Locus 6589

Sequence ID	2R_DroMel_CAF1
Location	20,607,868 – 20,607,958
Length	90
Max. P	0.984556

overview

Window 7

Location	20,607,868 – 20,607,958
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-30.28
Consensus MFE	-26.92
Energy contribution	-28.12
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-1.36
Structure conservation index	0.89
SVM decision value	0.44
SVM RNA-class probability	0.736982
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20607868 90 + 20766785
ACGUUGCGUCGCUGCCCUGCUACUCCGAGGCAGCGCAGCCAGGACUGCUGGUGCUGUCCUUGUCGCAUGUGCUCAGCUUUUAAUAUGUUA
((((.(((.((((((.(((((.......))))).))))).(((((.((....)).))))).).))))))).................... ( -32.30)
>DroSec_CAF1 58078 90 + 1
ACGUUGCGUCACUGCCCUGCUACUCCGAGGCAGCGCAGCCAGGACUGCUGGUGCUGUCCUUGUCGCAUGUGCUCAGUUUUUAAUAUGUUA
((((.(((.((((((.(((((.......))))).))))..(((((.((....)).))))))).))))))).................... ( -29.30)
>DroSim_CAF1 58850 85 + 1
ACGUUGCGUCACU-----GCUACUCCGAGGCAGCGCAGCCAGGACUGCUGGUGCUGUCCUUGUCGCAUGUGCUCAGUUUUUAAUAUGUUA
..((((((...((-----(((.......))))))))))).(((((.((....)).)))))....((((((............)))))).. ( -25.20)
>DroEre_CAF1 88566 90 + 1
ACGUUGCGUCGCUGCCCUGCUACUCCGAGGCAGCGCAGCCAGGACUGCUGGUGCUGUCCUUGUCGCAUGUGCUCAGUUUUUAAUAUGUUA
((((.(((.((((((.(((((.......))))).))))).(((((.((....)).))))).).))))))).................... ( -32.30)
>DroYak_CAF1 62006 90 + 1
ACGUUGCGUCGCUGCCCUGCUACUCCGAGGCAGCGCAGCCAGGACUGCUGGUGCUGUCCUUGUCGCAUGUGCUCAGUUUUUAAUAUGUUA
((((.(((.((((((.(((((.......))))).))))).(((((.((....)).))))).).))))))).................... ( -32.30)
>consensus
ACGUUGCGUCGCUGCCCUGCUACUCCGAGGCAGCGCAGCCAGGACUGCUGGUGCUGUCCUUGUCGCAUGUGCUCAGUUUUUAAUAUGUUA
((((.(((.((((((.(((((.......))))).))))).(((((.((....)).))))).).))))))).................... (-26.92 = -28.12 +   1.20)

alignment

secondary structure

dotplot

Window 8

Location	20,607,868 – 20,607,958
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-28.98
Consensus MFE	-26.82
Energy contribution	-27.38
Covariance contribution	0.56
Combinations/Pair	1.05
Mean z-score	-1.72
Structure conservation index	0.93
SVM decision value	1.98
SVM RNA-class probability	0.984556
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20607868 90 - 20766785
UAACAUAUUAAAAGCUGAGCACAUGCGACAAGGACAGCACCAGCAGUCCUGGCUGCGCUGCCUCGGAGUAGCAGGGCAGCGACGCAACGU
.......................((((...(((((.((....)).))))).(((((.((((.........)))).)))))..)))).... ( -30.80)
>DroSec_CAF1 58078 90 - 1
UAACAUAUUAAAAACUGAGCACAUGCGACAAGGACAGCACCAGCAGUCCUGGCUGCGCUGCCUCGGAGUAGCAGGGCAGUGACGCAACGU
.......................((((...(((((.((....)).))))).(((((.((((.........)))).)))))..)))).... ( -28.80)
>DroSim_CAF1 58850 85 - 1
UAACAUAUUAAAAACUGAGCACAUGCGACAAGGACAGCACCAGCAGUCCUGGCUGCGCUGCCUCGGAGUAGC-----AGUGACGCAACGU
...............((..(((.(((..(.(((.((((....(((((....)))))))))))).)..)))..-----.)))...)).... ( -23.70)
>DroEre_CAF1 88566 90 - 1
UAACAUAUUAAAAACUGAGCACAUGCGACAAGGACAGCACCAGCAGUCCUGGCUGCGCUGCCUCGGAGUAGCAGGGCAGCGACGCAACGU
.......................((((...(((((.((....)).))))).(((((.((((.........)))).)))))..)))).... ( -30.80)
>DroYak_CAF1 62006 90 - 1
UAACAUAUUAAAAACUGAGCACAUGCGACAAGGACAGCACCAGCAGUCCUGGCUGCGCUGCCUCGGAGUAGCAGGGCAGCGACGCAACGU
.......................((((...(((((.((....)).))))).(((((.((((.........)))).)))))..)))).... ( -30.80)
>consensus
UAACAUAUUAAAAACUGAGCACAUGCGACAAGGACAGCACCAGCAGUCCUGGCUGCGCUGCCUCGGAGUAGCAGGGCAGCGACGCAACGU
.......................((((...(((((.((....)).))))).(((((.((((.........)))).)))))..)))).... (-26.82 = -27.38 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:31 2006