Locus 8564

Sequence ID	X_DroMel_CAF1
Location	21,212,841 – 21,212,943
Length	102
Max. P	0.806340

overview

Window 9

Location	21,212,841 – 21,212,943
Length	102
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	83.43
Mean single sequence MFE	-36.93
Consensus MFE	-24.94
Energy contribution	-24.63
Covariance contribution	-0.30
Combinations/Pair	1.11
Mean z-score	-2.98
Structure conservation index	0.68
SVM decision value	0.63
SVM RNA-class probability	0.806340
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21212841 102 + 22224390
--CUUCCAAAAAGUG-GGGUGGCAGCUGGAGGGGGCGUGCCAAAGGGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAACCGAUUUGAGACACGCCCCCA-C
--.(((((.....))-)))...........(((((((((..(((((....)))))..............(((((.(..(....)..)..)))))))))))))).-. ( -32.50)
>DroPse_CAF1 13341 98 + 1
CGCAGCC-CACAGGGGCGAGGGCA-----AAGGGGCGUGGA-AAACGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAUCCGAUUUGAGACACGCCCCUU-C
.((.(((-(....))))....)).-----((((((((((((-(((......))))).............(((((....((...))....)))))))))))))))-. ( -35.20)
>DroSim_CAF1 16657 101 + 1
--CCUCG-AAAAGUG-GGGCGGCAGCUGGAGGGGGCGUGCCAAAGGGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAGCCGAUUUGAGACACGCCCCCA-C
--.....-....(.(-(((((....((.(((..(((.(((((((((....)))))......((((((....)))))).)))))))..))).))...))))))).-. ( -36.20)
>DroEre_CAF1 11918 102 + 1
--CAGCG-AAGAGUGGGGGCGGCAGCUGGAGGGGGCGUGCCGAAGGGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAGCCGAUUUGAGCCACGCCCCCA-U
--.....-....(((((((((...(((.(((..(((.(((((((((....)))))......((((((....)))))).)))))))..))).)))..))))))))-) ( -44.50)
>DroYak_CAF1 12322 102 + 1
--CAGCG-AAAAGUGGGGGCGGCAGCUGGAGGGGGCGUGCCGAUGGGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAGCCGAUUUGAGACACGCCCCCA-U
--.....-....(((((((((....((.(((..(((.((((((.((....))..)).....((((((....)))))).)))))))..))).))...))))))))-) ( -40.80)
>DroPer_CAF1 13541 99 + 1
CGCAGCC-CACAGGGGCGAGGGCA-----AAGGGGCGUGGA-AAACGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAUCCGAUUUGAGACACGCCCUUCCC
....(((-(....))))..(((..-----.(((((((((((-(((......))))).............(((((....((...))....))))))))))))))))) ( -32.40)
>consensus
__CAGCC_AAAAGUGGGGGCGGCAGCUGGAGGGGGCGUGCC_AAGGGAAACUUUUCAAAUAAAAUGAUUUCUUAUUUAGGCAGCCGAUUUGAGACACGCCCCCA_C
..............................(((((((((...((((....))))((((((.((((((....)))))).((...)).))))))..)))))))))... (-24.94 = -24.63 +  -0.30)

alignment

secondary structure

dotplot

Window 0

Location	21,212,841 – 21,212,943
Length	102
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	83.43
Mean single sequence MFE	-32.33
Consensus MFE	-22.06
Energy contribution	-22.04
Covariance contribution	-0.03
Combinations/Pair	1.09
Mean z-score	-2.44
Structure conservation index	0.68
SVM decision value	0.36
SVM RNA-class probability	0.702757
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21212841 102 - 22224390
G-UGGGGGCGUGUCUCAAAUCGGUUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCCCUUUGGCACGCCCCCUCCAGCUGCCACCC-CACUUUUUGGAAG--
.-.(((((((((((.......((..((.(((((((((.....)))))))))....))..))....)))))))))))(((((.........-......)))))..-- ( -31.36)
>DroPse_CAF1 13341 98 - 1
G-AAGGGGCGUGUCUCAAAUCGGAUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCGUUU-UCCACGCCCCUU-----UGCCCUCGCCCCUGUG-GGCUGCG
(-((((((((((....((((..(((...(((((((((.....)))))))))....)))..))))-..))))))))))-----)((((.((....)).)-))).... ( -32.90)
>DroSim_CAF1 16657 101 - 1
G-UGGGGGCGUGUCUCAAAUCGGCUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCCCUUUGGCACGCCCCCUCCAGCUGCCGCCC-CACUUUU-CGAGG--
.-.(((((((((((.......((((...(((((((((.....)))))))))...)))).......)))))))))))....((....))..-.......-.....-- ( -31.34)
>DroEre_CAF1 11918 102 - 1
A-UGGGGGCGUGGCUCAAAUCGGCUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCCCUUCGGCACGCCCCCUCCAGCUGCCGCCCCCACUCUU-CGCUG--
.-((((((((..(((......((((((((((((((((.....)))))))))..(((.....))).)))).)))......)))..).))))))).....-.....-- ( -36.20)
>DroYak_CAF1 12322 102 - 1
A-UGGGGGCGUGUCUCAAAUCGGCUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCCCAUCGGCACGCCCCCUCCAGCUGCCGCCCCCACUUUU-CGCUG--
.-.(((((((((((.......((((...(((((((((.....)))))))))...)))).......)))))))))))..((((................-.))))-- ( -32.67)
>DroPer_CAF1 13541 99 - 1
GGGAAGGGCGUGUCUCAAAUCGGAUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCGUUU-UCCACGCCCCUU-----UGCCCUCGCCCCUGUG-GGCUGCG
(((..(((((((....((((..(((...(((((((((.....)))))))))....)))..))))-..)))))))...-----..)))..((((....)-))).... ( -29.50)
>consensus
G_UGGGGGCGUGUCUCAAAUCGGCUGCCUAAAUAAGAAAUCAUUUUAUUUGAAAAGUUUCCCUU_GGCACGCCCCCUCCAGCUGCCGCCCCCACUUUU_CGCUG__
...(((((((((.........((((...(((((((((.....)))))))))...)))).........))))))))).............................. (-22.06 = -22.04 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:23 2006