Locus 9287

Sequence ID	3R_DroMel_CAF1
Location	24,754,049 – 24,754,174
Length	125
Max. P	0.969025

overview

Window 9

Location	24,754,049 – 24,754,144
Length	95
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	70.48
Mean single sequence MFE	-23.77
Consensus MFE	-12.23
Energy contribution	-12.26
Covariance contribution	0.03
Combinations/Pair	1.07
Mean z-score	-2.05
Structure conservation index	0.51
SVM decision value	1.64
SVM RNA-class probability	0.969025
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24754049 95 - 27905053
CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUGCAGCCCCCUUUU-GCCCAACUCCAACCCCAACCCCCCC--
.......((((....(((((.....)))))..((((.(((.(((((...........))))).)))..))-)).))))..................-- ( -24.10)
>DroPse_CAF1 4844 83 - 1
GAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGUGUCCAC-----------GCCCCCACACUGCCCCGGGGCAGUGGCAGUG--GCC--
.......((..(...(((((.....)))))..((...((((((....))-----------))))...(((((((....))))))))).)..--)).-- ( -36.20)
>DroSec_CAF1 4876 91 - 1
CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUGCAGACCCCUUUU-GCCCACCUCCACCCCCA----CCCC--
.......(((((...(((((.....)))))..)))))(((((...((((........))))........)-)))).............----....-- ( -20.20)
>DroEre_CAF1 4974 85 - 1
CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUUCAGCCCCCUUUUUGCCCUU-UU------CA----CCCC--
.......(((((...(((((.....)))))..)))))(((.((((.............)))).)))...........-..------..----....-- ( -17.62)
>DroYak_CAF1 4982 91 - 1
CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCCACGGCCAUCAAAUGCAACCCCCUUUCUGCCCCU-UU--UCCCCA----CCCCUU
.......((((((..(((((.....)))))....(((((.((...)).)))))...))))))...............-..--......----...... ( -21.20)
>DroAna_CAF1 5572 79 - 1
CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGACG---------GAUGAUG------GUU-GUCGGCCUCCACGCCCAUUUA-CGC--
.......(((((...(((((.....)))))..)))))(((((..(---------((....(------((.-....)))))).))))).....-...-- ( -23.30)
>consensus
CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUGCAGCCCCCUUUU_GCCCACCUCCACCCCCA____CCCC__
.......(((((...(((((.....)))))..)))))((((..............................))))....................... (-12.23 = -12.26 +   0.03)

alignment

secondary structure

dotplot

Window 0

Location	24,754,074 – 24,754,174
Length	100
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	83.27
Mean single sequence MFE	-26.72
Consensus MFE	-19.25
Energy contribution	-19.11
Covariance contribution	-0.14
Combinations/Pair	1.06
Mean z-score	-1.58
Structure conservation index	0.72
SVM decision value	-0.01
SVM RNA-class probability	0.530541
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24754074 100 - 27905053
AUAUUGGAUGCCCCUAAAAGCAGGCAACGU-------CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUGCAGCCCCCUUUU
.....((..((((......((..((((((.-------......))))))...(((((.....)))))..))...))))(((((...........)))))..)).... ( -29.30)
>DroSec_CAF1 4897 100 - 1
AUAUUGGAUGCCCCUAAAAGCAGGCAACGU-------CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUGCAGACCCCUUUU
.....((..(((((.....((..((((((.-------......))))))...(((((.....)))))..))...))).))..((((........))))...)).... ( -26.20)
>DroEre_CAF1 4989 100 - 1
AUAUUGGAUGCCCCUAAAAGCAGGCAACGU-------CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUUCAGCCCCCUUUU
.....((..(((((.....((..((((((.-------......))))))...(((((.....)))))..))...))).)).((((..........))))..)).... ( -24.50)
>DroYak_CAF1 5003 100 - 1
AUAUUGGAUGCCCCUAAAAGCAGGCAACGU-------CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCCACGGCCAUCAAAUGCAACCCCCUUUC
.....((.(((........((..((((((.-------......))))))...(((((.....)))))..))(((((.((...)).)))))....))).))....... ( -27.90)
>DroAna_CAF1 5596 85 - 1
AUAUUGGAUGCCCCUAAAAGCAGGCAACGU-------CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGACG---------GAUGAUG------GUU
.((((.(.(((((......((..((((((.-------......))))))...(((((.....)))))..))...))))).).---------))))...------... ( -24.10)
>DroPer_CAF1 4708 96 - 1
AUAUUGGAUGCUCCUAAAAGCAGGCAACGUAAAACGUGAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGUGUCCAC-----------GCCCCCACAC
...(((..((((......))))..)))........(((......(((((...(((((.....)))))..)))))((((((....))-----------)))).))).. ( -28.30)
>consensus
AUAUUGGAUGCCCCUAAAAGCAGGCAACGU_______CAAAUUUGUUGCAACGCUUGAUAAUCAAGUUAGCGAUGGGCGCUGCUGCCAUCAAAUGCAGCCCCCUUUU
........(((((......((..((((((..............))))))...(((((.....)))))..))...)))))............................ (-19.25 = -19.11 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:46 2006