Locus 1679

Sequence ID	2R_DroMel_CAF1
Location	6,356,043 – 6,356,146
Length	103
Max. P	0.831693

overview

Window 1

Location	6,356,043 – 6,356,146
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	91.65
Mean single sequence MFE	-34.31
Consensus MFE	-28.74
Energy contribution	-29.54
Covariance contribution	0.80
Combinations/Pair	1.12
Mean z-score	-1.39
Structure conservation index	0.84
SVM decision value	0.32
SVM RNA-class probability	0.688635
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6356043 103 + 20766785
CCUUGCACUCCCAUUACCAUUGCUUAUAUUGUUAUUCAGGCUAUUGCGGCCCUGAUUGCUGGUCUUAAUGGGGGGCAGGUAGGUGACCACCUUGGGUGGCACC
.(((((.((((((((((((..((............(((((((.....)).)))))..))))))...)))))))))))))..((((.(((((...))))))))) ( -40.14)
>DroSec_CAF1 16302 103 + 1
CCUUGCACUCCCAUUACCAUUGCUGAUAUUGUUAUUCAGGCUAUUGCGGCCCUGAUUGCUGGUCUUAAUGGGGGGCAGGUAGUUGACCAGCUUUGGUGGCACC
.(((((.(((((((((........(((...((...(((((((.....)).)))))..))..))).))))))))))))))..(((.(((......))))))... ( -31.90)
>DroSim_CAF1 18879 100 + 1
CCUUGCACUCCCAUUACCAUUGCUGAUUUUGU-AUUC-GGUUAUUGCGGCCCUGAUUGCUGGUCU-AAGGGGGGGCAGGUAGUUGACCACCUUUGGUGGCACC
.(((((.(((((...((((..(((((......-..))-)))....((((......))))))))..-...))))))))))....((.(((((...))))))).. ( -31.10)
>DroEre_CAF1 16530 103 + 1
CCUGGCACUCCCAUUACUGUUGCUGAUAUUGUUAUUCAGGCUAUUGCGUCCCUGAUUGCUGGUCUUAAUGGGGGGCAGGUAGGUGACCACCUUUGGUGGCACC
((((.(.(((((((((........(((...((...(((((..........)))))..))..))).))))))))))))))..((((.(((((...))))))))) ( -36.90)
>DroYak_CAF1 16712 103 + 1
CCUGGCACCCCCAUUACUGUUGCUGGUAUUGUUAUUUAGGCUAUUGCGUCCCUGAUUGCUGGUCUUAAUGGGAGGCAAGUAGGUGACCACCUUUGGUGGCACC
.((.((.(.(((((((.....((..(((..((((...(.((....)).)...)))))))..))..))))))).))).))..((((.(((((...))))))))) ( -31.50)
>consensus
CCUUGCACUCCCAUUACCAUUGCUGAUAUUGUUAUUCAGGCUAUUGCGGCCCUGAUUGCUGGUCUUAAUGGGGGGCAGGUAGGUGACCACCUUUGGUGGCACC
.(((((.((((((((((((..((............(((((..........)))))..))))))...)))))))))))))..((((.(((((...))))))))) (-28.74 = -29.54 +   0.80)

alignment

secondary structure

dotplot

Window 2

Location	6,356,043 – 6,356,146
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	91.65
Mean single sequence MFE	-30.91
Consensus MFE	-24.10
Energy contribution	-25.74
Covariance contribution	1.64
Combinations/Pair	1.03
Mean z-score	-1.86
Structure conservation index	0.78
SVM decision value	0.72
SVM RNA-class probability	0.831693
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6356043 103 - 20766785
GGUGCCACCCAAGGUGGUCACCUACCUGCCCCCCAUUAAGACCAGCAAUCAGGGCCGCAAUAGCCUGAAUAACAAUAUAAGCAAUGGUAAUGGGAGUGCAAGG
(((((((((...))))).))))..((((((.((((((...((((((..(((((..........)))))(((....)))..))..)))))))))).).)).))) ( -34.90)
>DroSec_CAF1 16302 103 - 1
GGUGCCACCAAAGCUGGUCAACUACCUGCCCCCCAUUAAGACCAGCAAUCAGGGCCGCAAUAGCCUGAAUAACAAUAUCAGCAAUGGUAAUGGGAGUGCAAGG
.(..(..(((..(((((((....................)))))))..(((((..........))))).......(((((....))))).)))..)..).... ( -29.25)
>DroSim_CAF1 18879 100 - 1
GGUGCCACCAAAGGUGGUCAACUACCUGCCCCCCCUU-AGACCAGCAAUCAGGGCCGCAAUAACC-GAAU-ACAAAAUCAGCAAUGGUAAUGGGAGUGCAAGG
(((((((((...))))))..))).(((((.(.(((..-..((((((.....((..........))-((..-......)).))..))))...))).).)).))) ( -25.40)
>DroEre_CAF1 16530 103 - 1
GGUGCCACCAAAGGUGGUCACCUACCUGCCCCCCAUUAAGACCAGCAAUCAGGGACGCAAUAGCCUGAAUAACAAUAUCAGCAACAGUAAUGGGAGUGCCAGG
(((((((((...))))).))))..((((((.(((((((......((..(((((..........)))))(((....)))..)).....))))))).).).)))) ( -32.80)
>DroYak_CAF1 16712 103 - 1
GGUGCCACCAAAGGUGGUCACCUACUUGCCUCCCAUUAAGACCAGCAAUCAGGGACGCAAUAGCCUAAAUAACAAUACCAGCAACAGUAAUGGGGGUGCCAGG
(((((((((...))))).))))..((.(((((((((((...((........))...((....)).......................))))))))).)).)). ( -32.20)
>consensus
GGUGCCACCAAAGGUGGUCACCUACCUGCCCCCCAUUAAGACCAGCAAUCAGGGCCGCAAUAGCCUGAAUAACAAUAUCAGCAAUGGUAAUGGGAGUGCAAGG
(((((((((...))))).))))..((((((.(((((((......((..(((((..........)))))(((....)))..)).....))))))).).)).))) (-24.10 = -25.74 +   1.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:28 2006