Locus 5917

Sequence ID	3R_DroMel_CAF1
Location	15,579,096 – 15,579,191
Length	95
Max. P	0.944581

overview

Window 6

Location	15,579,096 – 15,579,191
Length	95
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	80.16
Mean single sequence MFE	-31.75
Consensus MFE	-24.55
Energy contribution	-24.19
Covariance contribution	-0.36
Combinations/Pair	1.31
Mean z-score	-2.42
Structure conservation index	0.77
SVM decision value	1.35
SVM RNA-class probability	0.944581
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15579096 95 + 27905053
GGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAG------CAGCUAUAGU-A-U----GUGACUUUGCCUGGGCUU-UUGAUAAGUGCGACUG
.((((.(((((.........))))).)))).((((.(((.((((((((.------((((....))-.-)----))))))))))))(.((((-.....)))).))))). ( -29.40)
>DroVir_CAF1 207433 96 + 1
GGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGUCAG------CAGCAAUUGU-GAC----CUGGCUUUGCCUGGGCUU-CAGAUAAGUGCGACAG
.((((.(((((.........))))).))))(((((.(((.(((((((((------..((....))-...----)))))))))))).)))))-................ ( -33.80)
>DroGri_CAF1 122756 96 + 1
GGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGCCAG------CAGCUGUUGU-GGC----UUGGCUUUGCCUGGGCUU-CUGAUAAGUGCGACAG
.((((.(((((.........))))).))))(((((.(((.(((((((((------(.((....))-.))----.))))))))))).)))))-................ ( -37.10)
>DroWil_CAF1 95089 101 + 1
GGAGCAUAAAUUUUGGAAUUAUUUCGACUCAAGUCGAGGUCAGAGUCAG------AGUUGAUAAAAA-UGAUAAUGACUUUGCCUGGGCUAAGUGAUAAGUGCGACAG
(..((((........(((....))).(((..((((.(((.((((((((.------.(((........-.)))..))))))))))).)))).))).....))))..).. ( -28.40)
>DroMoj_CAF1 197766 102 + 1
GGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGCCGGCCAGCGCACCUUUUGU-GGC----UGGGCUUUGUCGAGGCUU-CUGAUAAGUGCGACAG
.((((.(((((.........))))).))))(((((...(((((((((...((((.(((.....))-)))----)))))))))))..)))))-................ ( -36.30)
>DroAna_CAF1 99998 93 + 1
GGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUUGGAGUCAG------CUUCUACA-U-A-U----AUGACUUUGCCUUGGCU--UUGAUAAGUGCGACAG
.((((.(((((.........))))).))))(((((((((.(..(((((.------........-.-.-.----.)))))..)))))))))--)............... ( -25.52)
>consensus
GGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGUCAG______CAGCUAUAGU_A_C____AUGACUUUGCCUGGGCUU_CUGAUAAGUGCGACAG
.((((.(((((.........))))).)))).((((.(((.((((((((.........((....)).........))))))))))).)))).................. (-24.55 = -24.19 +  -0.36)

alignment

secondary structure

dotplot

Window 7

Location	15,579,096 – 15,579,191
Length	95
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	80.16
Mean single sequence MFE	-24.96
Consensus MFE	-15.41
Energy contribution	-15.52
Covariance contribution	0.11
Combinations/Pair	1.14
Mean z-score	-2.45
Structure conservation index	0.62
SVM decision value	1.08
SVM RNA-class probability	0.912007
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15579096 95 - 27905053
CAGUCGCACUUAUCAA-AAGCCCAGGCAAAGUCAC----A-U-ACUAUAGCUG------CUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCC
.(((((..(((.....-)))...(((((.((((((----(-.-........))------.))))).)).)))))))).((((((((((.........)))))))))). ( -22.00)
>DroVir_CAF1 207433 96 - 1
CUGUCGCACUUAUCUG-AAGCCCAGGCAAAGCCAG----GUC-ACAAUUGCUG------CUGACUCUGUCCUCGGCUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCC
................-(((((.(((......(((----(((-(((.....))------.)))).))).))).)))))((((((((((.........)))))))))). ( -25.50)
>DroGri_CAF1 122756 96 - 1
CUGUCGCACUUAUCAG-AAGCCCAGGCAAAGCCAA----GCC-ACAACAGCUG------CUGGCUCUGUCCUCGGCUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCC
(((..........)))-(((((.(((((.((((((----((.-......))).------.))))).)).))).)))))((((((((((.........)))))))))). ( -32.40)
>DroWil_CAF1 95089 101 - 1
CUGUCGCACUUAUCACUUAGCCCAGGCAAAGUCAUUAUCA-UUUUUAUCAACU------CUGACUCUGACCUCGACUUGAGUCGAAAUAAUUCCAAAAUUUAUGCUCC
.....(((................((((.(((((......-............------.))))).)).))(((((....))))).................)))... ( -15.21)
>DroMoj_CAF1 197766 102 - 1
CUGUCGCACUUAUCAG-AAGCCUCGACAAAGCCCA----GCC-ACAAAAGGUGCGCUGGCCGGCUCUGUCCUCGGCUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCC
(((..........)))-(((((..((((.((((((----(((-((.....))).))))...)))).))))...)))))((((((((((.........)))))))))). ( -35.90)
>DroAna_CAF1 99998 93 - 1
CUGUCGCACUUAUCAA--AGCCAAGGCAAAGUCAU----A-U-A-UGUAGAAG------CUGACUCCAACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCC
..((((..........--.((....))..(((((.----.-.-.-........------.))))).......))))..((((((((((.........)))))))))). ( -18.72)
>consensus
CUGUCGCACUUAUCAG_AAGCCCAGGCAAAGCCAA____A_C_ACAAUAGCUG______CUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCC
..((((.............((....))..(((((..........................))))).......))))..((((((((((.........)))))))))). (-15.41 = -15.52 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:48 2006