Locus 4196

Sequence ID X_DroMel_CAF1
Location 11,013,627 – 11,013,732
Length 105
Max. P 0.777418
window6897

overview

Window 7

Location 11,013,627 – 11,013,732
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.77
Mean single sequence MFE -33.41
Consensus MFE -20.24
Energy contribution -20.02
Covariance contribution -0.22
Combinations/Pair 1.25
Mean z-score -1.43
Structure conservation index 0.61
SVM decision value 0.55
SVM RNA-class probability 0.777418
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11013627 105 - 22224390
AGCGCUGGCCGAAGGAUAUCGCCAGGAGUUCUUCGGCCUGGGCACCCGCAUCAAGAUUACGGUUGGUU--CGCUUUCCAUUUUC-CACUUUC--UUCG-G---------AUUGAACAUUU
.((.(.(((((((((((.((....)).))))))))))).).))..(((....((((....((.(((..--......)))....)-)....))--))))-)---------........... ( -33.10)
>DroSec_CAF1 6482 105 - 1
CGCGCUGGCCGAAGGAUAUCGCCAGGAGUUCUUUGGUCUGGGCACCCGCAUCAAGAUAACGGUGGGUU--CCGUCUCCACUUUU-CACUUUC--UUCG-G---------AUUGAACAUUU
.((.(.(((((((((((.((....)).))))))))))).).))((((((............)))))).--............((-((...((--....-)---------).))))..... ( -31.40)
>DroSim_CAF1 1548 105 - 1
CGCGCUGGCCGAAGGAUAUCGCCAGGAGUUCUUUGGUCUGGGCACCCGCAUCAAGAUAACGGUGGGUU--CCGUCUCCACUUUU-CACUUUC--UUCG-G---------AUUGAACAUUU
.((.(.(((((((((((.((....)).))))))))))).).))((((((............)))))).--............((-((...((--....-)---------).))))..... ( -31.40)
>DroEre_CAF1 211 118 - 1
GGCCCUGGCCGAAGGAUAUCGCCAGGAGUUCUUCGGCCUGGGCACCCGCAUCAAGAUUACGGUGUGUUUUCCCCUGCCAUUUGCCCAUUGAA--AUUGGGUGAACUAUCAUUUAACAUUC
.((((.(((((((((((.((....)).))))))))))).))))...((((((........)))))).............((..((((.....--..))))..))................ ( -44.40)
>DroYak_CAF1 1495 101 - 1
GGCCCUGGCCGAAGGUUAUCGCCAAGAGUUCUUCGGUCUGGGCACCCGCAUCAAGAUCACGGUGAGCUUUCCC------UUUGUCCAUUGAA--AUCA-----------AAUUAAUAUAU
.((((.(((((((((...((.....))..))))))))).))))...........(((..(((((..(......------...)..)))))..--))).-----------........... ( -31.70)
>DroAna_CAF1 201 99 - 1
AGCUUUGGCCGAAGGAUACCGCCAGGAGUUCCUCGGUCUGGGCACCAAAAUCAAGAUUACAGUAAGUUUUUG--GGGAA----U-UAUUUUCUGUUAG-G-------------AAGAGCC
.(((..((((((.((((.((....)).)))).))))))..))).((((((.................)))))--)((..----.-..((((((....)-)-------------)))).)) ( -28.43)
>consensus
AGCGCUGGCCGAAGGAUAUCGCCAGGAGUUCUUCGGUCUGGGCACCCGCAUCAAGAUUACGGUGGGUU__CCCUCUCCAUUUUU_CACUUUC__UUCG_G_________AUUGAACAUUU
.((.(.(((((((((((.((....)).))))))))))).).))............................................................................. (-20.24 = -20.02 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:54 2006