Locus 8971

Sequence ID	3R_DroMel_CAF1
Location	24,066,120 – 24,066,212
Length	92
Max. P	0.980650

overview

Window 8

Location	24,066,120 – 24,066,212
Length	92
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	93.59
Mean single sequence MFE	-25.48
Consensus MFE	-22.86
Energy contribution	-23.08
Covariance contribution	0.22
Combinations/Pair	1.11
Mean z-score	-1.97
Structure conservation index	0.90
SVM decision value	1.87
SVM RNA-class probability	0.980650
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24066120 92 + 27905053
CUUACGCACACUUGAGUGUGUGGCUGCAAACACGUUAAUAUAUGCAUAGAAAAAG-----GCGCUGCCAGCGAUUGCAGCCGAGCAAGAGAGAAAUA
(((.(((((((....))))))((((((((.(.(((........)).........(-----((...))).).).))))))))......).)))..... ( -26.60)
>DroSec_CAF1 260811 92 + 1
CUUACGCACACUUGAGUGUGUGGCUGCAAACACGUUAAUACAUGCAUAGAAAAAG-----GCGCUGCCAGCGAUUGCAGCCGAGCAAGAGAGAAAUA
(((.(((((((....))))))((((((((.(.(((........)).........(-----((...))).).).))))))))......).)))..... ( -26.60)
>DroSim_CAF1 259282 92 + 1
CUUACGCACACUUGAGUGUGUGGCUGCAAACACGUUAAUAUAUGCAUAGAAAAAG-----GCGCUGCCAGCGAUUGCAGCCGAGCAAGAGAGAAAUA
(((.(((((((....))))))((((((((.(.(((........)).........(-----((...))).).).))))))))......).)))..... ( -26.60)
>DroEre_CAF1 272871 92 + 1
CUUACGCACACUUGAGUGUGUGGCUGCAAACACGUUAAUAUAUGCAUAGAAAAAG-----GCGCUGCCAGCGAUUGCAGCCGAGCAAGAGAGAAAUA
(((.(((((((....))))))((((((((.(.(((........)).........(-----((...))).).).))))))))......).)))..... ( -26.60)
>DroYak_CAF1 272413 92 + 1
CUUACGCACACUUGAGUGUGUGGCUGCAAACACGUUAAUAUAUGCAUAGAAAAAG-----GCGCUGCCAGCGAUUGCAGCCGAGCAAGAGAGAAAUA
(((.(((((((....))))))((((((((.(.(((........)).........(-----((...))).).).))))))))......).)))..... ( -26.60)
>DroAna_CAF1 271152 94 + 1
---AAGCGCACUUGAGGGUGUGGCAGUAAACACGUUAAUGUAUGCAUAGAAAAAAAAACAACGCUGCCAGCAAUUGCAGCCGAGCAAGAGAGAAAUA
---...((((((....))))))((.(((.(((......))).))).................(((((.(....).)))))...))............ ( -19.90)
>consensus
CUUACGCACACUUGAGUGUGUGGCUGCAAACACGUUAAUAUAUGCAUAGAAAAAG_____GCGCUGCCAGCGAUUGCAGCCGAGCAAGAGAGAAAUA
.....((((((....))))))((((((((....((........))................(((.....))).))))))))................ (-22.86 = -23.08 +   0.22)

alignment

secondary structure

dotplot

Window 9

Location	24,066,120 – 24,066,212
Length	92
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	93.59
Mean single sequence MFE	-26.22
Consensus MFE	-21.19
Energy contribution	-22.38
Covariance contribution	1.19
Combinations/Pair	1.04
Mean z-score	-2.50
Structure conservation index	0.81
SVM decision value	0.53
SVM RNA-class probability	0.772474
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24066120 92 - 27905053
UAUUUCUCUCUUGCUCGGCUGCAAUCGCUGGCAGCGC-----CUUUUUCUAUGCAUAUAUUAACGUGUUUGCAGCCACACACUCAAGUGUGCGUAAG
.........(((((..((((((((.(((.(((...))-----)......(((....))).....))).)))))))).(((((....))))).))))) ( -27.60)
>DroSec_CAF1 260811 92 - 1
UAUUUCUCUCUUGCUCGGCUGCAAUCGCUGGCAGCGC-----CUUUUUCUAUGCAUGUAUUAACGUGUUUGCAGCCACACACUCAAGUGUGCGUAAG
.........(((((..((((((((.(((.....))).-----..........((((((....)))))))))))))).(((((....))))).))))) ( -30.80)
>DroSim_CAF1 259282 92 - 1
UAUUUCUCUCUUGCUCGGCUGCAAUCGCUGGCAGCGC-----CUUUUUCUAUGCAUAUAUUAACGUGUUUGCAGCCACACACUCAAGUGUGCGUAAG
.........(((((..((((((((.(((.(((...))-----)......(((....))).....))).)))))))).(((((....))))).))))) ( -27.60)
>DroEre_CAF1 272871 92 - 1
UAUUUCUCUCUUGCUCGGCUGCAAUCGCUGGCAGCGC-----CUUUUUCUAUGCAUAUAUUAACGUGUUUGCAGCCACACACUCAAGUGUGCGUAAG
.........(((((..((((((((.(((.(((...))-----)......(((....))).....))).)))))))).(((((....))))).))))) ( -27.60)
>DroYak_CAF1 272413 92 - 1
UAUUUCUCUCUUGCUCGGCUGCAAUCGCUGGCAGCGC-----CUUUUUCUAUGCAUAUAUUAACGUGUUUGCAGCCACACACUCAAGUGUGCGUAAG
.........(((((..((((((((.(((.(((...))-----)......(((....))).....))).)))))))).(((((....))))).))))) ( -27.60)
>DroAna_CAF1 271152 94 - 1
UAUUUCUCUCUUGCUCGGCUGCAAUUGCUGGCAGCGUUGUUUUUUUUUCUAUGCAUACAUUAACGUGUUUACUGCCACACCCUCAAGUGCGCUU---
...........(((.((((.......)))))))((((((.....................)))))).......(((((........))).))..--- ( -16.10)
>consensus
UAUUUCUCUCUUGCUCGGCUGCAAUCGCUGGCAGCGC_____CUUUUUCUAUGCAUAUAUUAACGUGUUUGCAGCCACACACUCAAGUGUGCGUAAG
.........(((((..((((((((.(((.....)))................((((........)))))))))))).(((((....))))).))))) (-21.19 = -22.38 +   1.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:52 2006