Locus 432

Sequence ID	2L_DroMel_CAF1
Location	1,270,960 – 1,271,095
Length	135
Max. P	0.985415

overview

Window 5

Location	1,270,960 – 1,271,060
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	87.13
Mean single sequence MFE	-25.58
Consensus MFE	-21.59
Energy contribution	-21.37
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-3.49
Structure conservation index	0.84
SVM decision value	2.01
SVM RNA-class probability	0.985415
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1270960 100 + 22407834
CCUCCACCAAAUGCACUACACACAGCACUAUUUGAUGCAUUUUGCAUAAGCGCUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUAGCAUUUUCCA
........((((((..........((((.....).)))..(((((((((((((.((((....))))..)).)))..))))))))......)))))).... ( -26.60)
>DroPse_CAF1 44366 100 + 1
CCGCCUUCUUCUGUGGCACCCCUUCCACUAUUUGAUGCAUUUUGCAUAAGCGUUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUAGCAUUUUCCA
..(((.........)))................(((((..(((((((((((((.((((....))))..)).)))..))))))))......)))))..... ( -24.60)
>DroSec_CAF1 30539 99 + 1
CCU-CACCAAAUGCACUACACACAGCACUAUUUGAUGCAUUUUGCAUAAGCGCUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUAGCAUUUUCCA
...-....((((((..........((((.....).)))..(((((((((((((.((((....))))..)).)))..))))))))......)))))).... ( -26.60)
>DroEre_CAF1 43115 100 + 1
CCUCCACCAAAUGCACUGCACACAGCACUAUUUGAUGCAUUUUGCAUAAGCGCUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUAGCAUUUUCCA
........((((((..((((..(((......))).)))).(((((((((((((.((((....))))..)).)))..))))))))......)))))).... ( -26.80)
>DroAna_CAF1 54794 90 + 1
CGUCCAC----------GCCCCCUACACUAUUUGAUGCAUUUUGCAUAAGCGCUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUUGCAUUUUCCA
.......----------................((((((.(((((((((((((.((((....))))..)).)))..)))))))).....))))))..... ( -24.30)
>DroPer_CAF1 44942 100 + 1
CCGCCUUCUUCUGUGGCACCCCUUCCACUAUUUGAUGCAUUUUGCAUAAGCGUUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUAGCAUUUUCCA
..(((.........)))................(((((..(((((((((((((.((((....))))..)).)))..))))))))......)))))..... ( -24.60)
>consensus
CCUCCACCAAAUGCACUACACACAGCACUAUUUGAUGCAUUUUGCAUAAGCGCUGGGCAAAUGCCUUUGCUGCUUUUAUGCAAAUUUCUAGCAUUUUCCA
.................................(((((..(((((((((((((.((((....))))..)).)))..))))))))......)))))..... (-21.59 = -21.37 +  -0.22)

alignment

secondary structure

dotplot

Window 6

Location	1,270,996 – 1,271,095
Length	99
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.48
Mean single sequence MFE	-22.13
Consensus MFE	-12.15
Energy contribution	-12.49
Covariance contribution	0.34
Combinations/Pair	1.12
Mean z-score	-1.96
Structure conservation index	0.55
SVM decision value	0.28
SVM RNA-class probability	0.666484
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1270996 99 + 22407834
GCAUUUUGCAUAAGCGCU--GGGCAAAUGCCUUUGC---UGCUU-------UUAUGCAAAUU-UCUAGCAUUUUC---CAUGUCGUUACAUUCUUC---GUCGUGUUUUAG-CUGCGA-C
((..(((((((((((((.--((((....))))..))---.))).-------.))))))))..-...(((......---((((.((..........)---).)))).....)-))))..-. ( -26.80)
>DroPse_CAF1 44402 103 + 1
GCAUUUUGCAUAAGCGUU--GGGCAAAUGCCUUUGC---UGCUU-------UUAUGCAAAUU-UCUAGCAUUUUC---CAUGUCGUUACAUUCUUGUUCCUUGUGUUUUCCAUUCUGC-C
(((.(((((((((((((.--((((....))))..))---.))).-------.))))))))..-............---((((..(..(((....)))..).))))..........)))-. ( -20.50)
>DroGri_CAF1 48928 101 + 1
GCAUUUUGCAUAAGCGCU--UGG-AAAUGCCUUUGU---CGUUUUAGCAAUUUAUGCAAAUU-UCGUGCAUUUUACCCCAUGUUGUUACAUUCUUU---GU-AUGUCUUAG--------C
((((((((((((((.(((--..(-((((((....).---)))))))))..))))))))))..-..))))............((((..((((.....---..-))))..)))--------) ( -19.60)
>DroWil_CAF1 43311 109 + 1
GCAUUUUGCAUAAGCGCUUUUGGAAAAUGCCUUUGCCUUUGCUU-------UUAUGCAAAUUUUCGUGCAUUUUC---CAUGUCGUUACAUUCUUGCCUUUUAUGUUUAUACUUAUAU-A
((((...(((..(((((...((((((((((.......(((((..-------....))))).......))))))))---)).).)))).......))).....))))............-. ( -22.44)
>DroAna_CAF1 54820 100 + 1
GCAUUUUGCAUAAGCGCU--GGGCAAAUGCCUUUGC---UGCUU-------UUAUGCAAAUU-UCUUGCAUUUUC---CAUGUCGUUACAUUCUUG---GUCGUGUUUUAG-UUUUGCCC
(((.(((((((((((((.--((((....))))..))---.))).-------.))))))))..-.((.((((...(---((..............))---)..))))...))-...))).. ( -24.24)
>DroPer_CAF1 44978 103 + 1
GCAUUUUGCAUAAGCGUU--GGGCAAAUGCCUUUGC---UGCUU-------UUAUGCAAAUU-UCUAGCAUUUUC---CAUGUCGUUACAUUCUUCUUCCUUGUGUUUUCCAUUCUGC-C
(((.(((((((((((((.--((((....))))..))---.))).-------.))))))))..-....((((....---.))))................................)))-. ( -19.20)
>consensus
GCAUUUUGCAUAAGCGCU__GGGCAAAUGCCUUUGC___UGCUU_______UUAUGCAAAUU_UCUAGCAUUUUC___CAUGUCGUUACAUUCUUG___GUUGUGUUUUAG_UUCUGC_C
(((((((((((((.......(((((...((....))...))))).......))))))))).......((((........))))...................)))).............. (-12.15 = -12.49 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:09 2006