Locus 2151

Sequence ID	2R_DroMel_CAF1
Location	8,014,602 – 8,014,692
Length	90
Max. P	0.998925

overview

Window 8

Location	8,014,602 – 8,014,692
Length	90
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	69.61
Mean single sequence MFE	-21.74
Consensus MFE	-11.72
Energy contribution	-14.28
Covariance contribution	2.56
Combinations/Pair	1.17
Mean z-score	-2.66
Structure conservation index	0.54
SVM decision value	3.28
SVM RNA-class probability	0.998925
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8014602 90 + 20766785
--------------GCACACAUUCCAAACGUGUGUGAAAA-------AUGGGAGAGUAAGUCUGGCUCUUAAAUAAAUAAAGUUAUACAAGUCCUAGGCUUACAUUAACCA
--------------.(((((((.......)))))))....-------.(((..((((((((((((..(((..((((......))))..)))..)))))))))).))..))) ( -26.20)
>DroSec_CAF1 28755 88 + 1
--------------ACACACAUUUCAAAUGUGUUUGAAAA-------AUGGG--AGUAAGUCUGGCUCUUAAAUAAAUAAAGUUAUAUAAGCUCUAGGCUUACAUUAACUA
--------------...((..(((((((....))))))).-------.))..--.((((((((((..((((.((((......)))).))))..))))))))))........ ( -21.80)
>DroSim_CAF1 29578 90 + 1
--------------ACACACAUUUCGAAUGUGUGUGAAAA-------AUGGGAGAGUAAGUCUGGCUCUUAAAUACAUAAAGUUAUACAAGUUCUAGGCUUACAUUAACCA
--------------((((((((.....)))))))).....-------.(((..((((((((((((..(((....((.....)).....)))..)))))))))).))..))) ( -26.50)
>DroEre_CAF1 28493 105 + 1
UGGAAGUUAGACAAACACAUACUCCAAACGUGUGUC-----CCUUCCAUGAAUUUUUCAGUC-AACUCUUAUAUAAAUGAAGUUAUACAAGUUCUAAGCUUACGUUAACUA
((((((...(((..((((...........)))))))-----.))))))..............-.................(((((...((((.....))))....))))). ( -15.00)
>DroYak_CAF1 28654 110 + 1
UGAGAGUUAGGCAAGCACACACUCUAAAAGUGGGAGAAAGUAAGACUAUGGCUUAUUGAGUA-AACUCUUAAAUAAAUAAAGUUAAACAAGUUCAAGGCUUACAUUAACUA
((((((((..((.........((((.......))))..((((((.(....)))))))..)).-)))))))).........((((((..((((.....))))...)))))). ( -19.20)
>consensus
______________ACACACAUUCCAAACGUGUGUGAAAA_______AUGGGAGAGUAAGUCUGGCUCUUAAAUAAAUAAAGUUAUACAAGUUCUAGGCUUACAUUAACUA
...............(((((((.......)))))))...................((((((((((..(((..((((......))))..)))..))))))))))........ (-11.72 = -14.28 +   2.56)

alignment

secondary structure

dotplot

Window 9

Location	8,014,602 – 8,014,692
Length	90
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	69.61
Mean single sequence MFE	-20.29
Consensus MFE	-6.44
Energy contribution	-8.12
Covariance contribution	1.68
Combinations/Pair	1.22
Mean z-score	-1.80
Structure conservation index	0.32
SVM decision value	0.23
SVM RNA-class probability	0.642918
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8014602 90 - 20766785
UGGUUAAUGUAAGCCUAGGACUUGUAUAACUUUAUUUAUUUAAGAGCCAGACUUACUCUCCCAU-------UUUUCACACACGUUUGGAAUGUGUGC--------------
(((.....(((((.((.((.((((.((((......)))).))))..)))).)))))....))).-------......(((((((.....))))))).-------------- ( -18.90)
>DroSec_CAF1 28755 88 - 1
UAGUUAAUGUAAGCCUAGAGCUUAUAUAACUUUAUUUAUUUAAGAGCCAGACUUACU--CCCAU-------UUUUCAAACACAUUUGAAAUGUGUGU--------------
........(((((.((.(..((((.((((......)))).))))..).)).))))).--..(((-------.(((((((....))))))).)))...-------------- ( -15.80)
>DroSim_CAF1 29578 90 - 1
UGGUUAAUGUAAGCCUAGAACUUGUAUAACUUUAUGUAUUUAAGAGCCAGACUUACUCUCCCAU-------UUUUCACACACAUUCGAAAUGUGUGU--------------
(((.....(((((.((.(..((((.(((.(.....)))).))))..).)).)))))....))).-------.....((((((((.....))))))))-------------- ( -18.30)
>DroEre_CAF1 28493 105 - 1
UAGUUAACGUAAGCUUAGAACUUGUAUAACUUCAUUUAUAUAAGAGUU-GACUGAAAAAUUCAUGGAAGG-----GACACACGUUUGGAGUAUGUGUUUGUCUAACUUCCA
(((((((((....)......(((((((((......))))))))).)))-))))).........(((((((-----(((((((((.......))))))..))))..)))))) ( -27.70)
>DroYak_CAF1 28654 110 - 1
UAGUUAAUGUAAGCCUUGAACUUGUUUAACUUUAUUUAUUUAAGAGUU-UACUCAAUAAGCCAUAGUCUUACUUUCUCCCACUUUUAGAGUGUGUGCUUGCCUAACUCUCA
.(((((..((((((((((((...((........))...)))))).)))-)))....(((((((((.(((.................))).)))).)))))..))))).... ( -20.73)
>consensus
UAGUUAAUGUAAGCCUAGAACUUGUAUAACUUUAUUUAUUUAAGAGCCAGACUUACUAACCCAU_______UUUUCACACACAUUUGGAAUGUGUGU______________
........(((((.((.(..((((.((((......)))).))))..).)).))))).....................(((((((.....)))))))............... ( -6.44 =  -8.12 +   1.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:34 2006