Locus 4698

Sequence ID 2R_DroMel_CAF1
Location 15,387,503 – 15,387,593
Length 90
Max. P 0.945949
window7562 window7563

overview

Window 2

Location 15,387,503 – 15,387,593
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.33
Mean single sequence MFE -28.37
Consensus MFE -13.16
Energy contribution -14.52
Covariance contribution 1.36
Combinations/Pair 1.05
Mean z-score -2.78
Structure conservation index 0.46
SVM decision value 1.36
SVM RNA-class probability 0.945949
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15387503 90 + 20766785
GGAUGCAUGGCAAGUGCAAGACAAAGGCCCAGACCUUU-------GGAUCCAGACCCAGCAGA----------AAUGCACAACUGCAGAUCCCACUGCAUU--CAAC-----------CA
((((((((((....((((...((((((......)))))-------)............(((..----------..))).....))))....))).))))))--)...-----------.. ( -28.00)
>DroSec_CAF1 193118 90 + 1
GGAUGCAUGGCAAGUGCAAGACAAAGGCCCAGACCUUU-------GGAUCCAGAACCAGCAGA----------AAUGCACAACUGCAGAUCCCACUGCAUC--CAAC-----------CA
((((((((((....((((...((((((......)))))-------)............(((..----------..))).....))))....))).))))))--)...-----------.. ( -30.90)
>DroSim_CAF1 171345 90 + 1
GGAUGCAUGGCAAGUGCAAGACAAAGGCCCAGACCUUU-------GGAUCCAGAACCAGCAGA----------AAUGCACAACUGCAGAUCCCACUGCAUC--CAAC-----------CA
((((((((((....((((...((((((......)))))-------)............(((..----------..))).....))))....))).))))))--)...-----------.. ( -30.90)
>DroEre_CAF1 180323 90 + 1
GGAUGCAUGGCAAGUGCAAGACAAAGGCCCAGACCCCU-------GCAUCCAGACCCAGCAGA----------GAUGCACAACUGCAGAUCCCACUGCAUC--CGAC-----------CA
((((((((((....((((......(((........)))-------((((((..........).----------))))).....))))....))).))))))--)...-----------.. ( -25.40)
>DroYak_CAF1 186328 111 + 1
GGAUGCAUGGCAAGUGCAAGACAAAGGCCCAGACCUUU-------GGAUCCACAACCAGCAGAACCAGCUGAAAAUGCACAACUGCAGAUCCCACUGCAUC--CGACCCAUCCACAUCCA
(((((.((((...(((((...((((((......)))))-------)..........((((.......))))....)))))...(((((......)))))..--....))))...))))). ( -34.50)
>DroAna_CAF1 168194 92 + 1
GGAUGCCUGGCAAGUGCAAGACAAAGGCCCAGACCCUGCCACAUCGACUCCAUCUUCAACUGG-----------------UACUGCAACUGCAACUGCAUCGUCGCC-----------UG
.(((((...(((..((((..((...(((.........))).....((........)).....)-----------------)..))))..)))....)))))......-----------.. ( -20.50)
>consensus
GGAUGCAUGGCAAGUGCAAGACAAAGGCCCAGACCUUU_______GGAUCCAGAACCAGCAGA__________AAUGCACAACUGCAGAUCCCACUGCAUC__CAAC___________CA
.(((((((((....((((....(((((......)))))....................(((..............))).....))))....))).))))))................... (-13.16 = -14.52 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,387,503 – 15,387,593
Length 90
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.33
Mean single sequence MFE -33.33
Consensus MFE -19.25
Energy contribution -19.42
Covariance contribution 0.17
Combinations/Pair 1.13
Mean z-score -1.56
Structure conservation index 0.58
SVM decision value -0.00
SVM RNA-class probability 0.532356
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15387503 90 - 20766785
UG-----------GUUG--AAUGCAGUGGGAUCUGCAGUUGUGCAUU----------UCUGCUGGGUCUGGAUCC-------AAAGGUCUGGGCCUUUGUCUUGCACUUGCCAUGCAUCC
((-----------((..--..(((((......)))))...(((((..----------.(....(((((..((((.-------...))))..)))))..)...)))))..))))....... ( -31.30)
>DroSec_CAF1 193118 90 - 1
UG-----------GUUG--GAUGCAGUGGGAUCUGCAGUUGUGCAUU----------UCUGCUGGUUCUGGAUCC-------AAAGGUCUGGGCCUUUGUCUUGCACUUGCCAUGCAUCC
..-----------...(--(((((((..(((..((((....)))).)----------))..)((((..((.(..(-------((((((....)))))))...).))...))))))))))) ( -31.80)
>DroSim_CAF1 171345 90 - 1
UG-----------GUUG--GAUGCAGUGGGAUCUGCAGUUGUGCAUU----------UCUGCUGGUUCUGGAUCC-------AAAGGUCUGGGCCUUUGUCUUGCACUUGCCAUGCAUCC
..-----------...(--(((((((..(((..((((....)))).)----------))..)((((..((.(..(-------((((((....)))))))...).))...))))))))))) ( -31.80)
>DroEre_CAF1 180323 90 - 1
UG-----------GUCG--GAUGCAGUGGGAUCUGCAGUUGUGCAUC----------UCUGCUGGGUCUGGAUGC-------AGGGGUCUGGGCCUUUGUCUUGCACUUGCCAUGCAUCC
..-----------...(--((((((.(((.(..(((((....(((..----------..))).(((((..(((..-------....)))..))))).....)))))..).)))))))))) ( -34.30)
>DroYak_CAF1 186328 111 - 1
UGGAUGUGGAUGGGUCG--GAUGCAGUGGGAUCUGCAGUUGUGCAUUUUCAGCUGGUUCUGCUGGUUGUGGAUCC-------AAAGGUCUGGGCCUUUGUCUUGCACUUGCCAUGCAUCC
.(((((((....(((.(--(.(((((..(((((..(((..(.(((...((....))...))))..)))..)))))-------((((((....))))))...))))))).))).))))))) ( -42.00)
>DroAna_CAF1 168194 92 - 1
CA-----------GGCGACGAUGCAGUUGCAGUUGCAGUA-----------------CCAGUUGAAGAUGGAGUCGAUGUGGCAGGGUCUGGGCCUUUGUCUUGCACUUGCCAGGCAUCC
..-----------.(((((..(((....))))))))....-----------------(((........)))....(((((((((((((..((((....)))).)).))))))..))))). ( -28.80)
>consensus
UG___________GUCG__GAUGCAGUGGGAUCUGCAGUUGUGCAUU__________UCUGCUGGUUCUGGAUCC_______AAAGGUCUGGGCCUUUGUCUUGCACUUGCCAUGCAUCC
...................((((((.(((.(..(((((.......................((......))...........((((((....))))))...)))))..).))))))))). (-19.25 = -19.42 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:07 2006