Locus 6837

Sequence ID	X_DroMel_CAF1
Location	17,011,634 – 17,011,765
Length	131
Max. P	0.940495

overview

Window 6

Location	17,011,634 – 17,011,730
Length	96
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	78.54
Mean single sequence MFE	-24.12
Consensus MFE	-16.16
Energy contribution	-15.83
Covariance contribution	-0.33
Combinations/Pair	1.16
Mean z-score	-1.42
Structure conservation index	0.67
SVM decision value	0.42
SVM RNA-class probability	0.727776
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17011634 96 + 22224390
UUGGUCCCAGAAUAAGUGGAAAAAGGAAACAGCUAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUC-
(((((.(((.......))).....(....).)))))((((((((((........(((....))).......(((...)---)).----..))))))))))...- ( -21.40)
>DroPse_CAF1 22084 86 + 1
----------------GGGAAAAAGGAAACUGUUAAUGAUGAUGAUUACCAUUC-AUCAUUAUCAUUAUCAGGCGCGGUCUCCGCUUUGCGCUGUCGUCAAUC-
----------------.............(((.(((((((((((((........-))))))))))))).)))((((((........))))))...........- ( -25.20)
>DroSec_CAF1 16507 97 + 1
UUGGUCCCAGAAUAAGUGGAAAAAGGAAACAGCUAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUCC
(((((.(((.......))).....(....).)))))((((((((((........(((....))).......(((...)---)).----..)))))))))).... ( -21.40)
>DroEre_CAF1 17086 96 + 1
UAGGUCCCAGAAUAGCUGGAAAAAGGAAACUGCUAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUC-
..(((.((((.....))))......((..(((.(((((((((((.............))))))))))).)))...)))---))(----((......)))....- ( -27.62)
>DroYak_CAF1 18149 96 + 1
UUGGUCCCAGAAUAAGUGGAAAAAGGAAACUGCUAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUC-
..(((.(((.......)))......((..(((.(((((((((((.............))))))))))).)))...)))---))(----((......)))....- ( -23.92)
>DroPer_CAF1 19704 86 + 1
----------------GGGAAAAAGGAAACUGUUAAUGAUGAUGAUUCCCAUUC-AUCAUUAUCAUUAUCAGGCGCGGUCUCCCCUUUGCGCUGUCGUCAAUC-
----------------.............(((.(((((((((((((........-))))))))))))).)))((((((........))))))...........- ( -25.20)
>consensus
UUGGUCCCAGAAUAAGUGGAAAAAGGAAACUGCUAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG___CCG____ACAUCGUCGUCAAUC_
........................(....).(.(((((((((((.............))))))))))).).((((.((..............)).))))..... (-16.16 = -15.83 +  -0.33)

alignment

secondary structure

dotplot

Window 7

Location	17,011,667 – 17,011,765
Length	98
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	77.57
Mean single sequence MFE	-25.58
Consensus MFE	-14.30
Energy contribution	-13.50
Covariance contribution	-0.80
Combinations/Pair	1.21
Mean z-score	-2.28
Structure conservation index	0.56
SVM decision value	1.29
SVM RNA-class probability	0.940495
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17011667 98 + 22224390
UAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUC-GUUGGCAUGGCAUUCUGUGUCUAGUUCGCCU-----UGCC
(((((((((((.............)))))))))))..(((((.((---(((----((.............-))))))..(((((...)))))..)..)))))-----.... ( -29.04)
>DroPse_CAF1 22101 92 + 1
UAAUGAUGAUGAUUACCAUUC-AUCAUUAUCAUUAUCAGGCGCGGUCUCCGCUUUGCGCUGUCGUCAAUC-GUU--CUUGGCAU--UCC--------CCCCC-----UCCC
(((((((((((((........-)))))))))))))...(((((((........)))))))...(((((..-...--.)))))..--...--------.....-----.... ( -25.60)
>DroSec_CAF1 16540 97 + 1
UAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUCCGUU--CAUGGCAUUCUGUGUCUAGUUUGCCU-----UGUC
(((((((((((.............)))))))))))...((((.((---...----....)).))))........--((.((((..(((....)))..)))).-----)).. ( -25.32)
>DroEre_CAF1 17119 96 + 1
UAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUC-GUU--CAUGGCAUUCUGUGUCUAGUUUACCU-----UGCC
(((((((((((.............)))))))))))...(((...)---))(----((((.(..((((...-...--..))))...).)))))..........-----.... ( -21.62)
>DroYak_CAF1 18182 101 + 1
UAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG---CCG----ACAUCGUCGUCAAUC-GUU--CAUGGUAUUCUGUGUCUAGUUUGCCUUGCCUUGCC
(((((((((((.............)))))))))))...((((..(---(.(----((......)))....-...--...((((..(((....)))..))))..))..)))) ( -26.32)
>DroPer_CAF1 19721 94 + 1
UAAUGAUGAUGAUUCCCAUUC-AUCAUUAUCAUUAUCAGGCGCGGUCUCCCCUUUGCGCUGUCGUCAAUC-GUU--CUUGGCAUUUUCU--------CCCCC-----CCCC
(((((((((((((........-)))))))))))))...(((((((........)))))))...(((((..-...--.))))).......--------.....-----.... ( -25.60)
>consensus
UAAUGAUGAUGAUUACCAUCCGACCAUCGUCAUUAUCAGGCGUCG___CCG____ACAUCGUCGUCAAUC_GUU__CAUGGCAUUCUGUGUCUAGUUCGCCU_____UGCC
(((((((((((.............)))))))))))...((((.................))))((((...........))))............................. (-14.30 = -13.50 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:09 2006