Locus 7058

Sequence ID	X_DroMel_CAF1
Location	17,679,841 – 17,679,952
Length	111
Max. P	0.917954

overview

Window 9

Location	17,679,841 – 17,679,952
Length	111
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	76.25
Mean single sequence MFE	-34.45
Consensus MFE	-19.50
Energy contribution	-20.32
Covariance contribution	0.81
Combinations/Pair	1.08
Mean z-score	-2.19
Structure conservation index	0.57
SVM decision value	1.12
SVM RNA-class probability	0.917954
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17679841 111 + 22224390
UGCCCCCUCCGAUUUAUCUAC-----UCCAAUCGCGCGAUUAGCGAGCCGAAAUUUCACAGUGUGUUUUCAGAGUCAGA--GAUACGGCAAAUCGGAGUGGGCACGGCCUUGCUGAUA
(((((.(((((((((......-----.....((((.......))))((((..(((((..(.(.((....)).).)..))--))).))))))))))))).)))))((((...))))... ( -40.30)
>DroSec_CAF1 400 117 + 1
UGCC-CCUCCGAUUUAUCUAUCUAUAUCCAAUCGCGCGAUUAGCGAGCCGAAAUUUCACAGUGUGUUUCCAGCGUCAGAGAGAUACGGCAAAUCGGAGUGGGCACGUCCAUGCUGAUA
((((-((((((((((................((((.......))))(((((....))...((((.((((........)))).)))))))))))))))).))))).............. ( -39.80)
>DroEre_CAF1 590 108 + 1
UGCC-CCUCCGAUUUGUCUAC-----UCCAAUCGCGCGAUUAGGGAGAAGCAU--UUGCAAUGUAUUCCGAACGUCAGA--GAUAUGGUAAAUCGGAGUGGGCACGUCCAUGCUGAUA
((((-((((((((((..(..(-----(((.(((....)))...))))..((..--..))...((((..(........).--.)))))..))))))))).))))).............. ( -35.80)
>DroYak_CAF1 398 86 + 1
UGCC-CCUCCGAUUUAUCUAC-----UCCAAUCG------------------------CAAUGUAUUUCAAACGUCAGA--GAUAUGGCAAAUCGGAAUGGGCACGACCAUGCUGAUA
((((-(.((((((((......-----.......(------------------------(...(((((((........))--))))).))))))))))..))))).............. ( -21.91)
>consensus
UGCC_CCUCCGAUUUAUCUAC_____UCCAAUCGCGCGAUUAGCGAGCCGAAA__UCACAAUGUAUUUCCAACGUCAGA__GAUACGGCAAAUCGGAGUGGGCACGUCCAUGCUGAUA
((((.((((((((((..(.............((((.......))))................(((((..............))))))..))))))))).))))).............. (-19.50 = -20.32 +   0.81)

alignment

secondary structure

dotplot

Window 0

Location	17,679,841 – 17,679,952
Length	111
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	76.25
Mean single sequence MFE	-34.68
Consensus MFE	-19.42
Energy contribution	-19.67
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-2.06
Structure conservation index	0.56
SVM decision value	0.68
SVM RNA-class probability	0.820872
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17679841 111 - 22224390
UAUCAGCAAGGCCGUGCCCACUCCGAUUUGCCGUAUC--UCUGACUCUGAAAACACACUGUGAAAUUUCGGCUCGCUAAUCGCGCGAUUGGA-----GUAGAUAAAUCGGAGGGGGCA
..............(((((.((((((((((.(....(--((..(..((((((.(((...)))...)))))).((((.......)))))..))-----)..).)))))))))).))))) ( -36.60)
>DroSec_CAF1 400 117 - 1
UAUCAGCAUGGACGUGCCCACUCCGAUUUGCCGUAUCUCUCUGACGCUGGAAACACACUGUGAAAUUUCGGCUCGCUAAUCGCGCGAUUGGAUAUAGAUAGAUAAAUCGGAGG-GGCA
..............(((((.((((((((((.(.(((((.((..(.(((((((.(((...)))...)))))))((((.......)))))..))...)))))).)))))))))))-)))) ( -40.60)
>DroEre_CAF1 590 108 - 1
UAUCAGCAUGGACGUGCCCACUCCGAUUUACCAUAUC--UCUGACGUUCGGAAUACAUUGCAA--AUGCUUCUCCCUAAUCGCGCGAUUGGA-----GUAGACAAAUCGGAGG-GGCA
..............(((((.(((((((((........--((((.....))))...........--...((.((((..((((....)))))))-----).))..))))))))))-)))) ( -33.10)
>DroYak_CAF1 398 86 - 1
UAUCAGCAUGGUCGUGCCCAUUCCGAUUUGCCAUAUC--UCUGACGUUUGAAAUACAUUG------------------------CGAUUGGA-----GUAGAUAAAUCGGAGG-GGCA
..............(((((.((((((((((...((.(--((..((((.((.....))..)------------------------)).)..))-----)))..)))))))))))-)))) ( -28.40)
>consensus
UAUCAGCAUGGACGUGCCCACUCCGAUUUGCCAUAUC__UCUGACGCUGGAAACACACUGUGA__UUUCGGCUCGCUAAUCGCGCGAUUGGA_____GUAGAUAAAUCGGAGG_GGCA
..............(((((.((((((((((.(.(((...((..((((....................................))).)..)).....)))).))))))))))).)))) (-19.42 = -19.67 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:09 2006