Locus 6297

Sequence ID 3R_DroMel_CAF1
Location 16,440,490 – 16,440,648
Length 158
Max. P 0.764858
window10273 window10274

overview

Window 3

Location 16,440,490 – 16,440,609
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 81.83
Mean single sequence MFE -38.58
Consensus MFE -29.81
Energy contribution -29.32
Covariance contribution -0.50
Combinations/Pair 1.21
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.51
SVM RNA-class probability 0.764858
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16440490 119 + 27905053
AAUUGAGUACAUCACACUCCUCACCUGGUUUUCCGGCGUCAGGGUCUCGAUGAGUACAGGUAACUGGUGAAGCAAAUACUGCCAGUUACUACUGAAGUUUAGAAACACGGUGAGAAACU
....((((.......))))((((((..(((((..(((.((((.(((((...))).)).((((((((((............)))))))))).)))).)))..)))))..))))))..... ( -37.30)
>DroPse_CAF1 37837 112 + 1
AAUGGAUCAAAU-------CCCACCUGGUUCUCUGGCGUCAGAGUCUCGAUGAGCACGGGCAGCUGGUGGAGAAGGUGCUGCCAGUUGCUGCUGAAGUUGAGGAAGAGCGUGAGGUAGU
............-------(((((((..(((((.(((.((((.(((((...))).)).(((((((((..(........)..))))))))).)))).))))))))..)).))).)).... ( -39.00)
>DroSec_CAF1 36417 119 + 1
AAUUGAGUACACCACACUCCUCACCUGGUUUUCCGGCGUCAGGGUCUCAAUGAGUACAGGUAGCUGGUGAAGCAGAUACUGCCAGUUGCUGCUGAAGUUUAGGAACACGGUGAGGAACU
.................((((((((..((.((((.((.((((.(((((...))).)).((((((((((............)))))))))).)))).))...)))).))))))))))... ( -39.60)
>DroSim_CAF1 36912 119 + 1
AAUUGAGUACACCACACUCCUCACCUGGUUUUCCGGCGUCAGGGUCUCAAUGAGUACAGGUAACUGGUGAAGCAAAUACUGCCAGUUGCUGCUGAAGUUUAGGAACACGGUGAGGAACU
.................((((((((..((.((((.((.((((.(((((...))).)).((((((((((............)))))))))).)))).))...)))).))))))))))... ( -39.60)
>DroEre_CAF1 41284 119 + 1
CAUUGAAUAUACCACUCUCCUUACCUGGUUUUCCGGCGUUAAUGUCUCUAUGAGUACAGGUAACUGGUGAAGAAGAUACUGCCAGUUACUGCUGAAGUUUAGGAAAACGGUGAGGAACU
.................((((((((..(((((((.((.....((((((...))).)))((((((((((............))))))))))......))...)))))))))))))))... ( -36.80)
>DroPer_CAF1 37710 112 + 1
AAUGGAUCGAAU-------CCCACCUGGUUCUCUGGCGUCAGGGUCUCAAUGAGCACGGGCAGCUGGUGGAGAAGGUGCUGCCAGUUGCUGCUGAAGUUGAGGAAGAGCGUGAGGUAGU
............-------(((((((..(((((.(((.(((((.((.....)).)...(((((((((..(........)..))))))))).)))).))))))))..)).))).)).... ( -39.20)
>consensus
AAUUGAGUACACCACACUCCUCACCUGGUUUUCCGGCGUCAGGGUCUCAAUGAGUACAGGUAACUGGUGAAGAAGAUACUGCCAGUUGCUGCUGAAGUUUAGGAACACGGUGAGGAACU
...................((((((...((((..(((.((((.(((((...))).)).((((((((((..((......)))))))))))).)))).)))..))))...))))))..... (-29.81 = -29.32 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,440,529 – 16,440,648
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.42
Mean single sequence MFE -41.37
Consensus MFE -19.02
Energy contribution -17.72
Covariance contribution -1.30
Combinations/Pair 1.48
Mean z-score -1.93
Structure conservation index 0.46
SVM decision value 0.27
SVM RNA-class probability 0.662955
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16440529 119 + 27905053
CAGGGUCUCGAUGAGUACAGGUAACUGGUGAAGCAAAUACUGCCAGUUACUACUGAAGUUUAGAAACACGGUGAGAAACUCGGCGUUGUGCCGUUGGUUGGCCAGGUCAAUGAGA-CGCU
.((.((((((.(((.....((((((((((............)))))))))).(((..........(((((.((((...)))).)).)))((((.....))))))).))).)))))-).)) ( -40.00)
>DroPse_CAF1 37869 119 + 1
CAGAGUCUCGAUGAGCACGGGCAGCUGGUGGAGAAGGUGCUGCCAGUUGCUGCUGAAGUUGAGGAAGAGCGUGAGGUAGUUAUCGUUGGCCUGCUGGCCGGCCAGAUCUAUUAUC-CGCU
.....(((((((...((..(((((((((..(........)..)))))))))..))..)))))))...((((.(((((((.....(((((((....))))))).....))))).))-)))) ( -48.60)
>DroGri_CAF1 44634 119 + 1
UAGUGUCUCGAUGAGCACGGGCAACUGAUGCAGCAGGAACUGAUAGUUGCUGCUAAAGUUUAGAUACAGAUUGAUGUAGUUGUCAUUAGCCUGCUGAUUGGCCACAUCUAUAAGC-UGCU
..((((((.(((..((((((....))).)))(((((.(((.....))).)))))...))).)))))).....(((((....((((((((....)))).)))).))))).......-.... ( -36.50)
>DroYak_CAF1 40557 119 + 1
UAGGGUCUCAAUGAGUACAGGUAACUGGUGAAAAAAAAACUGCCAGUUACUGCUAAAGUUUAGGAAAACGGUGAGAAACUCGUCGUUGUGCCGCUGGUUGGCCAGAUCAAUGAGU-CGCU
.((.(.((((.(((((((.((((((((((............))))))))))...............((((..(((...)))..))))))))..((((....)))).))).)))).-).)) ( -39.20)
>DroAna_CAF1 30448 119 + 1
UAGGGUUUCUAUGAGCACUGGUAGUUGAUGGAGCAGGAACUGCCAGUUGCUGCUAAAGUUCAAGUACACUGUAAAGAACUCAUCAUUGUCCUGCUGGGUAACCAGAUCUAUGAGC-CGCU
...(((((.((.((...(((((...(((((.(((((.(((.....))).)))))..(((((...(((...)))..)))))))))).(..((....))..)))))).)))).))))-)... ( -34.10)
>DroPer_CAF1 37742 120 + 1
CAGGGUCUCAAUGAGCACGGGCAGCUGGUGGAGAAGGUGCUGCCAGUUGCUGCUGAAGUUGAGGAAGAGCGUGAGGUAGUUAUCGUUGGCCUGCUGGCCGGCCAGAUCUAUUAUCCCGCU
.....(((((((...((..(((((((((..(........)..)))))))))..))..)))))))...((((.(.((((((.((((((((((....)))))))..)))..))))))))))) ( -49.80)
>consensus
CAGGGUCUCGAUGAGCACGGGCAACUGGUGGAGAAGGAACUGCCAGUUGCUGCUAAAGUUUAGGAACACCGUGAGGAACUCAUCGUUGGCCUGCUGGUUGGCCAGAUCUAUGAGC_CGCU
.....(((.(((.(((...((((((((((............)))))))))))))...))).))).............................((((....))))............... (-19.02 = -17.72 +  -1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:03 2006