Locus 8327

Sequence ID	3L_DroMel_CAF1
Location	21,808,245 – 21,808,346
Length	101
Max. P	0.982886

overview

Window 6

Location	21,808,245 – 21,808,346
Length	101
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	87.99
Mean single sequence MFE	-21.86
Consensus MFE	-19.14
Energy contribution	-19.38
Covariance contribution	0.24
Combinations/Pair	1.06
Mean z-score	-1.87
Structure conservation index	0.88
SVM decision value	1.49
SVM RNA-class probability	0.958128
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21808245 101 + 23771897
UGCACCCAUACAUAGACCCUGGAAUAUACAACCAUUUACGUACAUGUGUGCGUUAA--AACACCUAGCUGCGAGUCACAGCGCAGCAAAGUAUGCAACACAAA
......(((((.(((....(((.........)))(((((((((....))))).)))--)....)))((((((........))))))...)))))......... ( -23.20)
>DroSec_CAF1 28350 103 + 1
UGCACCCAUACAUAAACCCUGAAACAUACAACCAUUUACGUACAUGUGUGCGUUAAAAAACACCUCGCUGCGAGUCGGAGCGCAGCAAAGUAUGCAACACAAA
........................(((((.....(((((((((....))))).)))).........((((((........))))))...)))))......... ( -22.40)
>DroSim_CAF1 33724 103 + 1
UGCACCCAUACAUAAACCCUGAAACAUACAACCAUUUACGUACAUGUGUGCGUUAAAAAACACCUCGCUGCGAGUCGUAGCGCAGCAAAGUAUGCAACACAAA
........................(((((.....(((((((((....))))).)))).........((((((........))))))...)))))......... ( -22.40)
>DroEre_CAF1 35440 101 + 1
UACACUCAUACAUAAACCCUUAAAUAUACAACCAUUUACGUACAUGUGUGCGUUGA--AACAGCCCGCUGCGAGUCUGAGCGCAGCAAAGUAUGCAACAAAAU
......(((((.......................((.((((((....)))))).))--........((((((........))))))...)))))......... ( -22.30)
>DroYak_CAF1 44607 101 + 1
UACACUCAUACACAAACCCUUAACUAUACCACCAUUUUCGUACAUGUGUGUGUUAA--AACACCUCGCUGGGAGUCUGAGCGCAGCGAAGUAUGCAAAAAUAU
..................................(((((((((....((((.....--.)))).((((((.(........).)))))).))))).)))).... ( -19.00)
>consensus
UGCACCCAUACAUAAACCCUGAAAUAUACAACCAUUUACGUACAUGUGUGCGUUAA__AACACCUCGCUGCGAGUCGGAGCGCAGCAAAGUAUGCAACACAAA
......(((((..........................((((((....)))))).............((((((........))))))...)))))......... (-19.14 = -19.38 +   0.24)

alignment

secondary structure

dotplot

Window 7

Location	21,808,245 – 21,808,346
Length	101
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	87.99
Mean single sequence MFE	-30.98
Consensus MFE	-27.09
Energy contribution	-27.45
Covariance contribution	0.36
Combinations/Pair	1.16
Mean z-score	-2.05
Structure conservation index	0.87
SVM decision value	1.93
SVM RNA-class probability	0.982886
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21808245 101 - 23771897
UUUGUGUUGCAUACUUUGCUGCGCUGUGACUCGCAGCUAGGUGUU--UUAACGCACACAUGUACGUAAAUGGUUGUAUAUUCCAGGGUCUAUGUAUGGGUGCA
..(((((((.((((((.((((((........)))))).)))))).--.)))))))(((..(((((((..(((.........))).....)))))))..))).. ( -30.50)
>DroSec_CAF1 28350 103 - 1
UUUGUGUUGCAUACUUUGCUGCGCUCCGACUCGCAGCGAGGUGUUUUUUAACGCACACAUGUACGUAAAUGGUUGUAUGUUUCAGGGUUUAUGUAUGGGUGCA
..(((((((.(((((((((((((........)))))))))))))....)))))))(((..((((((((((..(((.......))).))))))))))..))).. ( -34.60)
>DroSim_CAF1 33724 103 - 1
UUUGUGUUGCAUACUUUGCUGCGCUACGACUCGCAGCGAGGUGUUUUUUAACGCACACAUGUACGUAAAUGGUUGUAUGUUUCAGGGUUUAUGUAUGGGUGCA
..(((((((.(((((((((((((........)))))))))))))....)))))))(((..((((((((((..(((.......))).))))))))))..))).. ( -34.60)
>DroEre_CAF1 35440 101 - 1
AUUUUGUUGCAUACUUUGCUGCGCUCAGACUCGCAGCGGGCUGUU--UCAACGCACACAUGUACGUAAAUGGUUGUAUAUUUAAGGGUUUAUGUAUGAGUGUA
.....((((.(((.(((((((((........))))))))).))).--.))))..((((.(((((((((((..(((......)))..))))))))))).)))). ( -29.30)
>DroYak_CAF1 44607 101 - 1
AUAUUUUUGCAUACUUCGCUGCGCUCAGACUCCCAGCGAGGUGUU--UUAACACACACAUGUACGAAAAUGGUGGUAUAGUUAAGGGUUUGUGUAUGAGUGUA
((((((.((((((((((((((.(........).))))))))).((--(((((.(((.(((........)))))).....)))))))....))))).)))))). ( -25.90)
>consensus
UUUGUGUUGCAUACUUUGCUGCGCUCAGACUCGCAGCGAGGUGUU__UUAACGCACACAUGUACGUAAAUGGUUGUAUAUUUCAGGGUUUAUGUAUGGGUGCA
.....((((.(((((((((((((........)))))))))))))....))))((((...(((((((((((................))))))))))).)))). (-27.09 = -27.45 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:40 2006