Locus 3260

Sequence ID	2L_DroMel_CAF1
Location	9,411,125 – 9,411,227
Length	102
Max. P	0.987895

overview

Window 6

Location	9,411,125 – 9,411,227
Length	102
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	91.58
Mean single sequence MFE	-25.77
Consensus MFE	-22.14
Energy contribution	-23.33
Covariance contribution	1.19
Combinations/Pair	1.04
Mean z-score	-2.81
Structure conservation index	0.86
SVM decision value	2.10
SVM RNA-class probability	0.987895
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9411125 102 + 22407834
UCGGCGAAUGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCUGCA-AACCCAAGGCAAACACACCCACUC---------ACCCAUGGCAGUACAUUUUAUUUGCC
..((((((((....(((((.(((((.....))))......(((((((((...-......))))))))).........---------......).))))).....)))))))) ( -26.90)
>DroSec_CAF1 39717 102 + 1
UCGGCGAAUGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCUGCA-AACCCAAGGCAAACACACCCACUC---------ACCCAUGGCAGUACAUUUUAUUUGCC
..((((((((....(((((.(((((.....))))......(((((((((...-......))))))))).........---------......).))))).....)))))))) ( -26.90)
>DroSim_CAF1 42274 102 + 1
UCGGCGAAUGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCUGCA-AACCCAAGGCAAACACACCCACUC---------ACCCAUGGCAGUACAUUUUAUUUGCC
..((((((((....(((((.(((((.....))))......(((((((((...-......))))))))).........---------......).))))).....)))))))) ( -26.90)
>DroEre_CAF1 40110 102 + 1
UCGGCGAAUGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCUGCA-AACCCAAGGCAAACACACCCACUC---------AGCCAUGGCAGUACAUUUUAUUUGCC
..((((((((...((((((((((((.....))))......(((((((((...-......))))))))).........---------.)))..))))).......)))))))) ( -29.50)
>DroYak_CAF1 41914 102 + 1
UGUGCGAAUGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCUGCA-AACCCAAGGCAAACACACCCACUC---------ACCCAUGGCAGUACAUUUUAUUUGCC
...(((((((....(((((.(((((.....))))......(((((((((...-......))))))))).........---------......).))))).....))))))). ( -24.10)
>DroAna_CAF1 42425 106 + 1
UC------UGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCGGCAGAACCCAAGGCAAACACAUCCCCCCCGACACUCCUUCCAGAGCAGUACAUUUUAUUUGCC
..------.....((((((((..........(((((....))))))))))))).......((((((....((......))..(((......)))............)))))) ( -20.30)
>consensus
UCGGCGAAUGUCCCUGCUGGCCUUUAAUUAAAAGCAAACAUGUUUGCCUGCA_AACCCAAGGCAAACACACCCACUC_________ACCCAUGGCAGUACAUUUUAUUUGCC
..((((((((...(((((.((.(((....))).)).....(((((((((..........)))))))))........................))))).......)))))))) (-22.14 = -23.33 +   1.19)

alignment

secondary structure

dotplot

Window 7

Location	9,411,125 – 9,411,227
Length	102
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	91.58
Mean single sequence MFE	-37.40
Consensus MFE	-30.48
Energy contribution	-30.87
Covariance contribution	0.39
Combinations/Pair	1.07
Mean z-score	-3.32
Structure conservation index	0.81
SVM decision value	1.67
SVM RNA-class probability	0.971314
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9411125 102 - 22407834
GGCAAAUAAAAUGUACUGCCAUGGGU---------GAGUGGGUGUGUUUGCCUUGGGUU-UGCAGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACAUUCGCCGA
((((............))))...(((---------(((((..(.((((.(((((..(((-.(((((((....)))))))....)))..))))).)))).)..)))))))).. ( -39.40)
>DroSec_CAF1 39717 102 - 1
GGCAAAUAAAAUGUACUGCCAUGGGU---------GAGUGGGUGUGUUUGCCUUGGGUU-UGCAGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACAUUCGCCGA
((((............))))...(((---------(((((..(.((((.(((((..(((-.(((((((....)))))))....)))..))))).)))).)..)))))))).. ( -39.40)
>DroSim_CAF1 42274 102 - 1
GGCAAAUAAAAUGUACUGCCAUGGGU---------GAGUGGGUGUGUUUGCCUUGGGUU-UGCAGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACAUUCGCCGA
((((............))))...(((---------(((((..(.((((.(((((..(((-.(((((((....)))))))....)))..))))).)))).)..)))))))).. ( -39.40)
>DroEre_CAF1 40110 102 - 1
GGCAAAUAAAAUGUACUGCCAUGGCU---------GAGUGGGUGUGUUUGCCUUGGGUU-UGCAGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACAUUCGCCGA
(((......(((((.((((..(((((---------(((..((..(((((((((.(....-..))))))))))..))..))).........)))))))))..))))).))).. ( -38.70)
>DroYak_CAF1 41914 102 - 1
GGCAAAUAAAAUGUACUGCCAUGGGU---------GAGUGGGUGUGUUUGCCUUGGGUU-UGCAGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACAUUCGCACA
((((............))))....((---------(((((..(.((((.(((((..(((-.(((((((....)))))))....)))..))))).)))).)..)))))))... ( -36.10)
>DroAna_CAF1 42425 106 - 1
GGCAAAUAAAAUGUACUGCUCUGGAAGGAGUGUCGGGGGGGAUGUGUUUGCCUUGGGUUCUGCCGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACA------GA
...........(((.(((((..((....(((...((((.(((((((((((((...((.....))))))))))))))).))))..))).....)))))))..)))------.. ( -31.40)
>consensus
GGCAAAUAAAAUGUACUGCCAUGGGU_________GAGUGGGUGUGUUUGCCUUGGGUU_UGCAGGCAAACAUGUUUGCUUUUAAUUAAAGGCCAGCAGGGACAUUCGCCGA
.........(((((.((((..(((.(.........(((..((..(((((((((..........)))))))))..))..))).........).)))))))..)))))...... (-30.48 = -30.87 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:13 2006