Locus 6741

Sequence ID	X_DroMel_CAF1
Location	16,759,010 – 16,759,195
Length	185
Max. P	0.783503

overview

Window 2

Location	16,759,010 – 16,759,128
Length	118
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.76
Mean single sequence MFE	-33.27
Consensus MFE	-32.31
Energy contribution	-33.07
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.69
Structure conservation index	0.97
SVM decision value	0.30
SVM RNA-class probability	0.678804
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16759010 118 + 22224390
CUAAUCACUCCAAUUAGCUAGAAAGUGCUUUUCGUUUAAAAUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCAUUUGGAGUUCCCUUU--
......(((((((...(((((...((((................))))((((((.(((...(((.(((......))).)))..))).))))))...)))))...))))))).......-- ( -35.49)
>DroSec_CAF1 45881 118 + 1
CUAAUCACUCCAAUUAGCUAGAAAGUGCUUUUCGUUUAAAAUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU--
......((((((....(((((...((((................))))((((((.(((...(((.(((......))).)))..))).))))))...)))))....)))))).......-- ( -33.59)
>DroSim_CAF1 43791 118 + 1
CUAAUCACUCGAAUUAGCUAGAAAGUGCUUUUCGUUUAAAAUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU--
......((((.(....(((((...((((................))))((((((.(((...(((.(((......))).)))..))).))))))...)))))....).)))).......-- ( -29.19)
>DroYak_CAF1 37962 120 + 1
CUAAUCACUCCAAUUAGCUAGAAAGUGCUUUUCGUUUAAAAUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACUUGGAGUUCCCUUUUU
......(((((((...(((((...((((................))))((((((.(((...(((.(((......))).)))..))).))))))...)))))...)))))))......... ( -34.79)
>consensus
CUAAUCACUCCAAUUAGCUAGAAAGUGCUUUUCGUUUAAAAUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU__
......(((((((...(((((...((((................))))((((((.(((...(((.(((......))).)))..))).))))))...)))))...)))))))......... (-32.31 = -33.07 +   0.75)

alignment

secondary structure

dotplot

Window 3

Location	16,759,050 – 16,759,159
Length	109
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.25
Mean single sequence MFE	-34.33
Consensus MFE	-31.99
Energy contribution	-31.80
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-1.51
Structure conservation index	0.93
SVM decision value	0.56
SVM RNA-class probability	0.783503
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16759050 109 + 22224390
AUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCAUUUGGAGUUCCCUUU---AUUCCUUGGCUUGGUCCGAAAAACGAGAAUC--------
.((((...((((((.(((...(((.(((......))).)))..))).)))))).(((.(((((...(((((.......---))))).))))).))).))))...........-------- ( -34.10)
>DroSec_CAF1 45921 109 + 1
AUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU---AUUCCUUGGCUUAGUCCGAAAAUCGAGAAUC--------
.((((...((((((.(((...(((.(((......))).)))..))).)))))).(((.(((((...(((((.......---))))).))))).))).))))...........-------- ( -33.40)
>DroSim_CAF1 43831 109 + 1
AUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU---AUUCCUUGGCUUAGUCCGAAAAUCGAGAAUC--------
.((((...((((((.(((...(((.(((......))).)))..))).)))))).(((.(((((...(((((.......---))))).))))).))).))))...........-------- ( -33.40)
>DroYak_CAF1 38002 120 + 1
AUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACUUGGAGUUCCCUUUUUAAUUCCUUGGCUCAGUCCUCAAUUCGAGUUCCUACUGCGC
.............((((((..(((((((......)))((((..(((((.(.(((....)))..(..((((((........))))))..))))))).))))....)))).....)))))). ( -36.40)
>consensus
AUUCGCACGUUGUCGCAGUUUCUUGGCAUUGUACUGCGAGGCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU___AUUCCUUGGCUUAGUCCGAAAAUCGAGAAUC________
.((((...((((((.(((...(((.(((......))).)))..))).)))))).(((.(((((...(((((..........))))).))))).)))........))))............ (-31.99 = -31.80 +  -0.19)

alignment

secondary structure

dotplot

Window 4

Location	16,759,090 – 16,759,195
Length	105
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	83.93
Mean single sequence MFE	-33.27
Consensus MFE	-21.71
Energy contribution	-21.77
Covariance contribution	0.06
Combinations/Pair	1.13
Mean z-score	-1.74
Structure conservation index	0.65
SVM decision value	0.17
SVM RNA-class probability	0.615713
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16759090 105 + 22224390
GCUCUGAGACAGCCACUUGGCCAUUUGGAGUUCCCUUU---AUUCCUUGGCUUGGUCCGAAAAACGAGAAUC-----------GAUCAUCGUCAAGGCUCAAGGUUCGAGUUUC-AAGUU
(((.((((((.((((...(((((...(((((.......---))))).))))))))).((((....(((..(.-----------(((....))).)..)))....)))).)))))-)))). ( -29.70)
>DroSec_CAF1 45961 102 + 1
GCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU---AUUCCUUGGCUUAGUCCGAAAAUCGAGAAUC-----------GAU---CGUCAAGGCUCGAGGUUCGAGUUUC-AAGUU
(((.((((((.((((((.(((((...(((((.......---))))).))))).)))..((..((((.....)-----------)))---..))..)))(((.....))))))))-)))). ( -33.30)
>DroSim_CAF1 43871 102 + 1
GCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU---AUUCCUUGGCUUAGUCCGAAAAUCGAGAAUC-----------GAU---CGUCAAGGCUCGAGGUUCGAGUUUC-AAGUU
(((.((((((.((((((.(((((...(((((.......---))))).))))).)))..((..((((.....)-----------)))---..))..)))(((.....))))))))-)))). ( -33.30)
>DroYak_CAF1 38042 117 + 1
GCUCUGAGACAGCCACUUGGCCACUUGGAGUUCCCUUUUUAAUUCCUUGGCUCAGUCCUCAAUUCGAGUUCCUACUGCGCCAAGAU---CGCCAAGAUUCAAGGUGCGAGUUUUGAAGUU
((((..((...(((....)))..))..))))...((((..(((((((((((.((((.(((.....))).....)))).))))))..---((((.........)))).)))))..)))).. ( -36.80)
>consensus
GCUCUGAGACAGCCACUUGGCCACCUGGAGUUCCCUUU___AUUCCUUGGCUUAGUCCGAAAAUCGAGAAUC___________GAU___CGUCAAGGCUCAAGGUUCGAGUUUC_AAGUU
(((..(((((....(((.(((((...(((((..........))))).))))).))).((((..(((((.............................)))))..)))).)))))..))). (-21.71 = -21.77 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:37 2006