Locus 10198

Sequence ID	3R_DroMel_CAF1
Location	27,363,702 – 27,363,812
Length	110
Max. P	0.875984

overview

Window 9

Location	27,363,702 – 27,363,812
Length	110
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	90.66
Mean single sequence MFE	-30.32
Consensus MFE	-26.19
Energy contribution	-26.65
Covariance contribution	0.46
Combinations/Pair	1.11
Mean z-score	-1.52
Structure conservation index	0.86
SVM decision value	0.18
SVM RNA-class probability	0.622295
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27363702 110 + 27905053
----AUACUCACCAAAAAUGGCCAGGCCAAACCAGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGCCAACUAUCCGUAAAAUUUGGAAGUUGGCUAGAAGGGUCGGGGUUU
----......(((.....(((((.(((...(((((....))).))((.............)).)))((((((((.((((.......)))))))))))).....))))).))).. ( -31.32)
>DroSec_CAF1 109219 110 + 1
----AUACUCACCAAAAAUGGCCAGGCCAAACCAGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGACAACUAUCCGUAACUUUUGGAAGUUGGCUAGAAGGGUCGGGGAUU
----...((((((.....(((((((.(((((..(.((((((((.................))))).((....)).))).)....)))))...)))))))....))).))).... ( -26.43)
>DroSim_CAF1 73400 110 + 1
----AUACUCACCAAAAAUGGCCAGGCCAAACCAGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGCCAACUAUCCGUAACAUUUGGAAGUUGGCUAGAAGGGUCGGGGAUU
----...((((((......(((...((((.(((((....))).))............)).)).)))((((((((.((((.......)))))))))))).....))).))).... ( -31.22)
>DroEre_CAF1 73714 110 + 1
----AUACUCACCAAAAAUGGCCAGGCCAAACCAGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGCCAACUAUCCGUAACAUUUGGAAGUUGGCUAGAAGGGUCGGGGUUU
----......(((.....(((((.(((...(((((....))).))((.............)).)))((((((((.((((.......)))))))))))).....))))).))).. ( -31.32)
>DroYak_CAF1 66584 110 + 1
----AUACUCACCAAAAAUGGCCAGGCCAAACCAGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGCCAACUAUCCGUAACAUUUGGAAGUUGGCUAGAAGGGUCGGGGUUU
----......(((.....(((((.(((...(((((....))).))((.............)).)))((((((((.((((.......)))))))))))).....))))).))).. ( -31.32)
>DroAna_CAF1 78271 99 + 1
AAAGAGACUCACCAAAAAUGGCCAGGCCAAACCUGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGCUAACUAUCC-----------AAGUUGGUG---GGGGAUGGGGUU-
.......((((((((...((((((((.....))))).(((((..(((.............)))..)))))......))-----------)..))))))---))..........- ( -30.32)
>consensus
____AUACUCACCAAAAAUGGCCAGGCCAAACCAGGGAGCUGUGUGUAAAAUUUAAAUGAGCAGCCAGCCAACUAUCCGUAACAUUUGGAAGUUGGCUAGAAGGGUCGGGGUUU
.......(((.(((....)))...((((........(.(((((.................))))))((((((((.((((.......)))))))))))).....))))))).... (-26.19 = -26.65 +   0.46)

alignment

secondary structure

dotplot

Window 0

Location	27,363,702 – 27,363,812
Length	110
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	90.66
Mean single sequence MFE	-28.52
Consensus MFE	-24.67
Energy contribution	-25.69
Covariance contribution	1.03
Combinations/Pair	1.04
Mean z-score	-1.93
Structure conservation index	0.86
SVM decision value	0.89
SVM RNA-class probability	0.875984
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27363702 110 - 27905053
AAACCCCGACCCUUCUAGCCAACUUCCAAAUUUUACGGAUAGUUGGCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCUGGUUUGGCCUGGCCAUUUUUGGUGAGUAU----
....((.((((....((((((((((((.........))).)))))))))((((...................)))).....)))).)).((.((((....)))).))...---- ( -30.81)
>DroSec_CAF1 109219 110 - 1
AAUCCCCGACCCUUCUAGCCAACUUCCAAAAGUUACGGAUAGUUGUCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCUGGUUUGGCCUGGCCAUUUUUGGUGAGUAU----
....((.((((....(((.((((((((.........))).))))).)))((((...................)))).....)))).)).((.((((....)))).))...---- ( -23.71)
>DroSim_CAF1 73400 110 - 1
AAUCCCCGACCCUUCUAGCCAACUUCCAAAUGUUACGGAUAGUUGGCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCUGGUUUGGCCUGGCCAUUUUUGGUGAGUAU----
....((.((((....((((((((((((.........))).)))))))))((((...................)))).....)))).)).((.((((....)))).))...---- ( -30.81)
>DroEre_CAF1 73714 110 - 1
AAACCCCGACCCUUCUAGCCAACUUCCAAAUGUUACGGAUAGUUGGCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCUGGUUUGGCCUGGCCAUUUUUGGUGAGUAU----
....((.((((....((((((((((((.........))).)))))))))((((...................)))).....)))).)).((.((((....)))).))...---- ( -30.81)
>DroYak_CAF1 66584 110 - 1
AAACCCCGACCCUUCUAGCCAACUUCCAAAUGUUACGGAUAGUUGGCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCUGGUUUGGCCUGGCCAUUUUUGGUGAGUAU----
....((.((((....((((((((((((.........))).)))))))))((((...................)))).....)))).)).((.((((....)))).))...---- ( -30.81)
>DroAna_CAF1 78271 99 - 1
-AACCCCAUCCCC---CACCAACUU-----------GGAUAGUUAGCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCAGGUUUGGCCUGGCCAUUUUUGGUGAGUCUCUUU
-............---((((((..(-----------((......(((((..((...............))..))))).(((((.....))))))))...))))))......... ( -24.16)
>consensus
AAACCCCGACCCUUCUAGCCAACUUCCAAAUGUUACGGAUAGUUGGCUGGCUGCUCAUUUAAAUUUUACACACAGCUCCCUGGUUUGGCCUGGCCAUUUUUGGUGAGUAU____
.....((((.((....(((((((((((.........))).))))))))(((((...................)))))....)).)))).((.((((....)))).))....... (-24.67 = -25.69 +   1.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:13 2006