Locus 9738

Sequence ID 3R_DroMel_CAF1
Location 25,764,123 – 25,764,240
Length 117
Max. P 0.641476
window15556

overview

Window 6

Location 25,764,123 – 25,764,240
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -39.78
Consensus MFE -25.07
Energy contribution -23.27
Covariance contribution -1.80
Combinations/Pair 1.41
Mean z-score -1.67
Structure conservation index 0.63
SVM decision value 0.22
SVM RNA-class probability 0.641476
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25764123 117 - 27905053
UCAGAAUUGACGUUGACAUUGGCUACAAUGUGGGCCAGAUCACAAAGAUCUUGGCCACUGAAACUCGAAAUUAACGGCACCAAGCGCUUUGCGAUGAUUAGCUCGCGCUUUGAGAAC
((((...........((((((....)))))).(((((((((.....)))).))))).))))..((((((......(....)..((((...((........))..))))))))))... ( -37.40)
>DroPse_CAF1 17232 117 - 1
UCCGAACUGGCAGUGGAUUGCGCCACAAAAUGGGACACAGCACAGAGCUCUGUGCCGUUGAAGCUCGCUAUCAGCGGAAUGAUGCGCUUGGCGAGGGUCAGCUCGCGCUUCGAGAAC
(((((...(((.((((......)))).....(.((....((((((....)))))).(((((..(((((((..((((........)))))))))))..))))))).))))))).)).. ( -43.70)
>DroSim_CAF1 6598 117 - 1
UCAGAAUUGACGUUGACAUUGGCCACAAUGUGGGCCAGAUCACAAAGAUCUUGGCCACUGAAACUCGAAAUCAACGGCACCAAGCGCUUUGCGACGAUUAGCUCGCGCUUUGAGAAC
((((...........((((((....)))))).(((((((((.....)))).))))).))))..((((((......(....)..((((...((........))..))))))))))... ( -37.40)
>DroEre_CAF1 8146 117 - 1
UCCGAAUUGAUGUUGGCAUUGGCCACAAGGUGGGCCAGAUCGCAAAGAUCUUGGCUAUUAAAACUCGAAAUCAGCGGGACCAAGCGCCUUGCGACUAUUAGCUCGCGCUUUGAGAAC
.(((..(((....((((....)))))))..)))((((((((.....)))).))))........((((((....(((((....(((((...))).)).....)))))..))))))... ( -35.90)
>DroYak_CAF1 6596 117 - 1
UCCGAAUUGGCGUUGACAUUGGCCACAAUGUGGGCCAGUUCGCAAAGAUCUGGCCCAUUAAAACUCGAAAUCAGCGGUAUCAAGCGCUUUGCGACGAUUAGCUCGCGCUUUGAGAAC
.......((.(((((((((((....)))))((((((((.((.....)).)))))))).............)))))).))((((((((...((........))..)))).)))).... ( -41.90)
>DroPer_CAF1 20741 117 - 1
UCCGAACUGGCAGUGGAUUGCGCCACAAAAUGGGACACAGCACAGAGCUCUGUGCCGUUGAAGCUCGCUAUCAGCGGAAUGAUGCGCUUGGCGAGGAUCAGCUCGCGCUUCGAGAAC
(((((...(((.((((......)))).....(.((....((((((....)))))).(((((..(((((((..((((........)))))))))))..))))))).))))))).)).. ( -42.40)
>consensus
UCCGAAUUGACGUUGACAUUGGCCACAAUGUGGGCCAGAUCACAAAGAUCUGGGCCAUUGAAACUCGAAAUCAGCGGAACCAAGCGCUUUGCGACGAUUAGCUCGCGCUUUGAGAAC
.(((..((((..((((.((((....))))((((.(.(((((.....))))).).))))......))))..)))))))..(.((((((...((........))..)))))).)..... (-25.07 = -23.27 +  -1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:41:03 2006