Locus 7864

Sequence ID 3L_DroMel_CAF1
Location 21,008,309 – 21,008,411
Length 102
Max. P 0.938015
window12801 window12802

overview

Window 1

Location 21,008,309 – 21,008,411
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 89.24
Mean single sequence MFE -32.77
Consensus MFE -27.08
Energy contribution -27.05
Covariance contribution -0.03
Combinations/Pair 1.17
Mean z-score -2.36
Structure conservation index 0.83
SVM decision value 0.75
SVM RNA-class probability 0.840344
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21008309 102 + 23771897
ACAGGCCGCCUACAUGUUGCAGCAACAGCAAAUGCUCCAGCAGCAGGCACAAAUGCAAGCUCAGGCUCAGGCUCAAGCCCAAGCUCAGGCCCAAGCUCAAGC
...((((((((...(((((.((((........)))).)))))..)))).........((((..((((........))))..))))..))))........... ( -34.40)
>DroSec_CAF1 25941 102 + 1
ACAGGCCGCUUACAUGUUGCAGCAACAGCAAAUGCUCCAGCAGCAGGCACAAAUGCAAGCUCAGGCACAGGCUCAAGCCCAAGCUCAGGCCCAAGCUCAAGC
...((((((((...(((((.((((........)))).)))))(((........)))))))...(((...(((....)))...)))..))))........... ( -30.30)
>DroSim_CAF1 34460 102 + 1
ACAGGCCGCUUACAUGUUGCAGCAACAGCAAAUGCUCCAGCAGCAGGCACAAAUGCAAGCCCAGGCACAGGCUCAAGCCCAAGCUCAGGCCCAAGCUCAAGC
...((((((((...(((((.((((........)))).)))))..))))......((..((....))...(((....)))...))...))))........... ( -30.60)
>DroEre_CAF1 34500 96 + 1
GCAGGCCGCUUACAUGCUGCAGCAGCAGCAAAUGCUCCAGCAGCAGGCACAAAUGCAAGCUCAGGCCCAAGCUCAAGCCCAA------GCCCAAGCUCAGGC
((.((((((((...((((((.(.((((.....)))).).)))))).(((....)))))))...))))...))....(((..(------((....)))..))) ( -33.60)
>DroYak_CAF1 31812 96 + 1
ACAGGCCGCUUACAUGUUGCAGCAGCAGCAAAUGCUCCAGCAGCAGGCACAAAUGCAAGCUCAGGCACAGGCCCAAGCACAG------GCCCAAGCUCAAGC
...((((((((...(((((.((((........)))).)))))..))))..........(((..(((....)))..)))...)------)))........... ( -31.50)
>DroAna_CAF1 22185 102 + 1
UCAGGCCGCCUACAUGCUGCAGCAGCAACAGAUGCUCCAGCAACAGGCACAAUUGCAGGCUCAGGCGCAGGCACAAGCCCAGGCCCAGGCUCAAGCUCAAGC
...((((((((...(((((.((((........)))).)))))..)))).........((((...((....))...))))..))))..(((....)))..... ( -36.20)
>consensus
ACAGGCCGCUUACAUGUUGCAGCAACAGCAAAUGCUCCAGCAGCAGGCACAAAUGCAAGCUCAGGCACAGGCUCAAGCCCAAGCUCAGGCCCAAGCUCAAGC
...((((((((...(((((.((((........)))).)))))..))))..........(((..(((....)))..))).........))))........... (-27.08 = -27.05 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,008,309 – 21,008,411
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 89.24
Mean single sequence MFE -44.20
Consensus MFE -36.74
Energy contribution -36.77
Covariance contribution 0.03
Combinations/Pair 1.22
Mean z-score -2.74
Structure conservation index 0.83
SVM decision value 1.27
SVM RNA-class probability 0.938015
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21008309 102 - 23771897
GCUUGAGCUUGGGCCUGAGCUUGGGCUUGAGCCUGAGCCUGAGCUUGCAUUUGUGCCUGCUGCUGGAGCAUUUGCUGUUGCUGCAACAUGUAGGCGGCCUGU
((....))..(((((.(((((..(((((......)))))..)))))........((((((((.((.((((........)))).)).)).))))))))))).. ( -47.80)
>DroSec_CAF1 25941 102 - 1
GCUUGAGCUUGGGCCUGAGCUUGGGCUUGAGCCUGUGCCUGAGCUUGCAUUUGUGCCUGCUGCUGGAGCAUUUGCUGUUGCUGCAACAUGUAAGCGGCCUGU
(((..((((..(((....)))..))))..)))....(((...(((((((..(((...(((.((.(.(((....))).).)).)))))))))))))))).... ( -42.70)
>DroSim_CAF1 34460 102 - 1
GCUUGAGCUUGGGCCUGAGCUUGGGCUUGAGCCUGUGCCUGGGCUUGCAUUUGUGCCUGCUGCUGGAGCAUUUGCUGUUGCUGCAACAUGUAAGCGGCCUGU
(((..((((..(((....)))..))))..)))....(((...(((((((..(((...(((.((.(.(((....))).).)).)))))))))))))))).... ( -42.70)
>DroEre_CAF1 34500 96 - 1
GCCUGAGCUUGGGC------UUGGGCUUGAGCUUGGGCCUGAGCUUGCAUUUGUGCCUGCUGCUGGAGCAUUUGCUGCUGCUGCAGCAUGUAAGCGGCCUGC
(((.(((((..(((------(..(((....)))..))))..)))))((.....(((.((((((.(.((((.....)))).).)))))).))).))))).... ( -50.40)
>DroYak_CAF1 31812 96 - 1
GCUUGAGCUUGGGC------CUGUGCUUGGGCCUGUGCCUGAGCUUGCAUUUGUGCCUGCUGCUGGAGCAUUUGCUGCUGCUGCAACAUGUAAGCGGCCUGU
((((.(((..((((------(((((((..(((....)))..)))..)))...).))))...))).))))....((((((((........)).)))))).... ( -38.20)
>DroAna_CAF1 22185 102 - 1
GCUUGAGCUUGAGCCUGGGCCUGGGCUUGUGCCUGCGCCUGAGCCUGCAAUUGUGCCUGUUGCUGGAGCAUCUGUUGCUGCUGCAGCAUGUAGGCGGCCUGA
((((......))))..(((((.(((((((((....)))..))))))........((((..(((((.((((.(....).)))).)))))...))))))))).. ( -43.40)
>consensus
GCUUGAGCUUGGGCCUGAGCUUGGGCUUGAGCCUGUGCCUGAGCUUGCAUUUGUGCCUGCUGCUGGAGCAUUUGCUGCUGCUGCAACAUGUAAGCGGCCUGU
((((((((((((((....))))))))))))))....(((...(((((((..(((...(((.((.(.(((....))).).)).)))))))))))))))).... (-36.74 = -36.77 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:58 2006