Locus 6723

Sequence ID	3L_DroMel_CAF1
Location	17,969,696 – 17,969,792
Length	96
Max. P	0.955496

overview

Window 6

Location	17,969,696 – 17,969,792
Length	96
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	77.93
Mean single sequence MFE	-24.45
Consensus MFE	-14.07
Energy contribution	-14.52
Covariance contribution	0.45
Combinations/Pair	1.16
Mean z-score	-2.40
Structure conservation index	0.58
SVM decision value	1.46
SVM RNA-class probability	0.955496
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17969696 96 + 23771897
GAUCAGU--GGGU---------UUCCUGUUUGCCGCGUCAAGGAAAUUUCCAGAAAAUGCUCCACGGCUUGAUGCUCCACAGCAUUUUCCAUUUCCCCAUUAAAUCC
....(((--((((---------(((((.............))))))......(((((((((....(((.....)))....)))))))))......))))))...... ( -25.02)
>DroPse_CAF1 99469 100 + 1
GGUCUGU--GGGCUCUGCUCUAUUCCAGUUUGAUG--CCAGGGAAUUUUCUAGCAAAUUUCCCGCUGUCU---GCUCCACAGCAUUUACCAUUUCCCCCCACCGUCC
((.(.((--(((...((((..(((((.((.....)--)...))))).....))))........(((((..---.....)))))..............))))).).)) ( -24.00)
>DroSec_CAF1 93335 96 + 1
GAUCUGU--GGGU---------UUCCUGGUUGCCGCUUCAAGGAAAUUUCCAGAAAAUGCUCCACGGCCUGAUGCUCCACAGCAUUUUCCAUUUCCCCAUUAAAUCC
(((..((--((((---------(((((((........)).))))))......(((((((((....(((.....)))....)))))))))......)))))...))). ( -24.70)
>DroSim_CAF1 100639 96 + 1
GAUCAGU--GGGU---------UUCCUGGUUGCCGCUUCAAGGAAAUUUCCAGAAAAUGCUCCACGGCCUGAUGCUCCACAGCAUUUUCCAUUUCCCCAUUAAAUCC
....(((--((((---------(((((((........)).))))))......(((((((((....(((.....)))....)))))))))......))))))...... ( -24.50)
>DroEre_CAF1 94645 83 + 1
GAUCUUUGGGGCU---------UUCCCAGUUGCCGCUGCAGGGAAAUUUCCAGAAAAUGCU---------------CCACAGCAUUUUCCAUUUCCCCAUUAAAUCC
(((...(((((.(---------(((((...(((....)))))))))......(((((((((---------------....))))))))).....)))))....))). ( -26.10)
>DroYak_CAF1 98811 98 + 1
GAUCUCUUUGGGU---------UUCCUGGUUGCCGCUCCAAGGAAUUUUCCAGAAAAUGCUCCACCGCCUGAUGCUCCACAGCAUUUUCCAUUUCCCCAUUAAAUCC
(((.....((((.---------(((((((........)).))))).......(((((((((.....((.....)).....)))))))))......))))....))). ( -22.40)
>consensus
GAUCUGU__GGGU_________UUCCUGGUUGCCGCUUCAAGGAAAUUUCCAGAAAAUGCUCCACGGCCUGAUGCUCCACAGCAUUUUCCAUUUCCCCAUUAAAUCC
.........(((..........(((((.............))))).......(((((((((.....((.....)).....)))))))))......)))......... (-14.07 = -14.52 +   0.45)

alignment

secondary structure

dotplot

Window 7

Location	17,969,696 – 17,969,792
Length	96
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	77.93
Mean single sequence MFE	-28.05
Consensus MFE	-17.78
Energy contribution	-18.28
Covariance contribution	0.50
Combinations/Pair	1.18
Mean z-score	-1.84
Structure conservation index	0.63
SVM decision value	0.94
SVM RNA-class probability	0.886363
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17969696 96 - 23771897
GGAUUUAAUGGGGAAAUGGAAAAUGCUGUGGAGCAUCAAGCCGUGGAGCAUUUUCUGGAAAUUUCCUUGACGCGGCAAACAGGAA---------ACCC--ACUGAUC
.((((...((((.....((((((((((.((..((.....))..)).)))))))))).....((((((((......))...)))))---------))))--)..)))) ( -25.90)
>DroPse_CAF1 99469 100 - 1
GGACGGUGGGGGGAAAUGGUAAAUGCUGUGGAGC---AGACAGCGGGAAAUUUGCUAGAAAAUUCCCUGG--CAUCAAACUGGAAUAGAGCAGAGCCC--ACAGACC
((...((((((((((.(((((((((((((.....---..))))).....)))))))).....)))))...--.......(((........)))..)))--))...)) ( -28.20)
>DroSec_CAF1 93335 96 - 1
GGAUUUAAUGGGGAAAUGGAAAAUGCUGUGGAGCAUCAGGCCGUGGAGCAUUUUCUGGAAAUUUCCUUGAAGCGGCAACCAGGAA---------ACCC--ACAGAUC
.(((((..((((.....((((((((((.((..((.....))..)).)))))))))).....((((((....(.(....)))))))---------))))--).))))) ( -26.50)
>DroSim_CAF1 100639 96 - 1
GGAUUUAAUGGGGAAAUGGAAAAUGCUGUGGAGCAUCAGGCCGUGGAGCAUUUUCUGGAAAUUUCCUUGAAGCGGCAACCAGGAA---------ACCC--ACUGAUC
.((((...((((.....((((((((((.((..((.....))..)).)))))))))).....((((((....(.(....)))))))---------))))--)..)))) ( -26.70)
>DroEre_CAF1 94645 83 - 1
GGAUUUAAUGGGGAAAUGGAAAAUGCUGUGG---------------AGCAUUUUCUGGAAAUUUCCCUGCAGCGGCAACUGGGAA---------AGCCCCAAAGAUC
.(((((..(((((....((((((((((....---------------)))))))))).....(((((((((....)))...)))))---------).))))).))))) ( -30.60)
>DroYak_CAF1 98811 98 - 1
GGAUUUAAUGGGGAAAUGGAAAAUGCUGUGGAGCAUCAGGCGGUGGAGCAUUUUCUGGAAAAUUCCUUGGAGCGGCAACCAGGAA---------ACCCAAAGAGAUC
.(((((..((((.....((((((((((.((..((.....))..)).))))))))))......(((((.((........)))))))---------.))))...))))) ( -30.40)
>consensus
GGAUUUAAUGGGGAAAUGGAAAAUGCUGUGGAGCAUCAGGCCGUGGAGCAUUUUCUGGAAAUUUCCUUGAAGCGGCAACCAGGAA_________ACCC__ACAGAUC
.........((((((((((((((((((.((..((.....))..)).))))))))))....))))))))....................................... (-17.78 = -18.28 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:29 2006