Locus 657

Sequence ID	3R_DroMel_CAF1
Location	2,420,430 – 2,420,565
Length	135
Max. P	0.940312

overview

Window 8

Location	2,420,430 – 2,420,532
Length	102
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	82.38
Mean single sequence MFE	-27.85
Consensus MFE	-22.33
Energy contribution	-23.00
Covariance contribution	0.67
Combinations/Pair	1.12
Mean z-score	-2.56
Structure conservation index	0.80
SVM decision value	1.12
SVM RNA-class probability	0.918877
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2420430 102 - 27905053
GCACU-CAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAUACGAAUACGUAUGUUGCAGCACCCCU---------------
((...-..............(.(((((..(((((((((((....)))))))))))..)))))).(((..((((((((....))))))))..))).))......--------------- ( -32.90)
>DroSim_CAF1 125606 102 - 1
GCACU-CAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAUACGAAUACGUAUGUUGCAGCACCCCU---------------
((...-..............(.(((((..(((((((((((....)))))))))))..)))))).(((..((((((((....))))))))..))).))......--------------- ( -32.90)
>DroEre_CAF1 128362 94 - 1
GCACU-CAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAU------ACGUAUGUUGCAGCACCC-----------------
((...-..............(.(((((..(((((((((((....)))))))))))..)))))).(((..(((((...------.)))))..))).))....----------------- ( -29.70)
>DroWil_CAF1 196312 97 - 1
GCACUCCAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGCCGGCGUUUCAAUUGAUUUUCACUACAGUCAGUUUCC---UUCACAUCCCAUAGAA---CU---------------
(((..(....)..)))...((((((((..((((((((((......))))))))))..))))).))).............---................---..--------------- ( -20.30)
>DroYak_CAF1 122632 111 - 1
GCACU-CAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAU------ACGUAUGUUGCAGCACCUCUCCACCCCUCCACCCC
((...-..............(.(((((..(((((((((((....)))))))))))..)))))).(((..(((((...------.)))))..))).))..................... ( -29.70)
>DroAna_CAF1 125773 96 - 1
GCACU-CAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGUUCCAAUUGAUUUUCACUACAGUACGUAU------CCGUGUGUUGCACCGCCACA---------------
((((.-..(((..(((...((((((((..((((.((((((....)))))).))))..))))).)))...)))..)))------..))))((.((...)).)).--------------- ( -21.60)
>consensus
GCACU_CAAUGUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAU______ACGUAUGUUGCAGCACCCCU_______________
(((.................(.(((((..(((((((((((....)))))))))))..))))))......((((((........))))))..)))........................ (-22.33 = -23.00 +   0.67)

alignment

secondary structure

dotplot

Window 9

Location	2,420,455 – 2,420,565
Length	110
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.93
Mean single sequence MFE	-28.27
Consensus MFE	-23.21
Energy contribution	-24.12
Covariance contribution	0.91
Combinations/Pair	1.10
Mean z-score	-2.19
Structure conservation index	0.82
SVM decision value	1.31
SVM RNA-class probability	0.940312
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2420455 110 - 27905053
CC-------ACCGUCUCGAGUCGUUGCUGUGAUUUAUUUUGCACU-CAAU--GUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAUA
..-------............(((.((((((.(((((((((((..-....--...)).)))))))))((..(((((((((((....)))))))))))..))......))))))))).... ( -30.80)
>DroGri_CAF1 201438 94 - 1
GC-------AUCUUUGCGA------GAUGUGAUUUAUUUUGCACU-CAGUGUGUUUGCUAAAGUAAAAUUGAUUGAAGCGUUUGUUGGUGCAUCAAUUGAUUUCCUCU------------
((-------(((((...))------)))))..(((((((((((..-(.....)..))).))))))))((..(((((.(((........))).)))))..)).......------------ ( -21.10)
>DroEre_CAF1 128380 109 - 1
CC-------GCCGUCUCUAGUCGGUGCUGUGAUUUAUUUUGCACU-CAAU--GUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAU-
..-------((((.(....).))))((((((.(((((((((((..-....--...)).)))))))))((..(((((((((((....)))))))))))..))......))))))......- ( -34.20)
>DroWil_CAF1 196331 99 - 1
-------------------CUGGUUACUGUGAUUUAUUUUGCACUCCAAU--GUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGCCGGCGUUUCAAUUGAUUUUCACUACAGUCAGUUUC
-------------------(((..(...(((((((((((((((..(....--)..)).)))))))))((..((((((((((......))))))))))..))..))))...)..))).... ( -27.50)
>DroYak_CAF1 122667 116 - 1
ACGUCCAACACCGUCUCUAGUCGCUGCUGUGAUUUAUUUUGCACU-CAAU--GUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCAGUACAGUACGUAU-
.....................((.(((((((.(((((((((((..-....--...)).)))))))))((..(((((((((((....)))))))))))..))......)))))))))...- ( -30.80)
>DroAna_CAF1 125793 109 - 1
CC-------AUCGUCUCGAGUCGAUGCUGUGAUUUAUUUUGCACU-CAAU--GUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGUUCCAAUUGAUUUUCACUACAGUACGUAU-
.(-------((((.(....).)))))(((((.(((((((((((..-....--...)).)))))))))((..((((.((((((....)))))).))))..))......))))).......- ( -25.20)
>consensus
CC_______ACCGUCUCGAGUCGUUGCUGUGAUUUAUUUUGCACU_CAAU__GUUUGCCAAAGUAAAAUUGAUUGAAGCGUUUGUUGGCGCUUCAAUUGAUUUUCACUACAGUACGUAU_
........................(((((((.(((((((((((............))).))))))))((..(((((((((((....)))))))))))..))......)))))))...... (-23.21 = -24.12 +   0.91)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:31 2006