Locus 7954

Sequence ID	3R_DroMel_CAF1
Location	21,345,370 – 21,345,481
Length	111
Max. P	0.962964

overview

Window 0

Location	21,345,370 – 21,345,481
Length	111
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.08
Mean single sequence MFE	-40.15
Consensus MFE	-29.48
Energy contribution	-30.95
Covariance contribution	1.47
Combinations/Pair	1.10
Mean z-score	-1.56
Structure conservation index	0.73
SVM decision value	1.55
SVM RNA-class probability	0.962964
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21345370 111 + 27905053
GGCCAAGUUGCCCUUUCCGUACAACGUGCCCCCGCCCCUGCAGGCGGCGGCGGCAGCAGCGGCGGCUGUCCCAAAUCUAAGGUGAGUUU---------UCCACUUUCCACGACGGAAAAG
(((......))).(((((((.(....((((.(((((((....)).))))).))))(((((....)))))...........((.((((..---------...)))).))..)))))))).. ( -41.30)
>DroVir_CAF1 40541 115 + 1
GGCCAAGCUGCCGUUUCCAUACAAUGUGCCGCCGCCUCUGCAAGCGGCGGCCGCCGCUGCCGCAGCUGUGCCAAAUUUAAGGUAAGCCAAAA-----AGAUACUCUCCACGAAAAAAAAA
(((..((((((..............(.((((((((........)))))))))((....)).)))))).((((........)))).)))....-----....................... ( -36.00)
>DroPse_CAF1 44673 112 + 1
GGCCAAGUUGCCGUUUCCAUACAAUGUGCCGCCGCCUCUCCAGGCGGCAGCGGCAGCAGCGGCAGCUGUGCCAAAUUUAAGGUGAGUUGGCAGUCCU-UUUGCUUUGCACUCU-------
.(((((.(..((...............((.(((((((....))))))).))((((.((((....))))))))........))..).)))))......-...............------- ( -46.80)
>DroGri_CAF1 36844 87 + 1
GGCCAAGUUGCCGUUUCCAUACAAUGUGCCGCCGCCUCUGCAAGCAGCGGCUGCUGCUGCCGCAGCUGUGCCAAAUUUAAGGUAAG---------------------------------A
(((..((((((.((......)).....((.((.(((.(((....))).))).)).))....))))))..)))..............---------------------------------. ( -28.10)
>DroEre_CAF1 37681 111 + 1
GGCCAAGUUGCCCUUUCCGUACAACGUGCCCCCGCCUCUCCAGGCGGCGGCGGCAGCAGCGGCGGCUGUCCCAAAUCUAAGGUGAGUUU---------UCCACUUUCCACGACGGCAAAG
.(((..((((((.....((.....)).(((.((((((....)))))).)))))))))...))).((((((........((((((.....---------..))))))....)))))).... ( -42.30)
>DroPer_CAF1 66352 112 + 1
GGCCAAGUUGCCGUUUCCAUACAAUGUGCCGCCGCCUCUCCAGGCGGCAGCAGCAGCAGCGGCAGCUGUGCCAAAUUUAAGGUGAGUUGGCAGUCCU-UUUGCUUUGCACUCU-------
(((..((((((((((.........(((((.(((((((....))))))).))).))..))))))))))..)))........((((....(((((....-.)))))...))))..------- ( -46.40)
>consensus
GGCCAAGUUGCCGUUUCCAUACAAUGUGCCGCCGCCUCUCCAGGCGGCGGCGGCAGCAGCGGCAGCUGUGCCAAAUUUAAGGUGAGUUG_________UCUACUUUCCACGAC_______
(((..(((((((...............(((((((((......))))))))).((....)))))))))..)))................................................ (-29.48 = -30.95 +   1.47)

alignment

secondary structure

dotplot

Window 1

Location	21,345,370 – 21,345,481
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.08
Mean single sequence MFE	-42.58
Consensus MFE	-29.02
Energy contribution	-28.42
Covariance contribution	-0.61
Combinations/Pair	1.21
Mean z-score	-1.49
Structure conservation index	0.68
SVM decision value	1.16
SVM RNA-class probability	0.923595
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21345370 111 - 27905053
CUUUUCCGUCGUGGAAAGUGGA---------AAACUCACCUUAGAUUUGGGACAGCCGCCGCUGCUGCCGCCGCCGCCUGCAGGGGCGGGGGCACGUUGUACGGAAAGGGCAACUUGGCC
(((((((((((..(...((((.---------....((.((........))))...))))..)..)((((.(((((.((....))))))).))))....).)))))))))((......)). ( -44.50)
>DroVir_CAF1 40541 115 - 1
UUUUUUUUUCGUGGAGAGUAUCU-----UUUUGGCUUACCUUAAAUUUGGCACAGCUGCGGCAGCGGCGGCCGCCGCUUGCAGAGGCGGCGGCACAUUGUAUGGAAACGGCAGCUUGGCC
............((.((((....-----.....)))).))........(((..((((((.((((.(...((((((((((....)))))))))).).)))).((....))))))))..))) ( -43.80)
>DroPse_CAF1 44673 112 - 1
-------AGAGUGCAAAGCAAA-AGGACUGCCAACUCACCUUAAAUUUGGCACAGCUGCCGCUGCUGCCGCUGCCGCCUGGAGAGGCGGCGGCACAUUGUAUGGAAACGGCAACUUGGCC
-------..(((.(........-.).)))(((((..............((((((((....)))).))))((((((((((....))))))))))...((((.((....)))))).))))). ( -44.50)
>DroGri_CAF1 36844 87 - 1
U---------------------------------CUUACCUUAAAUUUGGCACAGCUGCGGCAGCAGCAGCCGCUGCUUGCAGAGGCGGCGGCACAUUGUAUGGAAACGGCAACUUGGCC
.---------------------------------..............(((.(((((((....))))).((((((((((....))))))))))...((((.((....))))))..))))) ( -36.10)
>DroEre_CAF1 37681 111 - 1
CUUUGCCGUCGUGGAAAGUGGA---------AAACUCACCUUAGAUUUGGGACAGCCGCCGCUGCUGCCGCCGCCGCCUGGAGAGGCGGGGGCACGUUGUACGGAAAGGGCAACUUGGCC
((((.(((((((((..(((((.---------....((.((........))))......)))))....))(((.((((((....)))))).))))))....))))))))(((......))) ( -42.50)
>DroPer_CAF1 66352 112 - 1
-------AGAGUGCAAAGCAAA-AGGACUGCCAACUCACCUUAAAUUUGGCACAGCUGCCGCUGCUGCUGCUGCCGCCUGGAGAGGCGGCGGCACAUUGUAUGGAAACGGCAACUUGGCC
-------...((((((((((..-.....((((((............))))))((((....)))).))))((((((((((....))))))))))...))))))(....)(((......))) ( -44.10)
>consensus
_______AUCGUGGAAAGUAAA_________AAACUCACCUUAAAUUUGGCACAGCUGCCGCUGCUGCCGCCGCCGCCUGCAGAGGCGGCGGCACAUUGUAUGGAAACGGCAACUUGGCC
.............................................(((.(.(((((.((....)).)).((((((((((....))))))))))....))).).)))..(((......))) (-29.02 = -28.42 +  -0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:55 2006