Locus 3388

Sequence ID	2L_DroMel_CAF1
Location	9,815,316 – 9,815,406
Length	90
Max. P	0.997257

overview

Window 0

Location	9,815,316 – 9,815,406
Length	90
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	73.57
Mean single sequence MFE	-28.63
Consensus MFE	-17.24
Energy contribution	-18.44
Covariance contribution	1.20
Combinations/Pair	1.17
Mean z-score	-4.23
Structure conservation index	0.60
SVM decision value	2.83
SVM RNA-class probability	0.997257
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9815316 90 + 22407834
C-AAAAACUUCGUUGGCUUUGUUGAAAGUACAGUUCUCAGAUGGAGU-U-------UGU-AUCUCUAUCUGGAAACCUAUUCAACAGAUCCUUCAAGUUA
.-...(((((.(..((.(((((((((((....(((..(((((((((.-.-------...-..)))))))))..))))).))))))))).))..)))))). ( -29.70)
>DroSec_CAF1 23986 91 + 1
C-AAAAACUUCGCUGGCUUUGUUGAAAGUACAGUCCUCAGAUGGAGUUU-------UGU-AUCUCUAUCUGGAAACCUAUUCAACAGAUCCUUCAAGUUA
.-...(((((.(..((.(((((((((((....((..((((((((((...-------...-..))))))))))..)))).))))))))).))..)))))). ( -27.60)
>DroSim_CAF1 27192 91 + 1
C-AAAAACUUCGCUGGCUUUGUUGAAAGUACAGUCCUCAGAUGGAGUUU-------UGU-AUCUCUAUCUGGAAACCUAUUCAACAGAUCCUUCAAGAUA
.-.....(((.(..((.(((((((((((....((..((((((((((...-------...-..))))))))))..)))).))))))))).))..))))... ( -25.60)
>DroEre_CAF1 26679 96 + 1
C-AAAAACUUAGCUGGGUUUGUUGAAAGCACAGUUCUCAGAUGGAGUUUGUACU--CGU-AUCUCUAUCUGGAAACCUAUUCAACAGAUCCGCCAAGUUA
.-...(((((.((.((((((((((((((....(((..(((((((((..((....--)).-..)))))))))..))))).)))))))))))))).))))). ( -37.00)
>DroYak_CAF1 24549 90 + 1
--AAAAACUUGACUGGGCGAGUUGCAAGUACAGUUCUCAGAUGGAGUUU-------UGU-AGCUCUAUGUGGAAACCUAUGCAACAGAUCCUUCAAGUGA
--....((((((..((((..((((((((....(((..((.((((((((.-------...-)))))))).))..))))).)))))).).))).)))))).. ( -30.60)
>DroAna_CAF1 24509 89 + 1
CAAUAAACGUAAUCGAGAUUGUUGCAUAAUCAAGAUUUAAAUGGAACUUACAGUUAAGUAAGCUCCAAAUAUAAUCUUUGGCAACA-----------UUC
................((.((((((......((((((....((((.(((((......))))).)))).....))))))..))))))-----------.)) ( -21.30)
>consensus
C_AAAAACUUCGCUGGCUUUGUUGAAAGUACAGUUCUCAGAUGGAGUUU_______UGU_AUCUCUAUCUGGAAACCUAUUCAACAGAUCCUUCAAGUUA
..............((.(((((((((......((..((((((((((................))))))))))..))...))))))))).))......... (-17.24 = -18.44 +   1.20)

alignment

secondary structure

dotplot

Window 1

Location	9,815,316 – 9,815,406
Length	90
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	73.57
Mean single sequence MFE	-26.37
Consensus MFE	-17.06
Energy contribution	-17.26
Covariance contribution	0.20
Combinations/Pair	1.29
Mean z-score	-3.40
Structure conservation index	0.65
SVM decision value	2.79
SVM RNA-class probability	0.997033
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9815316 90 - 22407834
UAACUUGAAGGAUCUGUUGAAUAGGUUUCCAGAUAGAGAU-ACA-------A-ACUCCAUCUGAGAACUGUACUUUCAACAAAGCCAACGAAGUUUUU-G
.((((((..((...(((((((..((((..(((((.(((..-...-------.-.))).)))))..)))).....)))))))...))..).)))))...-. ( -25.20)
>DroSec_CAF1 23986 91 - 1
UAACUUGAAGGAUCUGUUGAAUAGGUUUCCAGAUAGAGAU-ACA-------AAACUCCAUCUGAGGACUGUACUUUCAACAAAGCCAGCGAAGUUUUU-G
.((((((..((...(((((((..((((..(((((.(((..-...-------...))).)))))..)))).....)))))))...))..).)))))...-. ( -26.00)
>DroSim_CAF1 27192 91 - 1
UAUCUUGAAGGAUCUGUUGAAUAGGUUUCCAGAUAGAGAU-ACA-------AAACUCCAUCUGAGGACUGUACUUUCAACAAAGCCAGCGAAGUUUUU-G
....(((..((...(((((((..((((..(((((.(((..-...-------...))).)))))..)))).....)))))))...))..))).......-. ( -24.90)
>DroEre_CAF1 26679 96 - 1
UAACUUGGCGGAUCUGUUGAAUAGGUUUCCAGAUAGAGAU-ACG--AGUACAAACUCCAUCUGAGAACUGUGCUUUCAACAAACCCAGCUAAGUUUUU-G
.((((((((((...(((((((..((((..(((((.(((..-...--........))).)))))..)))).....)))))))...)).))))))))...-. ( -30.52)
>DroYak_CAF1 24549 90 - 1
UCACUUGAAGGAUCUGUUGCAUAGGUUUCCACAUAGAGCU-ACA-------AAACUCCAUCUGAGAACUGUACUUGCAACUCGCCCAGUCAAGUUUUU--
..((((((.((....((((((..((((..((.((.(((..-...-------...))).)).))..)))).....))))))...))...))))))....-- ( -23.70)
>DroAna_CAF1 24509 89 - 1
GAA-----------UGUUGCCAAAGAUUAUAUUUGGAGCUUACUUAACUGUAAGUUCCAUUUAAAUCUUGAUUAUGCAACAAUCUCGAUUACGUUUAUUG
((.-----------((((((..((((((.((..((((((((((......))))))))))..))))))))......)))))).))................ ( -27.90)
>consensus
UAACUUGAAGGAUCUGUUGAAUAGGUUUCCAGAUAGAGAU_ACA_______AAACUCCAUCUGAGAACUGUACUUUCAACAAACCCAGCGAAGUUUUU_G
.........((...(((((((..((((..(((((.(((................))).)))))..)))).....)))))))...)).............. (-17.06 = -17.26 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:14 2006