Locus 7619

Sequence ID	X_DroMel_CAF1
Location	19,006,734 – 19,006,896
Length	162
Max. P	0.973928

overview

Window 9

Location	19,006,734 – 19,006,835
Length	101
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	91.43
Mean single sequence MFE	-33.08
Consensus MFE	-26.26
Energy contribution	-26.94
Covariance contribution	0.68
Combinations/Pair	1.03
Mean z-score	-2.34
Structure conservation index	0.79
SVM decision value	1.72
SVM RNA-class probability	0.973928
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19006734 101 - 22224390
AGCCAUAAUGCUACCUAGCCAAC----------UGGCUGGCUCAGGU---AUAUGAUGACAGUCGAUUUUUCUAGCCAGCUCUUUUGGCACUCGAGUGCCAGCACGAGUAUCUC
(((......))).....(((((.----------.((((((((.(((.---...((((....)))).....)))))))))).)..)))))(((((.((....)).)))))..... ( -32.50)
>DroSec_CAF1 29159 101 - 1
AGCCAUAAUGCUACCUAGCCAAC----------UGGCUGGCUCAGGA---AUAUGAUGACAGUCGAUUUUUCUAGCCAGCUCUUUUGGCACUCGAGUGCCAGCACGAGUAUCUC
(((......))).....(((((.----------.((((((((.((((---(..((((....))))...)))))))))))).)..)))))(((((.((....)).)))))..... ( -35.30)
>DroSim_CAF1 23754 101 - 1
AGCCAUAAUGCUACCUAGCCAAC----------UGGCUGGCUCAGGA---AUAUGAUGACAGUCGAUUUUUCUAGCCAGCUCUUUUGGCACUCGAGUGCCAGCACGAGUAUCUC
(((......))).....(((((.----------.((((((((.((((---(..((((....))))...)))))))))))).)..)))))(((((.((....)).)))))..... ( -35.30)
>DroEre_CAF1 28161 101 - 1
AGCCAUAGUGCUACCUAGCCAAC----------UGGCUGGCUCAGGG---AUAUGAUGACAGUCGAUUUUUCUAGCCAGCUCUUUUGGAAAUCGAGUGCCGGCACGAGUAUCUC
.(((...(..((......((((.----------.((((((((.((..---(..((((....))))...)..))))))))).)..))))......))..).)))........... ( -33.50)
>DroYak_CAF1 29388 114 - 1
AGCCAUAAUGCUACCUAGCCAACUAACAACUACUGCCUGGCUUAGGAUCACUAUGAUGACAGUCGAUUUUUCUAGCCAGCUCUUUCGGCACUCGAGUGCCAGCACGAGUAUCUC
.........(((....))).........(((..(((((((((.(((((((((........))).))))))...)))))).......(((((....))))).)))..)))..... ( -28.80)
>consensus
AGCCAUAAUGCUACCUAGCCAAC__________UGGCUGGCUCAGGA___AUAUGAUGACAGUCGAUUUUUCUAGCCAGCUCUUUUGGCACUCGAGUGCCAGCACGAGUAUCUC
.(((.....(((....)))...............((((((((.((((......((((....))))....)))))))))))).....)))(((((.((....)).)))))..... (-26.26 = -26.94 +   0.68)

alignment

secondary structure

dotplot

Window 0

Location	19,006,805 – 19,006,896
Length	91
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	75.70
Mean single sequence MFE	-28.02
Consensus MFE	-17.18
Energy contribution	-17.52
Covariance contribution	0.34
Combinations/Pair	1.30
Mean z-score	-1.87
Structure conservation index	0.61
SVM decision value	1.22
SVM RNA-class probability	0.932644
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19006805 91 - 22224390
CAAGAGAUACAGAUACACGAACUGCGCUUGUGGCGACUGCUGCCCAGUUAAGUGUAUC-----UAUAGCCAUAAUGCUACCUAGCCAAC----------UGGCUGG
..........((((((((.(((((.((..(..(...)..).)).)))))..)))))))-----).((((......)))).((((((...----------.)))))) ( -30.00)
>DroSec_CAF1 29230 91 - 1
CAAGAGAUACAGAUACACGAACUGCGCUUGUGGCGACUGCUGCCCAGUUAAGUGUAUC-----UAUAGCCAUAAUGCUACCUAGCCAAC----------UGGCUGG
..........((((((((.(((((.((..(..(...)..).)).)))))..)))))))-----).((((......)))).((((((...----------.)))))) ( -30.00)
>DroSim_CAF1 23825 91 - 1
CAAGAGAUACAGAUACACGAACUGCGCUUGUGGCGACUGCUGCCCAGUUAAGUGUAUC-----UAUAGCCAUAAUGCUACCUAGCCAAC----------UGGCUGG
..........((((((((.(((((.((..(..(...)..).)).)))))..)))))))-----).((((......)))).((((((...----------.)))))) ( -30.00)
>DroEre_CAF1 28232 93 - 1
CAAGAGAUACAGAUACACAAGCUGCGAUUGUGGCGACUGCUGCCCAGUUAAGUGUAUCUC---UAUAGCCAUAGUGCUACCUAGCCAAC----------UGGCUGG
..(((((((((.........((..(....)..))(((((.....)))))...))))))))---).((((......)))).((((((...----------.)))))) ( -31.50)
>DroYak_CAF1 29462 105 - 1
CAAGAGAUACAGAUACCCAUGCUGCUCUUGUGGCGACUGCUGCCCAGUUAAGUGUAUCUAC-AUAUAGCCAUAAUGCUACCUAGCCAACUAACAACUACUGCCUGG
....(((((((.........((..(....)..))(((((.....)))))...)))))))..-...((((......)))).((((.((............)).)))) ( -20.40)
>DroPer_CAF1 31878 99 - 1
CACAAGCCACAAAGACA--GGCUGCU----UAGCCGCAGUUGCCU-CUUAAAUGUAUCCACCAGAUACAAUUACUCGUACUUACGUGGCUCGGACACGUUAACUGG
..(.((((((.((((..--((((((.----.....))))))...)-)))...((((((.....))))))...............)))))).).............. ( -26.20)
>consensus
CAAGAGAUACAGAUACACGAACUGCGCUUGUGGCGACUGCUGCCCAGUUAAGUGUAUC_____UAUAGCCAUAAUGCUACCUAGCCAAC__________UGGCUGG
...........(((((((..((((.....(((((....))))).))))...))))))).......((((......)))).(((((((............))))))) (-17.18 = -17.52 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:35 2006