Locus 2530

Sequence ID	3R_DroMel_CAF1
Location	6,880,991 – 6,881,089
Length	98
Max. P	0.794795

overview

Window 6

Location	6,880,991 – 6,881,089
Length	98
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	86.73
Mean single sequence MFE	-41.70
Consensus MFE	-30.82
Energy contribution	-30.74
Covariance contribution	-0.08
Combinations/Pair	1.10
Mean z-score	-1.53
Structure conservation index	0.74
SVM decision value	-0.04
SVM RNA-class probability	0.512905
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6880991 98 + 27905053
AUGAGCUGUCACGCCUC---------------CUAUUUAUCAUGUGACCCACGGCCGCGCAGGAUGUGGUAAUGGGGCCGGGGGAUUCCCUGGCCACAGUGCGUAUGCGUGAC
.......(((((((...---------------.(((.(((..((((.((((..((((((.....))))))..))))(((((((....)))))))))))))).))).))))))) ( -41.30)
>DroSec_CAF1 35248 113 + 1
AUGAGCUGUCACGCCUCCUCUGCAAAGAGCUCCUAUUUAUCAUGUGACCCAUGGACGCACAGGAUGUGGCAAGGGGAUCGGGGGAUUCCCUGGCCACAGUGCGUAUGCGUGAC
.......(((((((...((((....))))..........(((((.....)))))((((((....((((((.((((((((....)))))))).))))))))))))..))))))) ( -48.20)
>DroSim_CAF1 35606 113 + 1
AUGAGCUGUCACGCCUCCUCUGCAAAGAGCUCCUAUUUAUCAUGUGACCCAUGGACGCACAGGAUGUGGCAAGGGGAUCGGGGGAUUCCCUAGCCACAGUGCGUAUGCGUGAC
.......(((((((...((((....))))..........(((((.....)))))((((((....((((((.((((((((....)))))))).))))))))))))..))))))) ( -48.20)
>DroEre_CAF1 36226 113 + 1
AUGAGCUGACACGCCUCCUUUGCAAAGAGCUCCUAUUUAUCAUGUGACCAACGGCAACACAGGAUGAGGCAAGGGGAUCGGGGAAUACCCUGGCCACAGUGCGUAUGCGUGAC
.........(((((..(((((((..((.....)).((((((.((((.((...))...)))).)))))))))))))(..(((((....)))))..)...........))))).. ( -33.40)
>DroYak_CAF1 36058 112 + 1
AUGAGCUGUCACGCCUCCGUUGCAAAGAGCUCCUAUUUAUCAUGUGACCCAAGGCAACACAGGAUGAGGCAGGGGGUUCGGGGG-UUCCCUGGCCACAGUGCGUAUGCGUGAC
.......(((((((......((((..((((((((.((((((.((((..(....)...)))).))))))...))))))))(((..-..))).........))))...))))))) ( -37.40)
>consensus
AUGAGCUGUCACGCCUCCUCUGCAAAGAGCUCCUAUUUAUCAUGUGACCCACGGCCGCACAGGAUGUGGCAAGGGGAUCGGGGGAUUCCCUGGCCACAGUGCGUAUGCGUGAC
.......(((((((.......................((((.((((.((...))...)))).))))..(((..(((.((((((....)))))))).)..)))....))))))) (-30.82 = -30.74 +  -0.08)

alignment

secondary structure

dotplot

Window 7

Location	6,880,991 – 6,881,089
Length	98
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	86.73
Mean single sequence MFE	-40.48
Consensus MFE	-30.44
Energy contribution	-33.70
Covariance contribution	3.26
Combinations/Pair	1.09
Mean z-score	-1.91
Structure conservation index	0.75
SVM decision value	0.60
SVM RNA-class probability	0.794795
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6880991 98 - 27905053
GUCACGCAUACGCACUGUGGCCAGGGAAUCCCCCGGCCCCAUUACCACAUCCUGCGCGGCCGUGGGUCACAUGAUAAAUAG---------------GAGGCGUGACAGCUCAU
(((((((...........((((.(((....))).))))((....((((..((.....))..))))(((....))).....)---------------)..)))))))....... ( -36.00)
>DroSec_CAF1 35248 113 - 1
GUCACGCAUACGCACUGUGGCCAGGGAAUCCCCCGAUCCCCUUGCCACAUCCUGUGCGUCCAUGGGUCACAUGAUAAAUAGGAGCUCUUUGCAGAGGAGGCGUGACAGCUCAU
(((((((...(((((((((((.((((.(((....))).)))).))))))....)))))(((((..(((....)))..)).))).((((((...)))))))))))))....... ( -47.30)
>DroSim_CAF1 35606 113 - 1
GUCACGCAUACGCACUGUGGCUAGGGAAUCCCCCGAUCCCCUUGCCACAUCCUGUGCGUCCAUGGGUCACAUGAUAAAUAGGAGCUCUUUGCAGAGGAGGCGUGACAGCUCAU
(((((((...(((((((((((.((((.(((....))).)))).))))))....)))))(((((..(((....)))..)).))).((((((...)))))))))))))....... ( -47.30)
>DroEre_CAF1 36226 113 - 1
GUCACGCAUACGCACUGUGGCCAGGGUAUUCCCCGAUCCCCUUGCCUCAUCCUGUGUUGCCGUUGGUCACAUGAUAAAUAGGAGCUCUUUGCAAAGGAGGCGUGUCAGCUCAU
(.(((((........((.(((.((((.(((....))).)))).))).))((((((((.(((...))).))))...........((.....))..)))).))))).)....... ( -32.80)
>DroYak_CAF1 36058 112 - 1
GUCACGCAUACGCACUGUGGCCAGGGAA-CCCCCGAACCCCCUGCCUCAUCCUGUGUUGCCUUGGGUCACAUGAUAAAUAGGAGCUCUUUGCAACGGAGGCGUGACAGCUCAU
(((((((........((.(((.((((..-..........))))))).))..((.((((((...((((..(((.....)).)..))))...)))))).)))))))))....... ( -39.00)
>consensus
GUCACGCAUACGCACUGUGGCCAGGGAAUCCCCCGAUCCCCUUGCCACAUCCUGUGCGGCCAUGGGUCACAUGAUAAAUAGGAGCUCUUUGCAAAGGAGGCGUGACAGCUCAU
(((((((........((((((.((((.(((....))).)))).))))))((((((.....((((.....))))....)))))).(((((.....))))))))))))....... (-30.44 = -33.70 +   3.26)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:38 2006