Locus 7423

Sequence ID	2L_DroMel_CAF1
Location	20,610,639 – 20,610,754
Length	115
Max. P	0.611860

overview

Window 0

Location	20,610,639 – 20,610,754
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.96
Mean single sequence MFE	-31.72
Consensus MFE	-21.45
Energy contribution	-22.07
Covariance contribution	0.61
Combinations/Pair	1.04
Mean z-score	-1.34
Structure conservation index	0.68
SVM decision value	0.16
SVM RNA-class probability	0.611860
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20610639 115 + 22407834
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGAUGAUGACAUGACAACGGCGGUUGAGACGACCCA-----CCGAUGCUGGUGCCCAUGCACCACCC
.....((.((.....)).))..(((...((((((((..((((......))))..))))))))...)))..(((.(((((...)))))..-----)))....((((((....))))))... ( -37.30)
>DroPse_CAF1 186327 102 + 1
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGA-GAUGACAUGACAGCGUCGGUUGGGACGGCCCUUUUUCCCGCUUCUU-----------------
..(((((........((.((.(((((..((((((((((((((......)))).)).-)))))..)))((((....)))))))))))))........)))))..----------------- ( -32.19)
>DroEre_CAF1 115669 92 + 1
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGAUGAUGACAUGACAGCGGCGGUUGAGACGACC----------------------------CACCC
.....((((.(((((.((....(((...((((((((..((((......))))..))))))))...))).)).))))).))).)....----------------------------..... ( -29.80)
>DroYak_CAF1 119395 115 + 1
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGAUGAUGACAUGACAGCGGCGGUUGAGACGACCCC-----CCGAUUUUUGUGCCCCUGCACCACCC
.............((((.(((.(((...((((((((..((((......))))..))))))))...)))...((.(((.((((((.....-----.)).))))...)))))))).)))).. ( -33.80)
>DroAna_CAF1 124405 104 + 1
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGA---UGACAUGACAGCGGCGGUUGAGAAUACCCA-----CCGAUAUC------UCCGCACCUC--
.....((.((.....)).))..(((...(((((((...((((......))))))))---)))...))).((((((((.(.......).)-----))).....------.)))).....-- ( -25.50)
>DroPer_CAF1 192022 101 + 1
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGA-GAUGACAUGACAGCGUCGGUUGGGACGGCCCUU-UUCCCGCUUCUU-----------------
..(((((........((.((.(((((..((((((((((((((......)))).)).-)))))..)))((((....)))))))))))))..-.....)))))..----------------- ( -31.76)
>consensus
UUGAAGCUCCACUGUGGCGCACGUCCAUUCAUCAUCCGGUUGCUUCAUCAACAUGA_GAUGACAUGACAGCGGCGGUUGAGACGACCCA_____CCGAUUCUU____________CAC__
......(((.(((((.((....(((...(((((.((..((((......))))..)).)))))...))).)).))))).)))....................................... (-21.45 = -22.07 +   0.61)

alignment

secondary structure

dotplot

Window 1

Location	20,610,639 – 20,610,754
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.96
Mean single sequence MFE	-36.77
Consensus MFE	-22.24
Energy contribution	-22.72
Covariance contribution	0.47
Combinations/Pair	1.08
Mean z-score	-1.49
Structure conservation index	0.60
SVM decision value	-0.08
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20610639 115 - 22407834
GGGUGGUGCAUGGGCACCAGCAUCGG-----UGGGUCGUCUCAACCGCCGUUGUCAUGUCAUCAUCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
..((((((((((....((((((.(((-----(((..........)))))).)))....((((((((..((((......))))..)))))))).))).))))))))))............. ( -46.90)
>DroPse_CAF1 186327 102 - 1
-----------------AAGAAGCGGGAAAAAGGGCCGUCCCAACCGACGCUGUCAUGUCAUC-UCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
-----------------..(((((((((..........))))..(((.(((((((...(((((-((..((((......))))..)).)))))...)))).)))......))).))))).. ( -32.90)
>DroEre_CAF1 115669 92 - 1
GGGUG----------------------------GGUCGUCUCAACCGCCGCUGUCAUGUCAUCAUCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
((.((----------------------------((....)))).)).(((((((((((((.(((((((((((......))))...)))))))...))))))....)))))))........ ( -32.10)
>DroYak_CAF1 119395 115 - 1
GGGUGGUGCAGGGGCACAAAAAUCGG-----GGGGUCGUCUCAACCGCCGCUGUCAUGUCAUCAUCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
..(((((((((.(((.(.......)(-----(..(......)..))))).))(((...((((((((..((((......))))..))))))))...)))..)))))))............. ( -41.40)
>DroAna_CAF1 124405 104 - 1
--GAGGUGCGGA------GAUAUCGG-----UGGGUAUUCUCAACCGCCGCUGUCAUGUCA---UCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
--(((((...((------((((((..-----..)))).))))..(((((((((((...(((---((((((((......))))...)))))))...)))).))).....)))).))))).. ( -34.30)
>DroPer_CAF1 192022 101 - 1
-----------------AAGAAGCGGGAA-AAGGGCCGUCCCAACCGACGCUGUCAUGUCAUC-UCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
-----------------..(((((((((.-........))))..(((.(((((((...(((((-((..((((......))))..)).)))))...)))).)))......))).))))).. ( -33.00)
>consensus
__GUG____________AAGAAUCGG_____AGGGUCGUCUCAACCGCCGCUGUCAUGUCAUC_UCAUGUUGAUGAAGCAACCGGAUGAUGAAUGGACGUGCGCCACAGUGGAGCUUCAA
................................(((....)))..(((((((((((...(((((.((..((((......))))..)).)))))...)))).))).....))))........ (-22.24 = -22.72 +   0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:29 2006