Locus 5129

Sequence ID	2L_DroMel_CAF1
Location	14,567,358 – 14,567,448
Length	90
Max. P	0.996840

overview

Window 9

Location	14,567,358 – 14,567,448
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-26.25
Consensus MFE	-24.71
Energy contribution	-24.60
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-1.44
Structure conservation index	0.94
SVM decision value	1.71
SVM RNA-class probability	0.973615
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14567358 90 + 22407834
GGCAACAAAAUCAGCGAACGAACGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
.(((((....((((((........))))))..((.(((((((((((....)))..)))))))).....)).))))).............. ( -25.70)
>DroSec_CAF1 98825 90 + 1
GGCAACAAAAUCAGCGAACGAACGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
.(((((....((((((........))))))..((.(((((((((((....)))..)))))))).....)).))))).............. ( -25.70)
>DroSim_CAF1 86464 90 + 1
GGCAACAAAAUCAGCGAACGAACGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
.(((((....((((((........))))))..((.(((((((((((....)))..)))))))).....)).))))).............. ( -25.70)
>DroEre_CAF1 92940 90 + 1
UGCAACAAAAUCAGCGAACGAACGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
((((((....((((((........))))))..((.(((((((((((....)))..)))))))).....)).))))))............. ( -26.20)
>DroYak_CAF1 90972 90 + 1
GGCAACAAAAUCAGCGAACGAACGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
.(((((....((((((........))))))..((.(((((((((((....)))..)))))))).....)).))))).............. ( -25.70)
>DroAna_CAF1 37083 89 + 1
GACGACAACAUCGGCGAGAG-CCGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
((((((((....(((....)-))((((((.((...(((((((((((....)))..))))))))....))))).)))....)))).)))). ( -28.50)
>consensus
GGCAACAAAAUCAGCGAACGAACGCGCUGACAGCUGUCAACAUGUCGUAUGAUUAAUGUUGGCCAAAUGCGGUUGCAUUUUUGUGCGUUU
.(((((....((((((........))))))..((.(((((((((((....)))..)))))))).....)).))))).............. (-24.71 = -24.60 +  -0.11)

alignment

secondary structure

dotplot

Window 0

Location	14,567,358 – 14,567,448
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-26.70
Consensus MFE	-23.42
Energy contribution	-23.75
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.79
Structure conservation index	0.88
SVM decision value	2.76
SVM RNA-class probability	0.996840
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14567358 90 - 22407834
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGUUCGUUCGCUGAUUUUGUUGCC
....((....((((((....)))))).))(((((..(((((.(((((.(((((((....))))))).).))))....))))).))))).. ( -26.50)
>DroSec_CAF1 98825 90 - 1
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGUUCGUUCGCUGAUUUUGUUGCC
....((....((((((....)))))).))(((((..(((((.(((((.(((((((....))))))).).))))....))))).))))).. ( -26.50)
>DroSim_CAF1 86464 90 - 1
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGUUCGUUCGCUGAUUUUGUUGCC
....((....((((((....)))))).))(((((..(((((.(((((.(((((((....))))))).).))))....))))).))))).. ( -26.50)
>DroEre_CAF1 92940 90 - 1
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGUUCGUUCGCUGAUUUUGUUGCA
....((....((((((....)))))).))(((((..(((((.(((((.(((((((....))))))).).))))....))))).))))).. ( -26.50)
>DroYak_CAF1 90972 90 - 1
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGUUCGUUCGCUGAUUUUGUUGCC
....((....((((((....)))))).))(((((..(((((.(((((.(((((((....))))))).).))))....))))).))))).. ( -26.50)
>DroAna_CAF1 37083 89 - 1
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGG-CUCUCGCCGAUGUUGUCGUC
....((....((((((....)))))).)).............((((((.((((((....)))))).(((-(....))))....)))))). ( -27.70)
>consensus
AAACGCACAAAAAUGCAACCGCAUUUGGCCAACAUUAAUCAUACGACAUGUUGACAGCUGUCAGCGCGUUCGUUCGCUGAUUUUGUUGCC
....((....((((((....)))))).))(((((..((((.........((((((....))))))(((......))).)))).))))).. (-23.42 = -23.75 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:46 2006