Locus 6100

Sequence ID	3R_DroMel_CAF1
Location	15,997,225 – 15,997,336
Length	111
Max. P	0.744738

overview

Window 6

Location	15,997,225 – 15,997,336
Length	111
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	84.71
Mean single sequence MFE	-35.38
Consensus MFE	-22.18
Energy contribution	-23.34
Covariance contribution	1.16
Combinations/Pair	1.12
Mean z-score	-2.29
Structure conservation index	0.63
SVM decision value	0.46
SVM RNA-class probability	0.744738
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15997225 111 + 27905053
AGCAAACAAAAAGAGACCGUCUGAUUGUCAGCC-CCCUUGUGUUUGGGCAAAAUGCUCGUUUC------ACUUGGUUAAUAUUGGCCAGCAUCCGCCAAUUGGCAGCUGGCCAAAUGA
.((..((((..(((.....)))..))))..)).-.((..(((..(((((.....)))))...)------))..))......(((((((((....(((....))).))))))))).... ( -38.10)
>DroSim_CAF1 91438 111 + 1
AGCAAACAAAAAGUGACCAUCUGAUUGUCAGCC-CCCUUGUGUUUGGGCAAAAAGCUCGUUUC------ACUUGGUUAAUGUUGGCCAGCAUCCGCCAAUUGGCAGCUGGCCAAAUGA
.((..((((..((.......))..))))..)).-.((..(((..(((((.....)))))...)------))..))......(((((((((....(((....))).))))))))).... ( -36.30)
>DroEre_CAF1 89926 110 + 1
AGCAAACAAAAAGAGACCAUCUGAUUGUCAGCC-CCCUUGUGUUUGGGCAAAAUGCUCGUUUC------ACUUGGUUAAUGUUGGCCAGCAUCCGCCAAUUGGCAGCUGGCCA-AUGA
.((..((((..(((.....)))..))))..)).-.((..(((..(((((.....)))))...)------))..)).....((((((((((....(((....))).))))))))-)).. ( -40.20)
>DroYak_CAF1 122906 102 + 1
AGCAAACAAAAAGAGACCAUCUGAUUGUCA-CC-CCCUUGUGUUUG--------GCUCGUCUC------ACUUGGUUAAUGUUGGCCAGCAUCCGCCAAUUGGCAGCUGGCCAAAUGA
....(((.....(((((...(..(....((-(.-.....))).)..--------)...)))))------.....)))....(((((((((....(((....))).))))))))).... ( -30.60)
>DroAna_CAF1 81924 112 + 1
A-CGAACAAAAAA-----AUUUGAUUGUCAGCCGCCCCUGUGUUUGGGCAAAAGUUUCAUCCCGUUGGCCUUUGGUUAAUGUUGGUCGGCAUCCGCCAAUUGGCAGGAGUCCAAAUGA
.-...........-----(((((..((((.(((((((........)))).............((((((((...))))))))..))).))))((((((....))).)))...))))).. ( -31.70)
>consensus
AGCAAACAAAAAGAGACCAUCUGAUUGUCAGCC_CCCUUGUGUUUGGGCAAAAUGCUCGUUUC______ACUUGGUUAAUGUUGGCCAGCAUCCGCCAAUUGGCAGCUGGCCAAAUGA
..((((((....(((.....(((.....))).....))).))))))...................................(((((((((....(((....))).))))))))).... (-22.18 = -23.34 +   1.16)

alignment

secondary structure

dotplot

Window 7

Location	15,997,225 – 15,997,336
Length	111
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	84.71
Mean single sequence MFE	-34.49
Consensus MFE	-23.22
Energy contribution	-24.70
Covariance contribution	1.48
Combinations/Pair	1.07
Mean z-score	-1.87
Structure conservation index	0.67
SVM decision value	0.22
SVM RNA-class probability	0.638548
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15997225 111 - 27905053
UCAUUUGGCCAGCUGCCAAUUGGCGGAUGCUGGCCAAUAUUAACCAAGU------GAAACGAGCAUUUUGCCCAAACACAAGGG-GGCUGACAAUCAGACGGUCUCUUUUUGUUUGCU
....(((((((((((((....))))...)))))))))..........(.------.(((......)))..).((((((.(((((-(((((.(.....).)))))))))).)))))).. ( -39.90)
>DroSim_CAF1 91438 111 - 1
UCAUUUGGCCAGCUGCCAAUUGGCGGAUGCUGGCCAACAUUAACCAAGU------GAAACGAGCUUUUUGCCCAAACACAAGGG-GGCUGACAAUCAGAUGGUCACUUUUUGUUUGCU
....(((((((((((((....))))...))))))))).......((((.------.(((.(........((((...(....).)-)))((((.........))))).)))..)))).. ( -34.30)
>DroEre_CAF1 89926 110 - 1
UCAU-UGGCCAGCUGCCAAUUGGCGGAUGCUGGCCAACAUUAACCAAGU------GAAACGAGCAUUUUGCCCAAACACAAGGG-GGCUGACAAUCAGAUGGUCUCUUUUUGUUUGCU
...(-((((((((((((....))))...)))))))))..........(.------.(((......)))..).((((((.(((((-(((((.(.....).)))))))))).)))))).. ( -37.90)
>DroYak_CAF1 122906 102 - 1
UCAUUUGGCCAGCUGCCAAUUGGCGGAUGCUGGCCAACAUUAACCAAGU------GAGACGAGC--------CAAACACAAGGG-GG-UGACAAUCAGAUGGUCUCUUUUUGUUUGCU
....(((((((((((((....))))...))))))))).......((((.------.(((.((((--------((..........-(.-...).......))).))).)))..)))).. ( -34.13)
>DroAna_CAF1 81924 112 - 1
UCAUUUGGACUCCUGCCAAUUGGCGGAUGCCGACCAACAUUAACCAAAGGCCAACGGGAUGAAACUUUUGCCCAAACACAGGGGCGGCUGACAAUCAAAU-----UUUUUUGUUCG-U
((((((.(....(((((....)))))..(((.................)))...).))))))......(((((........)))))((.(((((......-----....))))).)-) ( -26.23)
>consensus
UCAUUUGGCCAGCUGCCAAUUGGCGGAUGCUGGCCAACAUUAACCAAGU______GAAACGAGCAUUUUGCCCAAACACAAGGG_GGCUGACAAUCAGAUGGUCUCUUUUUGUUUGCU
....(((((((((((((....))))...)))))))))...................................((((((.(((((...(((.....)))......))))).)))))).. (-23.22 = -24.70 +   1.48)

alignment

secondary structure

dotplot

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