Locus 5483

Sequence ID	2L_DroMel_CAF1
Location	15,648,823 – 15,648,916
Length	93
Max. P	0.973940

overview

Window 0

Location	15,648,823 – 15,648,916
Length	93
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	79.27
Mean single sequence MFE	-27.63
Consensus MFE	-16.31
Energy contribution	-15.61
Covariance contribution	-0.69
Combinations/Pair	1.19
Mean z-score	-2.05
Structure conservation index	0.59
SVM decision value	0.74
SVM RNA-class probability	0.837354
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15648823 93 + 22407834
GAA-UAGG-GGCGAGUUGCAAAACUUUCCGCGCUUUAUGCAAUUUAUUCUUUUCGCUACGACUUAAAUUGCACAAAGCACUG--GAGUUUGCUUGGC
...-...(-((((((((....))).(((((.(((((.(((((((((.((..........))..))))))))).))))).).)--))).))))))... ( -23.90)
>DroPse_CAF1 7261 95 + 1
GCA-GGCG-GGAAAGUUGGGCAAGUUUUCCCGCUUUAUGCAAUUUAUUCUCUUGCUCAAGUCUUAAAUUGCACAAAGCGGAGAAGAGUUUGCUUUAC
...-....-.....((..((((((((((((((((((.(((((((((....(((....)))...))))))))).))))))).))))).))))))..)) ( -33.50)
>DroSim_CAF1 5208 92 + 1
GAA-UGGG-GGCAAGUUGCAAAACUUUCCGCGCUUUAUGCAAUUUAU-CUUUUCGCUACGACUUAAAUUGCACAAAGCACUG--GAGUUUGCUUGGC
...-...(-((((((((....))).(((((.(((((.(((((((((.-....(((...)))..))))))))).))))).).)--))).))))))... ( -24.40)
>DroEre_CAF1 12976 93 + 1
GAA-UGGG-GGCAAGUUUCAAAACUUUUCGCGCUUUAUGCAAUUUAUUCUUUUCGCUACGACCCAAAUUGCACAAAGCUCUG--GAGUUUGCUUGGC
...-....-(.(((((....(((((((..(.(((((.((((((((..((..........))...)))))))).))))).).)--))))))))))).) ( -21.10)
>DroAna_CAF1 9398 94 + 1
GCUGUGGGCGGAGUGUUGGAAAAGUUUCCCCGCUUUAUGCAAUUUAUUCUCUCGGAAAGGACUUAAAUUGCAUAAAGCGAAG--GAGUUUCU-UUGC
.......((((((....((((....)))).((((((((((((((((.(((........)))..))))))))))))))))...--......))-)))) ( -29.40)
>DroPer_CAF1 5043 95 + 1
GCA-GGCG-GGAAAGUUGGGCAAGUUUUCCCGCUUUAUGCAAUUUAUUCUCUUGCUCAAGUCUUAAAUUGCACAAAGCGGAGAAGAGUUUGCUUUAC
...-....-.....((..((((((((((((((((((.(((((((((....(((....)))...))))))))).))))))).))))).))))))..)) ( -33.50)
>consensus
GAA_UGGG_GGAAAGUUGCAAAACUUUCCCCGCUUUAUGCAAUUUAUUCUCUUCGCUACGACUUAAAUUGCACAAAGCGCAG__GAGUUUGCUUGGC
...........(((((.((..........))(((((.(((((((((.................))))))))).)))))............))))).. (-16.31 = -15.61 +  -0.69)

alignment

secondary structure

dotplot

Window 1

Location	15,648,823 – 15,648,916
Length	93
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	79.27
Mean single sequence MFE	-28.53
Consensus MFE	-21.86
Energy contribution	-21.03
Covariance contribution	-0.83
Combinations/Pair	1.29
Mean z-score	-3.59
Structure conservation index	0.77
SVM decision value	1.72
SVM RNA-class probability	0.973940
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15648823 93 - 22407834
GCCAAGCAAACUC--CAGUGCUUUGUGCAAUUUAAGUCGUAGCGAAAAGAAUAAAUUGCAUAAAGCGCGGAAAGUUUUGCAACUCGCC-CCUA-UUC
.....(((((.((--(.(((((((((((((((((..((..........)).))))))))))))))))))))....)))))........-....-... ( -30.10)
>DroPse_CAF1 7261 95 - 1
GUAAAGCAAACUCUUCUCCGCUUUGUGCAAUUUAAGACUUGAGCAAGAGAAUAAAUUGCAUAAAGCGGGAAAACUUGCCCAACUUUCC-CGCC-UGC
.....((((....(((.(((((((((((((((((...(((......)))..))))))))))))))))))))...))))..........-....-... ( -30.00)
>DroSim_CAF1 5208 92 - 1
GCCAAGCAAACUC--CAGUGCUUUGUGCAAUUUAAGUCGUAGCGAAAAG-AUAAAUUGCAUAAAGCGCGGAAAGUUUUGCAACUUGCC-CCCA-UUC
.....(((((.((--(.(((((((((((((((((..(((...)))....-.))))))))))))))))))))....)))))........-....-... ( -30.20)
>DroEre_CAF1 12976 93 - 1
GCCAAGCAAACUC--CAGAGCUUUGUGCAAUUUGGGUCGUAGCGAAAAGAAUAAAUUGCAUAAAGCGCGAAAAGUUUUGAAACUUGCC-CCCA-UUC
.....((((....--(((((((((((((((((((..((..........)).)))))))))))))))((.....))))))....)))).-....-... ( -23.50)
>DroAna_CAF1 9398 94 - 1
GCAA-AGAAACUC--CUUCGCUUUAUGCAAUUUAAGUCCUUUCCGAGAGAAUAAAUUGCAUAAAGCGGGGAAACUUUUCCAACACUCCGCCCACAGC
((..-........--..(((((((((((((((((..(((((...))).)).)))))))))))))))))((((....))))........))....... ( -27.40)
>DroPer_CAF1 5043 95 - 1
GUAAAGCAAACUCUUCUCCGCUUUGUGCAAUUUAAGACUUGAGCAAGAGAAUAAAUUGCAUAAAGCGGGAAAACUUGCCCAACUUUCC-CGCC-UGC
.....((((....(((.(((((((((((((((((...(((......)))..))))))))))))))))))))...))))..........-....-... ( -30.00)
>consensus
GCAAAGCAAACUC__CAGCGCUUUGUGCAAUUUAAGUCGUAGCCAAAAGAAUAAAUUGCAUAAAGCGCGAAAACUUUUCCAACUUGCC_CCCA_UGC
.................(((((((((((((((((.................)))))))))))))))))............................. (-21.86 = -21.03 +  -0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:15 2006