Locus 4625

Sequence ID	3R_DroMel_CAF1
Location	12,169,404 – 12,169,499
Length	95
Max. P	0.867267

overview

Window 2

Location	12,169,404 – 12,169,499
Length	95
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	79.66
Mean single sequence MFE	-27.51
Consensus MFE	-14.70
Energy contribution	-15.20
Covariance contribution	0.50
Combinations/Pair	1.35
Mean z-score	-1.96
Structure conservation index	0.53
SVM decision value	0.14
SVM RNA-class probability	0.602194
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12169404 95 + 27905053
-----------ACUUCAGCCUCAGCUGGCCACUGCGGAUGGCCAGCCAAUCAUGCAGCUGACACCAACAUCAAUUCCGGCUACUCUGCAACUGACACCGCAAACAU
-----------...((((.....(((((((((....).))))))))......(((((......((............)).....))))).))))............ ( -23.70)
>DroPse_CAF1 85174 95 + 1
-----------ACUGCAGCCACAGCUGGCCACCGCCGAUGGUCAGCCAAUCAUGGAGUUGACGCCCACAUCCAUUCCAGCCACACUACAGCUGACGCCGCAGACUU
-----------.((((.((..((((((......((.(((((....)).))).((((((.((........)).)))))))).......))))))..)).)))).... ( -29.32)
>DroGri_CAF1 102961 106 + 1
UUCAAUUUGCAGCUGCAGCCACAAUUGGCCACUGCUGAUGGUCAGCCAAUAAUGCAGUUGACGCCGACUUCCAUUCCAGCCACAUUGCAGUUGACGCCGCAAACUU
.....(((((.((..((((..((((((((....((((.....))))....((((.(((((....)))))..))))...)))).))))..))))..)).)))))... ( -29.70)
>DroEre_CAF1 78804 95 + 1
-----------ACUUCAGCCUCAACUGGCCACUGCCGAUGGCCAGCCAAUCAUGCAGCUGACACCAACAUCAAUUCCGGCUACAUUGCAAUUGACACCGCAGACUC
-----------...(((((..((.(((((((.......))))))).......))..)))))........((((((...((......))))))))............ ( -19.70)
>DroAna_CAF1 76224 95 + 1
-----------GCUGCAGCCACAGUUGGCCACCGCUGAUGGACAGCCGAUAAUGCAGCUGACACCCACUUCAAUACCGGCUACUUUGCAGCUAACUCCGCAAACAU
-----------((((((((((((((.(....).)))).)))..(((((.((.((.((.((.....)))).)).)).)))))...)))))))............... ( -27.70)
>DroPer_CAF1 83174 95 + 1
-----------ACUGCAGCCACAGCUGGCCACCGCCGAUGGUCAGCCAAUCAUGGAGUUGACGCCCACGUCCAUUCCAGCCACACUACAGCUGACGCCGCAGACCU
-----------.((((.((..((((((......((.(((((....)).))).((((((.((((....)))).)))))))).......))))))..)).)))).... ( -34.92)
>consensus
___________ACUGCAGCCACAGCUGGCCACCGCCGAUGGUCAGCCAAUCAUGCAGCUGACACCCACAUCAAUUCCAGCCACACUGCAGCUGACGCCGCAAACUU
...............((((..((((((((((.......))))))))......))..))))........................((((.((....)).)))).... (-14.70 = -15.20 +   0.50)

alignment

secondary structure

dotplot

Window 3

Location	12,169,404 – 12,169,499
Length	95
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	79.66
Mean single sequence MFE	-37.18
Consensus MFE	-25.71
Energy contribution	-25.10
Covariance contribution	-0.61
Combinations/Pair	1.32
Mean z-score	-1.84
Structure conservation index	0.69
SVM decision value	0.85
SVM RNA-class probability	0.867267
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12169404 95 - 27905053
AUGUUUGCGGUGUCAGUUGCAGAGUAGCCGGAAUUGAUGUUGGUGUCAGCUGCAUGAUUGGCUGGCCAUCCGCAGUGGCCAGCUGAGGCUGAAGU-----------
.......((((.((...(((((....(((((........))))).....))))).....((((((((((.....)))))))))))).))))....----------- ( -36.40)
>DroPse_CAF1 85174 95 - 1
AAGUCUGCGGCGUCAGCUGUAGUGUGGCUGGAAUGGAUGUGGGCGUCAACUCCAUGAUUGGCUGACCAUCGGCGGUGGCCAGCUGUGGCUGCAGU-----------
....(((((((..((((((....((.((((((...((((....))))...))).......((((.....))))))).))))))))..))))))).----------- ( -38.40)
>DroGri_CAF1 102961 106 - 1
AAGUUUGCGGCGUCAACUGCAAUGUGGCUGGAAUGGAAGUCGGCGUCAACUGCAUUAUUGGCUGACCAUCAGCAGUGGCCAAUUGUGGCUGCAGCUGCAAAUUGAA
.((((((((((..((.(..((((.(((((....(((..((((((..(((........)))))))))..))).....)))))))))..).))..))))))))))... ( -37.70)
>DroEre_CAF1 78804 95 - 1
GAGUCUGCGGUGUCAAUUGCAAUGUAGCCGGAAUUGAUGUUGGUGUCAGCUGCAUGAUUGGCUGGCCAUCGGCAGUGGCCAGUUGAGGCUGAAGU-----------
.((((((((((....))))))(((((((.(..(((......)))..).)))))))..(..(((((((((.....)))))))))..))))).....----------- ( -35.80)
>DroAna_CAF1 76224 95 - 1
AUGUUUGCGGAGUUAGCUGCAAAGUAGCCGGUAUUGAAGUGGGUGUCAGCUGCAUUAUCGGCUGUCCAUCAGCGGUGGCCAACUGUGGCUGCAGC-----------
...(((((((......))))))).(((((((((.((.(((........))).)).))))))))).......((.(..((((....))))..).))----------- ( -34.60)
>DroPer_CAF1 83174 95 - 1
AGGUCUGCGGCGUCAGCUGUAGUGUGGCUGGAAUGGACGUGGGCGUCAACUCCAUGAUUGGCUGACCAUCGGCGGUGGCCAGCUGUGGCUGCAGU-----------
....(((((((..((((((....((.((((((...((((....))))...))).......((((.....))))))).))))))))..))))))).----------- ( -40.20)
>consensus
AAGUCUGCGGCGUCAGCUGCAAUGUAGCCGGAAUGGAUGUGGGCGUCAACUGCAUGAUUGGCUGACCAUCGGCAGUGGCCAGCUGUGGCUGCAGU___________
....(((((((..((((((.......(((.(........).)))(((.(((((.((((.((....))))))))))))))))))))..)))))))............ (-25.71 = -25.10 +  -0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:58 2006