAUGCAA---------------AAUCGCUUUGGCUAUAACAUUUUCUUUCUGUGCACCCAGCGCCGUGCACUUGUAUCCGCUGUUUGCGCUGGA
...............---------------....((....)).............(((.(((((..(((((..((((....)))).)))))..))))).))) ( -19.80)
>consensus
CAAAGUUAAAUGUAA__AGCAUGGU_UUUUGAUUGCUUGGAUAAUACAUUUUUCUCUCUGUGUACCCAGCGCCGUGCAUUUGUAUCCGCUGUUUGCGCUGGA
........................................................((((((((..(((((..((((....)))).)))))..))))).))) (-17.57 = -17.13 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 10,208,521 – 10,208,622
Length 101
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 72.46
Mean single sequence MFE -20.54
Consensus MFE -15.59
Energy contribution -15.37
Covariance contribution -0.22
Combinations/Pair 1.09
Mean z-score -1.01
Structure conservation index 0.76
SVM decision value 0.20
SVM RNA-class probability 0.631919
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10208521 101 - 22224390
UCCAGCGCAAACAGCGGAUACAAAUGCACGGCGCUGGGUACACAGAGAGAAAAAUGUAUUAUUCAAGCAACCAAAAUACCAUGCUU-UUACAUUGAACUUUG
((((((((.....(((........)))...))))))))....(((((.....((((((......(((((............)))))-.))))))...))))) ( -24.20)
>DroSim_CAF1 5297 102 - 1
UCCAGUGCAAACAGCGGAUACAAAUGCACGGCGCUGGGUACACAGAGAGAAAAAUGUAAUAUCCAAACACACAAAACACCAUGCUGGUAAUAUUUAACGUUG
((((((((.....(((........)))...))))))))..............(((((((((((((...................)))..)))))..))))). ( -16.71)
>DroYak_CAF1 5808 87 - 1
UCCAGCGCAAACAGCGGAUACAAGUGCACGGCGCUGGGUGCACAGAAAGAAAAUGUUAUAGCCAAAGCGAUU---------------UUGCAUUAAAUUUUA
((((((((.....((........)).....))))))))......((((...(((((....((....))....---------------..)))))...)))). ( -20.70)
>consensus
UCCAGCGCAAACAGCGGAUACAAAUGCACGGCGCUGGGUACACAGAGAGAAAAAUGUAUUAUCCAAGCAAACAAAA_ACCAUGCU__UUACAUUAAACUUUG
((((((((.....(((........)))...))))))))................................................................ (-15.59 = -15.37 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:59 2006