Locus 3662

Sequence ID	2L_DroMel_CAF1
Location	10,643,983 – 10,644,096
Length	113
Max. P	0.995113

overview

Window 0

Location	10,643,983 – 10,644,096
Length	113
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	75.09
Mean single sequence MFE	-28.42
Consensus MFE	-17.24
Energy contribution	-18.76
Covariance contribution	1.52
Combinations/Pair	1.16
Mean z-score	-1.53
Structure conservation index	0.61
SVM decision value	0.01
SVM RNA-class probability	0.540270
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10643983 113 + 22407834
A---AGGGAACGAAAUGGCGAUCGCAUUUAAUAUUGCGAUCUAUGCAAUAAUUUUAGUGGGUAGUUUGGUACCCAGCAAGACUCA--GGAAUGGGUUCCAUAUGCAUAUCCUGUAGAU
.---.((((..........(((((((........)))))))((((((..........((((((......))))))....((((((--....)))))).....))))))))))...... ( -33.40)
>DroSec_CAF1 24094 113 + 1
A---AGGGAACGAAAUGGCGAUCGCAUUUAAUAUUGCGAUCUGUUCAAUAUUUUUACUGGGUAUUGUGGUAGCCACCAAGACUCA--GAAAUGGGUUCCAUAUGCAGAUUCUCUAGAU
.---(((((((....(((((((((((........)))))))....((((((((.....)))))))).....))))....((((((--....)))))).........).)))))).... ( -32.70)
>DroSim_CAF1 24726 113 + 1
A---AGGGAACGAAAUGGCGAUCGCAUUUAAUAUUGCGAUCUGUUCAAUAUUUUUAAUGGGUAUUGUGGUAGCCACCAAGACUCG--GAAAUGGGUUCCAUAUGCAGAUACUCUAGAU
.---..(((((....(((((((((((........)))))))....((((((((.....)))))))).....))))(((.......--....))))))))................... ( -29.40)
>DroEre_CAF1 24406 91 + 1
A---AAGUAACGGAAUGGCGAUCGCAUUUAAAUUGGCGAUCUGUGCAAUCAUUUUACUCGGUAAUGUCUUACCCAGCAAGACUCAACGGCA---GUU---------------------
.---.(((((..((.((((((((((..........)))))).)).)).))...)))))((.....(((((.......)))))....))...---...--------------------- ( -17.40)
>DroYak_CAF1 24496 110 + 1
AAACAAGAAGCGGAAUGGCGAUCGCAUUUAAUUUGGCGAUCUGUUCAAUAAUUUUACUCGGUACUGUGGUACCCAGUAAGCCUCA--GAUA---GUUCCUU---UACUUCCUAUAGUU
......((((.((((((((((((((..........))))))............(((((.(((((....))))).))))))))...--....---)))))..---..))))........ ( -29.21)
>consensus
A___AGGGAACGAAAUGGCGAUCGCAUUUAAUAUUGCGAUCUGUUCAAUAAUUUUACUGGGUAUUGUGGUACCCAGCAAGACUCA__GAAAUGGGUUCCAUAUGCAGAUCCUCUAGAU
......(((((........(((((((........)))))))................(((((((....)))))))...................)))))................... (-17.24 = -18.76 +   1.52)

alignment

secondary structure

dotplot

Window 1

Location	10,643,983 – 10,644,096
Length	113
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	75.09
Mean single sequence MFE	-27.04
Consensus MFE	-18.38
Energy contribution	-20.14
Covariance contribution	1.76
Combinations/Pair	1.14
Mean z-score	-2.36
Structure conservation index	0.68
SVM decision value	2.54
SVM RNA-class probability	0.995113
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10643983 113 - 22407834
AUCUACAGGAUAUGCAUAUGGAACCCAUUCC--UGAGUCUUGCUGGGUACCAAACUACCCACUAAAAUUAUUGCAUAGAUCGCAAUAUUAAAUGCGAUCGCCAUUUCGUUCCCU---U
.......(((((((((...((((....))))--..(((.(((.((((((......)))))).))).)))..))))))(((((((........)))))))..........)))..---. ( -29.50)
>DroSec_CAF1 24094 113 - 1
AUCUAGAGAAUCUGCAUAUGGAACCCAUUUC--UGAGUCUUGGUGGCUACCACAAUACCCAGUAAAAAUAUUGAACAGAUCGCAAUAUUAAAUGCGAUCGCCAUUUCGUUCCCU---U
.....((((.((.....((((...))))...--.)).))))((((((............(((((....)))))....(((((((........))))))))))))).........---. ( -24.90)
>DroSim_CAF1 24726 113 - 1
AUCUAGAGUAUCUGCAUAUGGAACCCAUUUC--CGAGUCUUGGUGGCUACCACAAUACCCAUUAAAAAUAUUGAACAGAUCGCAAUAUUAAAUGCGAUCGCCAUUUCGUUCCCU---U
...................((((((((....--.......)))((((.....(((((...........)))))....(((((((........)))))))))))....)))))..---. ( -23.80)
>DroEre_CAF1 24406 91 - 1
---------------------AAC---UGCCGUUGAGUCUUGCUGGGUAAGACAUUACCGAGUAAAAUGAUUGCACAGAUCGCCAAUUUAAAUGCGAUCGCCAUUCCGUUACUU---U
---------------------(((---(((.(((..((.(((((.(((((....))))).))))).))))).)))..((((((..........))))))........)))....---. ( -21.90)
>DroYak_CAF1 24496 110 - 1
AACUAUAGGAAGUA---AAGGAAC---UAUC--UGAGGCUUACUGGGUACCACAGUACCGAGUAAAAUUAUUGAACAGAUCGCCAAAUUAAAUGCGAUCGCCAUUCCGCUUCUUGUUU
....(((((((((.---..(((((---....--.).((((((((.(((((....))))).)))))............((((((..........))))))))).))))))))))))).. ( -35.10)
>consensus
AUCUAGAGGAUCUGCAUAUGGAACCCAUUUC__UGAGUCUUGCUGGGUACCACAAUACCCAGUAAAAUUAUUGAACAGAUCGCAAUAUUAAAUGCGAUCGCCAUUUCGUUCCCU___U
...................(((((...............((((((((((......))))))))))............(((((((........)))))))........)))))...... (-18.38 = -20.14 +   1.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:07 2006