Locus 5827

Sequence ID	3L_DroMel_CAF1
Location	15,752,080 – 15,752,200
Length	120
Max. P	0.745945

overview

Window 6

Location	15,752,080 – 15,752,200
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.92
Mean single sequence MFE	-40.33
Consensus MFE	-36.47
Energy contribution	-36.97
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.70
Structure conservation index	0.90
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15752080 120 + 23771897
GCACGAAGUGCAAACAAGAUGGCAGACGUGAAAGGAUACACAGUAUGGGUGGUUUUCGGGUGGAAGCUAGGAUCCGGAACGUCAGGAUGACAGUCUCCUCCUGUCUGCCGUUGAUAGAUG
((((...))))......((((((((((..(((((....(((.......))).)))))(((.(((..((.(.((((.(.....).))))..)))..))).)))))))))))))........ ( -39.10)
>DroSec_CAF1 3798 120 + 1
GCACGAAGUGCAAACAAGAUGGCAGACGUGAAAGGAUACACAGUAUGGGUGGUUUUCGUGUGGAAGCUAGGAUCCGGAACGUCAGGAUGACAGUCUCCUCCUGUCUGCCGUUGAUAGAUG
((((...))))......(((((((((((.((..(((.((...((.((((((((((((....)))))))...)))))..))(((.....))).)).))))).)))))))))))........ ( -38.90)
>DroSim_CAF1 4031 120 + 1
GCACGAAGUGCAAACAAGAUGGCAGACGUGAAAGGAUACACAGUAUGGGUGGUUUUCGGGUGGAAGCUAGGAUCCGGAACGUCAGGAUGACAGUCUCCUCCUGUCUGCCGUUGAUAGAUG
((((...))))......((((((((((..(((((....(((.......))).)))))(((.(((..((.(.((((.(.....).))))..)))..))).)))))))))))))........ ( -39.10)
>DroEre_CAF1 3769 119 + 1
GCACGAAGUGCAAACAAGAUGGCAGACGUGAAAGGAUACACAGGAUGGGUGGUU-UCGGGUGGAAGCUAGGAUCCGGAACGCCAGGAUGACAGUGUCCUCCUGUCUGCCGUUGAUAGAUG
((((...))))......(((((((((((((........)))((((..((((.((-((((((..........)))))))))))).((((......))))))))))))))))))........ ( -44.20)
>consensus
GCACGAAGUGCAAACAAGAUGGCAGACGUGAAAGGAUACACAGUAUGGGUGGUUUUCGGGUGGAAGCUAGGAUCCGGAACGUCAGGAUGACAGUCUCCUCCUGUCUGCCGUUGAUAGAUG
((((...))))......((((((((((..(((((....(((.......))).)))))(((.(((..((.(.((((.(.....).))))..)))..))).)))))))))))))........ (-36.47 = -36.97 +   0.50)

alignment

secondary structure

dotplot

Window 7

Location	15,752,080 – 15,752,200
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.92
Mean single sequence MFE	-31.63
Consensus MFE	-30.54
Energy contribution	-30.35
Covariance contribution	-0.19
Combinations/Pair	1.04
Mean z-score	-1.81
Structure conservation index	0.97
SVM decision value	0.46
SVM RNA-class probability	0.745945
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15752080 120 - 23771897
CAUCUAUCAACGGCAGACAGGAGGAGACUGUCAUCCUGACGUUCCGGAUCCUAGCUUCCACCCGAAAACCACCCAUACUGUGUAUCCUUUCACGUCUGCCAUCUUGUUUGCACUUCGUGC
...........(((((((.((.(((..(((..((((.(.....).))))..)))..))).)).................(((........)))))))))).........((((...)))) ( -31.50)
>DroSec_CAF1 3798 120 - 1
CAUCUAUCAACGGCAGACAGGAGGAGACUGUCAUCCUGACGUUCCGGAUCCUAGCUUCCACACGAAAACCACCCAUACUGUGUAUCCUUUCACGUCUGCCAUCUUGUUUGCACUUCGUGC
...........((((((((((((((..(((..((((.(.....).))))..)))..)))(((((..............))))).)))).....))))))).........((((...)))) ( -31.54)
>DroSim_CAF1 4031 120 - 1
CAUCUAUCAACGGCAGACAGGAGGAGACUGUCAUCCUGACGUUCCGGAUCCUAGCUUCCACCCGAAAACCACCCAUACUGUGUAUCCUUUCACGUCUGCCAUCUUGUUUGCACUUCGUGC
...........(((((((.((.(((..(((..((((.(.....).))))..)))..))).)).................(((........)))))))))).........((((...)))) ( -31.50)
>DroEre_CAF1 3769 119 - 1
CAUCUAUCAACGGCAGACAGGAGGACACUGUCAUCCUGGCGUUCCGGAUCCUAGCUUCCACCCGA-AACCACCCAUCCUGUGUAUCCUUUCACGUCUGCCAUCUUGUUUGCACUUCGUGC
...........((((((((((((((.((.(((.....))))))))(((........)))......-.........))))(((........)))))))))).........((((...)))) ( -32.00)
>consensus
CAUCUAUCAACGGCAGACAGGAGGAGACUGUCAUCCUGACGUUCCGGAUCCUAGCUUCCACCCGAAAACCACCCAUACUGUGUAUCCUUUCACGUCUGCCAUCUUGUUUGCACUUCGUGC
...........(((((((.((.(((.((.(((.....))))))))(((........))).........)).........(((........)))))))))).........((((...)))) (-30.54 = -30.35 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:04 2006