Locus 7000

Sequence ID 3L_DroMel_CAF1
Location 18,912,080 – 18,912,179
Length 99
Max. P 0.627372
window11358

overview

Window 8

Location 18,912,080 – 18,912,179
Length 99
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 88.73
Mean single sequence MFE -37.07
Consensus MFE -29.97
Energy contribution -30.64
Covariance contribution 0.67
Combinations/Pair 1.09
Mean z-score -2.10
Structure conservation index 0.81
SVM decision value 0.19
SVM RNA-class probability 0.627372
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18912080 99 + 23771897
UUUGAGCGGAAGCGGAAAUGCCGGCCAUCGCA-------------AAAAGUAAACCAGCG---UGAUGGAAGAGGCCAGCGUGUUUUGCCA-CUGGCGAUUUCGUUUCGGCCUCGU
...((((.(((((((((.(((((((((((((.-------------..............)---))))))....(((...........))).-)))))).))))))))).).))).. ( -37.36)
>DroSec_CAF1 47060 99 + 1
UUUGAGCGGAAGCGGAAAUGCCGGCCAUCGCA-------------AAAAGUAAACCAGCG---UGAUGGAAGAGGCCAGCGUGUUUUGCCA-CUGGCGAUUUCGCUUCGGCCUCGU
...((((.(((((((((.(((((((((((((.-------------..............)---))))))....(((...........))).-)))))).))))))))).).))).. ( -39.76)
>DroSim_CAF1 47208 99 + 1
UUUGAGCGGAAGCGGAAAUACCGGCCAUCGCA-------------AAAAGUAAACCAGCG---UGAUGGAAGAGGCCAGCGUGUUUUGCCA-CUGGCGAUUUCGCUUCGGCCUCGU
.....((....))((.....))..(((((((.-------------..............)---))))))..((((((((((....(((((.-..)))))...))))..)))))).. ( -37.06)
>DroEre_CAF1 47399 99 + 1
UUUGAGCGGAAGCGGAAAUGCCGGCCAUCGCA-------------AAAAGUAAACCAGCG---UGAUGGAAGAGGCCAGCGUGUUUUGCCG-CUGGCGAUUUCGUUUCGGCCUCGU
...((((.(((((((((....(..(((((((.-------------..............)---))))))..)..(((((((.(.....)))-)))))..))))))))).).))).. ( -39.46)
>DroYak_CAF1 46212 99 + 1
UUUGAGCGGAAGCGGAAAUGCCGGCCAUCGCA-------------AAAAGUAAACCAGCG---UGAUGGAAGAGGCCAGCGUGUUUUGCCA-CUGGCGAUUUCGUUUCGGCCUCGU
...((((.(((((((((.(((((((((((((.-------------..............)---))))))....(((...........))).-)))))).))))))))).).))).. ( -37.36)
>DroAna_CAF1 45052 116 + 1
UUUCAACGGAAACGGAAAUGCCGGCAGUCGCAACGGCAAACUGAAAAAAGUAAACCAACACGAUGAUGAAAGAGGCCAGCAUGUUUUGCCUUUUGGCCAUUUCGUUUCAACCUCGA
(((((.((....))....(((((((....))..)))))...)))))...............((.(((((((..((((((((.....)))....))))).)))))))))........ ( -31.40)
>consensus
UUUGAGCGGAAGCGGAAAUGCCGGCCAUCGCA_____________AAAAGUAAACCAGCG___UGAUGGAAGAGGCCAGCGUGUUUUGCCA_CUGGCGAUUUCGUUUCGGCCUCGU
..(((((.(((((((((((((.((((.((((..................))...(((.........)))..)))))).))))...(((((....)))))))))))))).).)))). (-29.97 = -30.64 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:15 2006