Locus 6878

Sequence ID	2L_DroMel_CAF1
Location	19,237,576 – 19,237,673
Length	97
Max. P	0.939114

overview

Window 1

Location	19,237,576 – 19,237,673
Length	97
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	82.50
Mean single sequence MFE	-26.47
Consensus MFE	-22.30
Energy contribution	-22.97
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.03
Structure conservation index	0.84
SVM decision value	0.89
SVM RNA-class probability	0.874893
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19237576 97 + 22407834
UUUCUUCUUUCAUUUGGCCCCGUUGCCGCUGGCUGCGUCUUGGAAUUUUCCUCAAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
.........((((..(((......)))....(((((.....(((....)))....(((((((.......))))))))))))..)))).......... ( -30.20)
>DroPse_CAF1 65973 76 + 1
UUUACUU--------------------GUUGGCUU-UCCUCGGAAUUUUCCUCGAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
.(((..(--------------------((((....-.....(((....)))....(((((((.......))))))).)))))..))).......... ( -20.10)
>DroSec_CAF1 57442 97 + 1
UUUCCUCUUUCAUUUAGCCCCGUUACCGCUGGCUGCGUCUUGGAAUUUUCCUCAAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
.........((((..((((.((....))..))))(((((..(((....)))....(((((((.......)))))))..))))))))).......... ( -28.00)
>DroEre_CAF1 57074 97 + 1
UUUCUUCUUUCAUUUGGCCUCGUUGCCGCUGGCUGCGUCUUGGAAUUUUCCUCAAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
.........((((..(((......)))....(((((.....(((....)))....(((((((.......))))))))))))..)))).......... ( -30.20)
>DroYak_CAF1 59006 97 + 1
UUUCUUCUUUCAUUUGGCCUCGUUGCCGCUGGCUGCGUCUUGGAAUUUUCCUCAAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
.........((((..(((......)))....(((((.....(((....)))....(((((((.......))))))))))))..)))).......... ( -30.20)
>DroPer_CAF1 69100 76 + 1
UUUACUU--------------------GUUGGCUU-UCCUCGGAAUUUUCCUCGAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
.(((..(--------------------((((....-.....(((....)))....(((((((.......))))))).)))))..))).......... ( -20.10)
>consensus
UUUCCUCUUUCAUUUGGCC_CGUUGCCGCUGGCUGCGUCUUGGAAUUUUCCUCAAGUGGCGCAUAAUGAGCGCCACGCGGCGUAUGAUUAAUAUUUU
...............................(((((.....(((....)))....(((((((.......))))))))))))................ (-22.30 = -22.97 +   0.67)

alignment

secondary structure

dotplot

Window 2

Location	19,237,576 – 19,237,673
Length	97
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	82.50
Mean single sequence MFE	-26.92
Consensus MFE	-21.05
Energy contribution	-22.30
Covariance contribution	1.25
Combinations/Pair	1.07
Mean z-score	-3.15
Structure conservation index	0.78
SVM decision value	1.30
SVM RNA-class probability	0.939114
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19237576 97 - 22407834
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUUGAGGAAAAUUCCAAGACGCAGCCAGCGGCAACGGGGCCAAAUGAAAGAAGAAA
..........((((.....(((((((((.......)))))))....(((....))).....)).(((..((....)).)))...))))......... ( -30.20)
>DroPse_CAF1 65973 76 - 1
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUCGAGGAAAAUUCCGAGGA-AAGCCAAC--------------------AAGUAAA
.............(((..((.(((((((.......))))))).)).((....(((....))-)..))...--------------------..))).. ( -21.30)
>DroSec_CAF1 57442 97 - 1
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUUGAGGAAAAUUCCAAGACGCAGCCAGCGGUAACGGGGCUAAAUGAAAGAGGAAA
..........((((.....(((((((((.......)))))))....(((....))).....))((((..((....)).))))..))))......... ( -29.30)
>DroEre_CAF1 57074 97 - 1
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUUGAGGAAAAUUCCAAGACGCAGCCAGCGGCAACGAGGCCAAAUGAAAGAAGAAA
..........((((..((((((((((((.......)))))))....(((....))).....))......((....)).)))...))))......... ( -29.70)
>DroYak_CAF1 59006 97 - 1
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUUGAGGAAAAUUCCAAGACGCAGCCAGCGGCAACGAGGCCAAAUGAAAGAAGAAA
..........((((..((((((((((((.......)))))))....(((....))).....))......((....)).)))...))))......... ( -29.70)
>DroPer_CAF1 69100 76 - 1
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUCGAGGAAAAUUCCGAGGA-AAGCCAAC--------------------AAGUAAA
.............(((..((.(((((((.......))))))).)).((....(((....))-)..))...--------------------..))).. ( -21.30)
>consensus
AAAAUAUUAAUCAUACGCCGCGUGGCGCUCAUUAUGCGCCACUUGAGGAAAAUUCCAAGACGCAGCCAGCGGCAACG_GGCCAAAUGAAAGAAGAAA
................((((((((((((.......)))))))....(((....)))............)))))........................ (-21.05 = -22.30 +   1.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:52 2006