Locus 2656

Sequence ID 3R_DroMel_CAF1
Location 7,140,649 – 7,140,778
Length 129
Max. P 0.948517
window4314 window4315

overview

Window 4

Location 7,140,649 – 7,140,746
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.76
Mean single sequence MFE -33.01
Consensus MFE -17.09
Energy contribution -16.98
Covariance contribution -0.11
Combinations/Pair 1.19
Mean z-score -2.44
Structure conservation index 0.52
SVM decision value 0.41
SVM RNA-class probability 0.723869
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7140649 97 + 27905053
CGCCUUGGGGCAGCUGAAUGCAUUUUUGGUCAGCUGC------AGUUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUU-GG-------CAGUU---------
(((......((((((((...((....)).))))))))------.....)))((((.((.........(((((((.....))))))).........)-).-------)))).--------- ( -35.07)
>DroVir_CAF1 100121 99 + 1
CGCCUUGGG--CGCCGAGUGCAUUUUUGGUCAGUUGC------AGUUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUAGCCUGUA-CCCAGCAGCCA------------
.......((--(((.(.(((((......(((((((((------.....)))))))))..........(((((((.....)))))))......))))-).).)).))).------------ ( -37.60)
>DroGri_CAF1 89146 92 + 1
CGCCUUGGG--UGCCCAGUGCAUUUUUGGUCAGUUGC------AGCUCGCGACUGGCAUUUUUUCUCGUUGCACUUUAAGUGCAGUUUACCUCUUU-GC-------CA------------
.((.((((.--...)))).)).......(((((((((------.....)))))))))...........((((((.....))))))...........-..-------..------------ ( -28.50)
>DroYak_CAF1 76918 97 + 1
CGCCUUGGGGCGGCUGAAUGCAUUUUUGGUCAGCUGC------AGCUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUU-GG-------CAGUU---------
(((...(..((((((((...((....)).))))))))------..)..)))((((.((.........(((((((.....))))))).........)-).-------)))).--------- ( -34.77)
>DroMoj_CAF1 91449 92 + 1
UGCCUUGGG--UGCCCAGUGCAUUUUUGGUCAGCUGC------AGAUCGCGAUUGCAAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUU-GC-------CA------------
.((...(((--((.....((((.((.(((((......------.))))).)).))))..........(((((((.....))))))).)))))....-))-------..------------ ( -24.20)
>DroAna_CAF1 81267 111 + 1
CGCCUUGGG--UGCUGAAUGCAUUUUCGGUGAGCUGCUGCACCAACUCGCGACGGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUUGC-------CAGUUGCAUGAAUG
((((..(((--(((.....))))))..)))).((....))........(((((.((((.........(((((((.....)))))))..........)))-------).)))))....... ( -37.91)
>consensus
CGCCUUGGG__UGCCGAAUGCAUUUUUGGUCAGCUGC______AGCUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUU_GC_______CA____________
.((.((.((....)).)).)).......(((((.(((...........))).)))))..........(((((((.....))))))).................................. (-17.09 = -16.98 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,140,686 – 7,140,778
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 80.19
Mean single sequence MFE -24.00
Consensus MFE -16.26
Energy contribution -18.29
Covariance contribution 2.03
Combinations/Pair 1.06
Mean z-score -2.69
Structure conservation index 0.68
SVM decision value 1.38
SVM RNA-class probability 0.948517
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7140686 92 + 27905053
AGUUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUGGCAGUUGUGUAUGUUUGCUAUGCACCCUACCACGCCCC
.....(((((((.((.........(((((((.....))))))).........)).)))).(((((((.....))))))).......)))... ( -26.57)
>DroGri_CAF1 89181 72 + 1
AGCUCGCGACUGGCAUUUUUUCUCGUUGCACUUUAAGUGCAGUUUACCUCUUUGCCA--------UAUUUG-----------GUU-UGCCCU
.((..((.(.(((((..........((((((.....))))))..........)))))--------....).-----------)).-.))... ( -15.45)
>DroSec_CAF1 73725 92 + 1
AGCUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUGGCAGUUGUGCAUGUUUGCUUUGCCUCCUGCCACGCCCC
.....(((..(((((.........(((((((.....)))))))..........(((((....(((....))).)))))...))))))))... ( -29.50)
>DroSim_CAF1 84671 92 + 1
AGCUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUGGCAGUUGUGCAUGUUUGCUUUGCACCCUGCCACGCCCC
...........(((..........(((((((.....))))))).........((((((..(((((.........))))).)))))).))).. ( -30.80)
>DroEre_CAF1 74960 86 + 1
AGCUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUGGCAGUUGUGUAUGUUUGCUUUCCACCCCGCC-----C-
(((.((((((((.((.........(((((((.....))))))).........)).))))))))...)))................-----.- ( -25.27)
>DroMoj_CAF1 91484 81 + 1
AGAUCGCGAUUGCAAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUGCCA--------UGUUUG---UGCCCUCAGUUCCCCCCC
.((.(((((..((((.........(((((((.....)))))))........))))..--------...)))---))...))........... ( -16.43)
>consensus
AGCUCGCGACUGGCAUUUUUUCUCGCUGCACUUUAAGUGCAGUUUACCUCUUUGGCAGUUGUG_AUGUUUGCUUUGCACCCUGCCACGCCCC
....((((((((.((.........(((((((.....))))))).........)).))))))))............................. (-16.26 = -18.29 +   2.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:30 2006