Locus 8601

Sequence ID 3L_DroMel_CAF1
Location 22,387,707 – 22,387,815
Length 108
Max. P 0.972611
window14097 window14098

overview

Window 7

Location 22,387,707 – 22,387,815
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.05
Mean single sequence MFE -36.27
Consensus MFE -25.39
Energy contribution -26.70
Covariance contribution 1.31
Combinations/Pair 1.19
Mean z-score -1.23
Structure conservation index 0.70
SVM decision value 0.22
SVM RNA-class probability 0.640751
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22387707 108 + 23771897
------------UUUGUCCUUGGACAAGGCGCAUAAAUCAAUGGGGGCCGCCGCAGAGCCCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGUCCGGGUCCUAGCACGAGGACGAGGAUGG
------------((((((((((..(.((((((((((((...(.((((((......).))))).).))))))))((((..(((((...)))))))))).))).)..))))))))))..... ( -40.00)
>DroPse_CAF1 93428 107 + 1
UGCUGGCGACGUUUUGUCCUUGAGCAGGACGCAUAAAUCAUA--GAGCUGCUGCAGAGCCCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGCUCC--ACCCACGA--AGGACG-------
...............((((((..((((.(.((..........--..))).)))).((((..(((((...((((......)))))))))..)))).--.......)--))))).------- ( -26.90)
>DroSec_CAF1 38830 108 + 1
------------UUUGUCCUUGGACAAGGCGCAUAAAUCAUCGGGGGCUGCCGCAGAGCCCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGUCCGGGACCUAGGACGAGGACGAGGAUGG
------------((((((((((..(.((((((((((((..((((((.(((...)))..)))))).))))))))((((..(((((...)))))))))).))).)..))))))))))..... ( -44.10)
>DroEre_CAF1 55117 105 + 1
------------UUUGUCCUUGGACAAGGCGCAUAAAUCAUUGGGGGCUGCCGCAGAGCUCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGUCCGGGACUUAGGACGAGCCCGU---CCU
------------...(((((.(((((....((((((((..((.((((((.......)))))).)))))))))).......((....)).))))))))))..((((((....)))---))) ( -39.30)
>DroYak_CAF1 55350 108 + 1
------------UUUGUCCUUGGACAAGGCGCAUAAAUCAUUGGGGGCUGCCGCAGAGCCCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGUCCGGGACCUAGGAUGAGGACGAGGACGG
------------((((((((((..(.((((((((((((..((.((((((.......)))))).))))))))))((((..(((((...)))))))))).))).)..))))))))))..... ( -40.40)
>DroPer_CAF1 96030 107 + 1
UGCUGGCGACGUUUUGUCCUUGAGCAGGACGCAUAAAUCAUA--GAGCUGCUGCAGAGCCCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGCUCC--ACCCACGA--AGGACG-------
...............((((((..((((.(.((..........--..))).)))).((((..(((((...((((......)))))))))..)))).--.......)--))))).------- ( -26.90)
>consensus
____________UUUGUCCUUGGACAAGGCGCAUAAAUCAUUGGGGGCUGCCGCAGAGCCCCGAAAUUUAUGCUUGGUUGCAUUUUUGAUGUCCGGGACCUAGGACGAGGACGA____GG
...............(((((((..(.(((.((((((((.....((((((.......))))))...))))))))..((..(((((...)))))))....))).)..)))))))........ (-25.39 = -26.70 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 22,387,707 – 22,387,815
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.05
Mean single sequence MFE -35.68
Consensus MFE -26.07
Energy contribution -25.71
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -2.77
Structure conservation index 0.73
SVM decision value 1.70
SVM RNA-class probability 0.972611
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22387707 108 - 23771897
CCAUCCUCGUCCUCGUGCUAGGACCCGGACAUCAAAAAUGCAACCAAGCAUAAAUUUCGGGGCUCUGCGGCGGCCCCCAUUGAUUUAUGCGCCUUGUCCAAGGACAAA------------
...((((.(((((......)))))..(((((.......((....)).(((((((((..((((((.......))))))....)))))))))....))))).))))....------------ ( -35.20)
>DroPse_CAF1 93428 107 - 1
-------CGUCCU--UCGUGGGU--GGAGCAUCAAAAAUGCAACCAAGCAUAAAUUUCGGGGCUCUGCAGCAGCUC--UAUGAUUUAUGCGUCCUGCUCAAGGACAAAACGUCGCCAGCA
-------.(((((--(.(..(((--((.((((.....))))..))).(((((((((..(((((((....).)))))--)..)))))))))..))..)..))))))............... ( -36.60)
>DroSec_CAF1 38830 108 - 1
CCAUCCUCGUCCUCGUCCUAGGUCCCGGACAUCAAAAAUGCAACCAAGCAUAAAUUUCGGGGCUCUGCGGCAGCCCCCGAUGAUUUAUGCGCCUUGUCCAAGGACAAA------------
........(((((.(..(.((((...((.(((.....)))...))..((((((((((((((((((....).)).)))))).))))))))))))).)..).)))))...------------ ( -36.40)
>DroEre_CAF1 55117 105 - 1
AGG---ACGGGCUCGUCCUAAGUCCCGGACAUCAAAAAUGCAACCAAGCAUAAAUUUCGGAGCUCUGCGGCAGCCCCCAAUGAUUUAUGCGCCUUGUCCAAGGACAAA------------
(((---(((....))))))..((((.(((((.......((....)).(((((((((..((.((((....).))).))....)))))))))....)))))..))))...------------ ( -33.50)
>DroYak_CAF1 55350 108 - 1
CCGUCCUCGUCCUCAUCCUAGGUCCCGGACAUCAAAAAUGCAACCAAGCAUAAAUUUCGGGGCUCUGCGGCAGCCCCCAAUGAUUUAUGCGCCUUGUCCAAGGACAAA------------
..(((((.(.(((......))).)..(((((.......((....)).(((((((((..(((((((....).))))))....)))))))))....))))).)))))...------------ ( -35.80)
>DroPer_CAF1 96030 107 - 1
-------CGUCCU--UCGUGGGU--GGAGCAUCAAAAAUGCAACCAAGCAUAAAUUUCGGGGCUCUGCAGCAGCUC--UAUGAUUUAUGCGUCCUGCUCAAGGACAAAACGUCGCCAGCA
-------.(((((--(.(..(((--((.((((.....))))..))).(((((((((..(((((((....).)))))--)..)))))))))..))..)..))))))............... ( -36.60)
>consensus
CC____UCGUCCUCGUCCUAGGUCCCGGACAUCAAAAAUGCAACCAAGCAUAAAUUUCGGGGCUCUGCGGCAGCCCCCAAUGAUUUAUGCGCCUUGUCCAAGGACAAA____________
........(((((.............(((((.......((....)).(((((((((..(((((((....).))))))....)))))))))....))))).)))))............... (-26.07 = -25.71 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:08 2006