Locus 48

Sequence ID	3R_DroMel_CAF1
Location	307,310 – 307,430
Length	120
Max. P	0.842139

overview

Window 6

Location	307,310 – 307,430
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.58
Mean single sequence MFE	-43.62
Consensus MFE	-41.06
Energy contribution	-40.42
Covariance contribution	-0.64
Combinations/Pair	1.14
Mean z-score	-1.25
Structure conservation index	0.94
SVM decision value	0.75
SVM RNA-class probability	0.842139
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 307310 120 + 27905053
CAAGCGGCUGCAGGCCGCUGUUCACGAGCGGCACAAGGGGGAGCAGCUUAUGUUGAUGGAGCUGAUCGUGGAUUGUGUCCUGCACGAGGACAUUGAGUCCACCGUGUUUUAUAGCUUUAA
.((((((((((..((((((.......)))))).(....)...)))))).......(((((((.....((((((((((((((.....)))))))..)))))))...))))))).))))... ( -44.40)
>DroSec_CAF1 43712 120 + 1
CAAGCGGCUGCAGGCUGCUGUUCACGAGCGGCACAAGGGGGAGCAGCUUAUGUUGAUGGAGCUGAUCGUGGAUUGCGUCCUGCACGAGGACAUUGAGUCCACCGUGUUUUAUAGCUUUAA
...((((.((((((.(((.((((((((.((((.((........((((....)))).))..)))).)))))))).))).))))))...((((.....)))).))))............... ( -43.40)
>DroSim_CAF1 44559 120 + 1
CAAGCGACUGCAGGCUGCUGUUCACGAGCGGCACAAGGGGGAGCAGCUUAUGUUGAUGGAGCUGAUCGUGGAUUGCGUCCUGCACGAGGACAUUGAGUCCACCGUGUUUUAUAGCUUUAA
.((((....(((((.(((.((((((((.((((.((........((((....)))).))..)))).)))))))).))).)))))(((.((((.....))))..)))........))))... ( -42.50)
>DroEre_CAF1 46632 120 + 1
CAGGCGGCUGCAGGCCGCUGUGCACGAGCGGCACAAGGGGGAGCAGCUUAUGCUAAUGGAGCUGAUCGUGGAUUGCGUCCUGCACGAGGAUAUUGAGUCGACCGUGUUCUACAGCUUUAA
..((((((((((((.(((.((.(((((.((((.(.......((((.....))))....).)))).))))).)).))).))))).(((.....)))))))).))................. ( -43.40)
>DroYak_CAF1 46448 120 + 1
CAAGCGUCUGCAGGCCGCUGUUCACGAGCGGCACAAGGGAGAGCAACUUAUGCUAAUGGAGCUGAUCGUGGAUUGCGUCCUGCACGAGGAUAUUGAGUCCACCGUGUUCUAUAGCUUUAA
.((((.((((((((.(((.((((((((.((((.(.......((((.....))))....).)))).)))))))).))).)))))).))((((.....)))).............))))... ( -44.40)
>consensus
CAAGCGGCUGCAGGCCGCUGUUCACGAGCGGCACAAGGGGGAGCAGCUUAUGUUGAUGGAGCUGAUCGUGGAUUGCGUCCUGCACGAGGACAUUGAGUCCACCGUGUUUUAUAGCUUUAA
.((((....(((((.(((.((((((((.((((.(.......((((.....))))....).)))).)))))))).))).)))))(((.((((.....))))..)))........))))... (-41.06 = -40.42 +  -0.64)

alignment

secondary structure

dotplot

Window 7

Location	307,310 – 307,430
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.58
Mean single sequence MFE	-35.17
Consensus MFE	-31.78
Energy contribution	-32.66
Covariance contribution	0.88
Combinations/Pair	1.06
Mean z-score	-1.22
Structure conservation index	0.90
SVM decision value	0.34
SVM RNA-class probability	0.696084
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 307310 120 - 27905053
UUAAAGCUAUAAAACACGGUGGACUCAAUGUCCUCGUGCAGGACACAAUCCACGAUCAGCUCCAUCAACAUAAGCUGCUCCCCCUUGUGCCGCUCGUGAACAGCGGCCUGCAGCCGCUUG
...((((........((((.((((.....))))))))(((((.(((((.....((.(((((...........))))).))....)))))(((((.(....)))))))))))....)))). ( -39.40)
>DroSec_CAF1 43712 120 - 1
UUAAAGCUAUAAAACACGGUGGACUCAAUGUCCUCGUGCAGGACGCAAUCCACGAUCAGCUCCAUCAACAUAAGCUGCUCCCCCUUGUGCCGCUCGUGAACAGCAGCCUGCAGCCGCUUG
...((((........((((.((((.....))))))))(((((.(((((.....((.(((((...........))))).))....)))))..(((.(....))))..)))))....)))). ( -34.70)
>DroSim_CAF1 44559 120 - 1
UUAAAGCUAUAAAACACGGUGGACUCAAUGUCCUCGUGCAGGACGCAAUCCACGAUCAGCUCCAUCAACAUAAGCUGCUCCCCCUUGUGCCGCUCGUGAACAGCAGCCUGCAGUCGCUUG
...((((........((((.((((.....))))))))(((((.(((((.....((.(((((...........))))).))....)))))..(((.(....))))..)))))....)))). ( -34.70)
>DroEre_CAF1 46632 120 - 1
UUAAAGCUGUAGAACACGGUCGACUCAAUAUCCUCGUGCAGGACGCAAUCCACGAUCAGCUCCAUUAGCAUAAGCUGCUCCCCCUUGUGCCGCUCGUGCACAGCGGCCUGCAGCCGCCUG
.....(((((((.(((.((..((..........(((((.(........).))))).(((((...........))))).))..)).)))((((((.(....))))))))))))))...... ( -33.10)
>DroYak_CAF1 46448 120 - 1
UUAAAGCUAUAGAACACGGUGGACUCAAUAUCCUCGUGCAGGACGCAAUCCACGAUCAGCUCCAUUAGCAUAAGUUGCUCUCCCUUGUGCCGCUCGUGAACAGCGGCCUGCAGACGCUUG
...((((........((((.(((.......)))))))(((((.(((....(((((.(.((......((((.....)))).........)).).)))))....))).)))))....)))). ( -33.96)
>consensus
UUAAAGCUAUAAAACACGGUGGACUCAAUGUCCUCGUGCAGGACGCAAUCCACGAUCAGCUCCAUCAACAUAAGCUGCUCCCCCUUGUGCCGCUCGUGAACAGCGGCCUGCAGCCGCUUG
...((((........((((.((((.....))))))))(((((.(((((.....((.(((((...........))))).))....)))))(((((.(....)))))))))))....)))). (-31.78 = -32.66 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:19 2006