Locus 10030

Sequence ID	3R_DroMel_CAF1
Location	26,850,500 – 26,850,602
Length	102
Max. P	0.913582

overview

Window 8

Location	26,850,500 – 26,850,602
Length	102
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	74.40
Mean single sequence MFE	-23.73
Consensus MFE	-7.26
Energy contribution	-9.06
Covariance contribution	1.80
Combinations/Pair	1.20
Mean z-score	-2.02
Structure conservation index	0.31
SVM decision value	1.09
SVM RNA-class probability	0.913582
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26850500 102 + 27905053
GUAAAGUUGGGUAGUUAGAGAGACGUGGUUGUGUAAAA-CAUACUUACUAAUACCACCGGCUACUUUAACUACU---UCUAAGCCCAAAACUUGUAUAGUUUUGUU
.....(((.(((((((((((((..(((((...((((..-.....))))....)))))...)).)))))))))))---....))).(((((((.....))))))).. ( -28.10)
>DroSec_CAF1 58648 101 + 1
GUAAGGUUGGGGAGUUAGAGAGACGUGGUUUUGUAAAA-CAUUUUUACUAAAACCACCGGUUACUUUAA-UACU---UCGGAGCCCAAAGCUUGUAUAGUUUUGUU
....((((((((.(((((((.((((((((((((((((.-....))))).))))))))..))).))))))-).))---)))..)))(((((((.....))))))).. ( -30.60)
>DroSim_CAF1 59676 101 + 1
GUAAGGUUGGGGAGUUAGAGAGACGUGGUUUUGUAAAA-CAUUUUUACUAAAACCACCGGUAACUUUAA-UACU---UCUGAGCCCAAAGCUUGUAUAGUUUUGUU
....((((.(((((((((((..(((((((((((((((.-....))))).))))))))..))..))))).-.)))---))).))))(((((((.....))))))).. ( -32.80)
>DroEre_CAF1 64207 102 + 1
GAAAAGUUUCAGAGUUACAUAGCAGUGAUUUUGUUAAA----CUAGGAUAAGACCAACACAAAACCCUACUACUUAUUCUAAACACAAAGCUUGUGUAUUUUUGUU
.....(((((((((((((......)))))))))..)))----)(((((((((....................))))))))).(((((.....)))))......... ( -18.35)
>DroYak_CAF1 70745 103 + 1
GAAAAGUUAGAGAGCUGCAUAGUAGUGAUUUUAUAACAAUUUCUUUACUAAUACCACCAAAUAUUUUAACAACU---UUUAAACACAAAACUUGUAUACUUUUGUU
.((((((..(((.......((((((.((..((.....))..)).))))))..............(((((.....---.))))).......)))....))))))... (  -8.80)
>consensus
GUAAAGUUGGGGAGUUAGAGAGACGUGGUUUUGUAAAA_CAUCUUUACUAAAACCACCGGAUACUUUAACUACU___UCUAAGCCCAAAGCUUGUAUAGUUUUGUU
........................(((((((((((((......))))).))))))))............................(((((((.....))))))).. ( -7.26 =  -9.06 +   1.80)

alignment

secondary structure

dotplot

Window 9

Location	26,850,500 – 26,850,602
Length	102
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	74.40
Mean single sequence MFE	-19.80
Consensus MFE	-4.10
Energy contribution	-4.94
Covariance contribution	0.84
Combinations/Pair	1.31
Mean z-score	-1.64
Structure conservation index	0.21
SVM decision value	0.27
SVM RNA-class probability	0.660797
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26850500 102 - 27905053
AACAAAACUAUACAAGUUUUGGGCUUAGA---AGUAGUUAAAGUAGCCGGUGGUAUUAGUAAGUAUG-UUUUACACAACCACGUCUCUCUAACUACCCAACUUUAC
..(((((((.....)))))))........---.(((((((.((..((..(((((....(((((....-.)))))...)))))))..)).))))))).......... ( -23.10)
>DroSec_CAF1 58648 101 - 1
AACAAAACUAUACAAGCUUUGGGCUCCGA---AGUA-UUAAAGUAACCGGUGGUUUUAGUAAAAAUG-UUUUACAAAACCACGUCUCUCUAACUCCCCAACCUUAC
......(((.((...(((((((...))))---))).-.)).))).....((((((((.(((((....-.)))))))))))))........................ ( -19.00)
>DroSim_CAF1 59676 101 - 1
AACAAAACUAUACAAGCUUUGGGCUCAGA---AGUA-UUAAAGUUACCGGUGGUUUUAGUAAAAAUG-UUUUACAAAACCACGUCUCUCUAACUCCCCAACCUUAC
.............(((..(((((...(((---.(((-.......)))..((((((((.(((((....-.))))))))))))).....))).....))))).))).. ( -18.60)
>DroEre_CAF1 64207 102 - 1
AACAAAAAUACACAAGCUUUGUGUUUAGAAUAAGUAGUAGGGUUUUGUGUUGGUCUUAUCCUAG----UUUAACAAAAUCACUGCUAUGUAACUCUGAAACUUUUC
.........(((((.....)))))(((((....(((((((((((((((...((......))...----....)))))))).))))))).....)))))........ ( -23.00)
>DroYak_CAF1 70745 103 - 1
AACAAAAGUAUACAAGUUUUGUGUUUAAA---AGUUGUUAAAAUAUUUGGUGGUAUUAGUAAAGAAAUUGUUAUAAAAUCACUACUAUGCAGCUCUCUAACUUUUC
.((((((.(.....).))))))(((....---((((((....(((..(((((((.(((...((....))....))).))))))).)))))))))....)))..... ( -15.30)
>consensus
AACAAAACUAUACAAGCUUUGGGCUUAGA___AGUAGUUAAAGUAACCGGUGGUAUUAGUAAAAAUG_UUUUACAAAACCACGUCUCUCUAACUCCCCAACUUUAC
.............((((.....)))).......................(((((.((.(((((......))))))).)))))........................ ( -4.10 =  -4.94 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:47:20 2006