Locus 5102

Sequence ID 2R_DroMel_CAF1
Location 16,595,209 – 16,595,306
Length 97
Max. P 0.956912
window8156 window8157

overview

Window 6

Location 16,595,209 – 16,595,306
Length 97
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 70.82
Mean single sequence MFE -20.41
Consensus MFE -11.44
Energy contribution -11.67
Covariance contribution 0.22
Combinations/Pair 1.17
Mean z-score -1.89
Structure conservation index 0.56
SVM decision value 1.47
SVM RNA-class probability 0.956912
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16595209 97 + 20766785
AACGA-GCUUCCAGGAAACUGCUCAAAUAACCCUAACUAACCCUUCUAAAAGUGUACAUAUGAAAUGAAA-UUUGG--GGCAGCAGUUUCC--UACGCCUUUG
.....-((....(((((((((((.......((((((...((.(((....))).)).(((.....)))...-.))))--)).))))))))))--)..))..... ( -21.90)
>DroSec_CAF1 2507 95 + 1
UACGA-GCUUCAAGGAAACUGCUCAAAUG--CCUAACUAACCCUUCUAAAGAUGUACAUAAAAUAUGAAA-UUUGG--GGCAGCAGUUUCC--UACGCCUUUG
.....-((....(((((((((((.....(--(((..........((....))....((((...))))...-....)--)))))))))))))--)..))..... ( -21.20)
>DroSim_CAF1 2509 95 + 1
UACGA-GCUUCAAGGAAACUGCUCCAAUG--CCUAACUAACCCUUCUAAAGAUGUACAUAUAAUAUGAAA-UUUGG--GGCAGCAGUUUCC--UACGCCUUUG
.....-((....(((((((((((.....(--(((..........((....))....((((...))))...-....)--)))))))))))))--)..))..... ( -21.20)
>DroEre_CAF1 2527 92 + 1
UACGACGCUUACAGGAAACUGCUCAAAUG--CCCUACUAAACUUCCUGAAAAUGC----AUGAUUUCAAA-UUCCG--GCCAGCAGUUUCC--UACGCUUUUG
......((....(((((((((((.....(--((..........((.((......)----).)).......-....)--)).))))))))))--)..))..... ( -20.20)
>DroYak_CAF1 2499 92 + 1
UACGACGCUUCAAGGAAACUGCUCAAAUA--CCACACUACCUCUUCUAAAACUGC----AUGAUAUCAAA-UUCGG--UCCAGCAGUUUCC--UACGCUUUUG
......((....(((((((((((.....(--((...........((.........----..)).......-...))--)..))))))))))--)..))..... ( -17.10)
>DroPer_CAF1 11711 88 + 1
AAUGGCUUUCAAGGGUAGCUGCUAAU----------CGAAAUUCACUAAAAA-CC----AAGACAACAAAAUUCGGACUCUAGCAGUAUCCCCUGUGCCUACA
...(((...((.(((..(((((((.(----------((((............-..----............)))))....)))))))..))).)).))).... ( -20.87)
>consensus
UACGA_GCUUCAAGGAAACUGCUCAAAUG__CCUAACUAACCCUUCUAAAAAUGC____AUGAUAUCAAA_UUCGG__GCCAGCAGUUUCC__UACGCCUUUG
......((.....((((((((((..........................................................)))))))))).....))..... (-11.44 = -11.67 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,595,209 – 16,595,306
Length 97
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 70.82
Mean single sequence MFE -25.83
Consensus MFE -11.42
Energy contribution -12.25
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.44
SVM decision value 0.39
SVM RNA-class probability 0.717185
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16595209 97 - 20766785
CAAAGGCGUA--GGAAACUGCUGCC--CCAAA-UUUCAUUUCAUAUGUACACUUUUAGAAGGGUUAGUUAGGGUUAUUUGAGCAGUUUCCUGGAAGC-UCGUU
....(((.((--(((((((((((((--(.((.-.....((((...............))))......)).))))......))))))))))))...))-).... ( -25.66)
>DroSec_CAF1 2507 95 - 1
CAAAGGCGUA--GGAAACUGCUGCC--CCAAA-UUUCAUAUUUUAUGUACAUCUUUAGAAGGGUUAGUUAGG--CAUUUGAGCAGUUUCCUUGAAGC-UCGUA
....(((..(--(((((((((((((--.....-..((...(((((..........))))).)).......))--).....)))))))))))....))-).... ( -23.34)
>DroSim_CAF1 2509 95 - 1
CAAAGGCGUA--GGAAACUGCUGCC--CCAAA-UUUCAUAUUAUAUGUACAUCUUUAGAAGGGUUAGUUAGG--CAUUGGAGCAGUUUCCUUGAAGC-UCGUA
....(((..(--((((((((((.((--((...-...((((...))))....((....)).)))...(.....--)...).)))))))))))....))-).... ( -23.60)
>DroEre_CAF1 2527 92 - 1
CAAAAGCGUA--GGAAACUGCUGGC--CGGAA-UUUGAAAUCAU----GCAUUUUCAGGAAGUUUAGUAGGG--CAUUUGAGCAGUUUCCUGUAAGCGUCGUA
.....((.((--((((((((((.((--(.(((-(((((((....----....)))))...))))).....))--).....))))))))))))...))...... ( -26.80)
>DroYak_CAF1 2499 92 - 1
CAAAAGCGUA--GGAAACUGCUGGA--CCGAA-UUUGAUAUCAU----GCAGUUUUAGAAGAGGUAGUGUGG--UAUUUGAGCAGUUUCCUUGAAGCGUCGUA
.....((..(--((((((((((.((--.....-....(((((((----((..((((....))))..))))))--))))).)))))))))))....))...... ( -28.50)
>DroPer_CAF1 11711 88 - 1
UGUAGGCACAGGGGAUACUGCUAGAGUCCGAAUUUUGUUGUCUU----GG-UUUUUAGUGAAUUUCG----------AUUAGCAGCUACCCUUGAAAGCCAUU
....(((.((((((.(((((((((....((((.((..(((....----..-....)))..)).))))----------.))))))).))))))))...)))... ( -27.10)
>consensus
CAAAGGCGUA__GGAAACUGCUGCC__CCAAA_UUUCAUAUCAU____ACAUUUUUAGAAGGGUUAGUUAGG__CAUUUGAGCAGUUUCCUUGAAGC_UCGUA
.....((.....((((((((((..........................................................)))))))))).....))...... (-11.42 = -12.25 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:34 2006