Locus 5936

Sequence ID	2L_DroMel_CAF1
Location	16,754,238 – 16,754,338
Length	100
Max. P	0.514724

overview

Window 4

Location	16,754,238 – 16,754,338
Length	100
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	83.03
Mean single sequence MFE	-21.40
Consensus MFE	-13.22
Energy contribution	-14.23
Covariance contribution	1.00
Combinations/Pair	1.25
Mean z-score	-2.06
Structure conservation index	0.62
SVM decision value	-0.04
SVM RNA-class probability	0.514642
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16754238 100 + 22407834
UUCCCACUUAUUGCAAA---UCCAAGCCAGCUUGGUUAUUGA-CUCAAUAUUUGGGUUGCUUUUCCUUCUUUUUAUAGGCAAUUUCUACAUCGAUGGUCUCAUC
..((((..((((((((.---.(((((....)))))...))).-..)))))..))))((((((..............))))))..........((((....)))) ( -20.94)
>DroSec_CAF1 17629 100 + 1
UUCCCACUUAUUGCAAA---UCCAAGCCAGCUUGGUUAUUGA-CUCAAUAUUUGGGUUGCUUCUCCUUCUUUUUAUAGGCAAUUUCUAUAUCGAUGGUCUCGUC
..((((..((((((((.---.(((((....)))))...))).-..)))))..))))........((.((....((((((.....))))))..)).))....... ( -20.30)
>DroSim_CAF1 17627 100 + 1
UUCCCACUUAUUGUCAA---UCCAAGCCAGCUUGGUUAUUGA-CUCAAUAUUUGGGUUGUUUUUCCUUCUUUUUAUAGGCGAUUUCUAUAUCGAUGGUCUCGUC
..((((..(((((((((---((((((....)))))..)))))-)..))))..)))).....................(((((...((((....))))..))))) ( -24.50)
>DroEre_CAF1 17675 100 + 1
UUCCCGAUUAUUGCAAU---UCCAAGCCAGCUUGGUCAUUGA-CUCAAUAUUUGGGUUGCGUUUCCUUCUUUUUAUAGGCAAUGGCUAUAUCGAUGGUCUCAUC
..(((((.(((((((((---.(((((....)))))..)))).-..))))).)))))((((.(..............).)))).((((((....))))))..... ( -23.84)
>DroYak_CAF1 17624 100 + 1
UUCCCACCUAUUGUAAU---UCCAAGCCAGCUUGGUUAUUGA-CUCAAUACUUGGGGUGCUUUUCCUUCUUUUUAUAAGCAAUGGCUAUGUCGAUGGUCUCAUC
.(((((..(((((((((---.(((((....)))))..)))).-..)))))..)))))(((((..............)))))..((((((....))))))..... ( -23.64)
>DroAna_CAF1 19381 94 + 1
-------AUAUUGAAAAGUUGCCAAGCCAGCUUGGUCCUUUAGUUCAAUAUCUAGGUU---UUUUCUUCUCCUUAUAUACAAUGGCUAUAUCCACAGUCUCGUC
-------((((((((.....((((((....)))))).......))))))))..(((..---.........)))..........((((........))))..... ( -15.20)
>consensus
UUCCCACUUAUUGCAAA___UCCAAGCCAGCUUGGUUAUUGA_CUCAAUAUUUGGGUUGCUUUUCCUUCUUUUUAUAGGCAAUGGCUAUAUCGAUGGUCUCAUC
..((((..(((((........(((((....)))))..........)))))..))))((((((..............))))))..........((((....)))) (-13.22 = -14.23 +   1.00)

alignment

secondary structure

dotplot

Window 5

Location	16,754,238 – 16,754,338
Length	100
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	83.03
Mean single sequence MFE	-21.53
Consensus MFE	-14.01
Energy contribution	-15.12
Covariance contribution	1.11
Combinations/Pair	1.13
Mean z-score	-1.82
Structure conservation index	0.65
SVM decision value	-0.04
SVM RNA-class probability	0.514724
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16754238 100 - 22407834
GAUGAGACCAUCGAUGUAGAAAUUGCCUAUAAAAAGAAGGAAAAGCAACCCAAAUAUUGAG-UCAAUAACCAAGCUGGCUUGGA---UUUGCAAUAAGUGGGAA
((((....))))..(((((.......))))).................((((..(((((..-.(((...(((((....))))).---.))))))))..)))).. ( -22.10)
>DroSec_CAF1 17629 100 - 1
GACGAGACCAUCGAUAUAGAAAUUGCCUAUAAAAAGAAGGAGAAGCAACCCAAAUAUUGAG-UCAAUAACCAAGCUGGCUUGGA---UUUGCAAUAAGUGGGAA
.......((.((..(((((.......)))))....)).))........((((..(((((..-.(((...(((((....))))).---.))))))))..)))).. ( -21.90)
>DroSim_CAF1 17627 100 - 1
GACGAGACCAUCGAUAUAGAAAUCGCCUAUAAAAAGAAGGAAAAACAACCCAAAUAUUGAG-UCAAUAACCAAGCUGGCUUGGA---UUGACAAUAAGUGGGAA
.......((.((..(((((.......)))))....)).))........((((..((((..(-(((((..(((((....))))))---)))))))))..)))).. ( -24.40)
>DroEre_CAF1 17675 100 - 1
GAUGAGACCAUCGAUAUAGCCAUUGCCUAUAAAAAGAAGGAAACGCAACCCAAAUAUUGAG-UCAAUGACCAAGCUGGCUUGGA---AUUGCAAUAAUCGGGAA
((((....))))..........((((((......))..(....)))))(((...(((((..-.((((..(((((....))))).---)))))))))...))).. ( -21.90)
>DroYak_CAF1 17624 100 - 1
GAUGAGACCAUCGACAUAGCCAUUGCUUAUAAAAAGAAGGAAAAGCACCCCAAGUAUUGAG-UCAAUAACCAAGCUGGCUUGGA---AUUACAAUAGGUGGGAA
((((....))))......((..((.(((........))).))..))..((((..(((((((-(......(((((....))))).---))).)))))..)))).. ( -21.60)
>DroAna_CAF1 19381 94 - 1
GACGAGACUGUGGAUAUAGCCAUUGUAUAUAAGGAGAAGAAAA---AACCUAGAUAUUGAACUAAAGGACCAAGCUGGCUUGGCAACUUUUCAAUAU-------
......((.((((......)))).)).......((((((....---..(((((........))..))).(((((....)))))...)))))).....------- ( -17.30)
>consensus
GACGAGACCAUCGAUAUAGAAAUUGCCUAUAAAAAGAAGGAAAAGCAACCCAAAUAUUGAG_UCAAUAACCAAGCUGGCUUGGA___UUUGCAAUAAGUGGGAA
.......((.((..(((((.......)))))....)).))........((((..(((((..........(((((....)))))........)))))..)))).. (-14.01 = -15.12 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:58 2006