Locus 6173

Sequence ID	X_DroMel_CAF1
Location	15,744,566 – 15,744,677
Length	111
Max. P	0.999793

overview

Window 4

Location	15,744,566 – 15,744,677
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	76.64
Mean single sequence MFE	-34.34
Consensus MFE	-18.18
Energy contribution	-19.70
Covariance contribution	1.52
Combinations/Pair	1.33
Mean z-score	-3.54
Structure conservation index	0.53
SVM decision value	4.09
SVM RNA-class probability	0.999793
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15744566 111 + 22224390
U--------AUGUACACAUCGAGAUUAAAAUGGACUUCCAUGUCCAUUGUCCUAAUUUCGGUGCUGCA-GUUUUUUGUUGUUUUUUAGGAAAAACUGCAGCGUGGAGAAUGCUUUCAAUG
.--------.....(((((((((((((.(((((((......)))))))....))))))))))((((((-(((((((.(........).))))))))))))))))((((....)))).... ( -42.40)
>DroSec_CAF1 3578 108 + 1
U--------UUGUACACAUCGAGAUUAAAAUGGACUUCCAUGUCCAUUGUCCUAAUUUUGAUGCUGCA-GUU--UCGUUGUUCGU-UGGAAUAACUGCAGCGUGGAGAAUGCUUUCAAUA
.--------.....(((((((((((((.(((((((......)))))))....))))))))))((((((-((.--....(((((..-..))))))))))))))))((((....)))).... ( -37.10)
>DroSim_CAF1 3584 112 + 1
U----ACAUAUGUACACAUGGAGAUUAAAAUGGACUUCCAUGUCCAUUGUCCUAAUUUUGAUGCUGCA-GUU--UCGUUGUUCAU-CGGAAUAACUGCAGCGUGGAGAAUGCUUUCAAUA
.----.........(((((.(((((((.(((((((......)))))))....))))))).))((((((-(((--...(((.....-)))...))))))))))))((((....)))).... ( -34.10)
>DroEre_CAF1 3408 116 + 1
UAUGUAAAUAAGUACGCAUUGAGAAUAAAAUGUAGUUCCAUGUCCAAUGACACAGUCUUGCUUUUGCAAGAU--AAGUUGUUCGC-CG-AAAAACUGCAGCGUUGGCAACGCUAUUAAUA
..........((((.((.(((..(((....(((((((...((.(.((..((...(((((((....)))))))--..))..)).).-))-...)))))))..)))..))).)))))).... ( -24.90)
>DroYak_CAF1 3506 116 + 1
AAUGUACAUAUAUACACAUCGACAUUAAAAUGGACUUAGUUGUCCAUUGACCCAGUUUUAAAGCUGCA-GUU--UCGUUCUUCGC-UGGAAAAACUGUAGCGUCGAGGAUGCUUUCAAUA
..((((......))))..(((((.....(((((((......)))))))..............((((((-(((--(..((((....-.)))))))))))))))))))(((....))).... ( -33.20)
>consensus
U____A_AUAUGUACACAUCGAGAUUAAAAUGGACUUCCAUGUCCAUUGUCCUAAUUUUGAUGCUGCA_GUU__UCGUUGUUCGU_CGGAAAAACUGCAGCGUGGAGAAUGCUUUCAAUA
..............(((((((((((((.(((((((......)))))))....))))))))))((((((........(((.(((.....))).))))))))))))((((....)))).... (-18.18 = -19.70 +   1.52)

alignment

secondary structure

dotplot

Window 5

Location	15,744,566 – 15,744,677
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	76.64
Mean single sequence MFE	-28.13
Consensus MFE	-13.91
Energy contribution	-14.95
Covariance contribution	1.04
Combinations/Pair	1.19
Mean z-score	-2.70
Structure conservation index	0.49
SVM decision value	2.61
SVM RNA-class probability	0.995750
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15744566 111 - 22224390
CAUUGAAAGCAUUCUCCACGCUGCAGUUUUUCCUAAAAAACAACAAAAAAC-UGCAGCACCGAAAUUAGGACAAUGGACAUGGAAGUCCAUUUUAAUCUCGAUGUGUACAU--------A
................(((((((((((((((..............))))))-))))))..(((.(((((...(((((((......)))))))))))).)))..))).....--------. ( -30.94)
>DroSec_CAF1 3578 108 - 1
UAUUGAAAGCAUUCUCCACGCUGCAGUUAUUCCA-ACGAACAACGA--AAC-UGCAGCAUCAAAAUUAGGACAAUGGACAUGGAAGUCCAUUUUAAUCUCGAUGUGUACAA--------A
................((((((((((((......-...........--)))-))))))......((..(((.(((((((......)))))))....)))..))))).....--------. ( -26.03)
>DroSim_CAF1 3584 112 - 1
UAUUGAAAGCAUUCUCCACGCUGCAGUUAUUCCG-AUGAACAACGA--AAC-UGCAGCAUCAAAAUUAGGACAAUGGACAUGGAAGUCCAUUUUAAUCUCCAUGUGUACAUAUGU----A
........((((....((((((((((((....((-........)).--)))-))))))..........(((.(((((((......)))))))......)))..))).....))))----. ( -28.50)
>DroEre_CAF1 3408 116 - 1
UAUUAAUAGCGUUGCCAACGCUGCAGUUUUU-CG-GCGAACAACUU--AUCUUGCAAAAGCAAGACUGUGUCAUUGGACAUGGAACUACAUUUUAUUCUCAAUGCGUACUUAUUUACAUA
........((((((....(((((........-))-)))........--.((((((....))))))(((((((....)))))))................))))))(((......)))... ( -27.10)
>DroYak_CAF1 3506 116 - 1
UAUUGAAAGCAUCCUCGACGCUACAGUUUUUCCA-GCGAAGAACGA--AAC-UGCAGCUUUAAAACUGGGUCAAUGGACAACUAAGUCCAUUUUAAUGUCGAUGUGUAUAUAUGUACAUU
..............((((((((.(((((((...(-((..((.....--..)-)...)))..)))))))))).(((((((......))))))).....))))).((((((....)))))). ( -28.10)
>consensus
UAUUGAAAGCAUUCUCCACGCUGCAGUUUUUCCA_ACGAACAACGA__AAC_UGCAGCAUCAAAAUUAGGACAAUGGACAUGGAAGUCCAUUUUAAUCUCGAUGUGUACAUAU_U____A
........(((((......(((((((((....................))).))))))..............(((((((......)))))))........)))))............... (-13.91 = -14.95 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:21 2006