Locus 8865

Sequence ID	3R_DroMel_CAF1
Location	23,799,363 – 23,799,473
Length	110
Max. P	0.710282

overview

Window 9

Location	23,799,363 – 23,799,473
Length	110
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	86.11
Mean single sequence MFE	-32.66
Consensus MFE	-20.94
Energy contribution	-23.10
Covariance contribution	2.16
Combinations/Pair	1.19
Mean z-score	-2.24
Structure conservation index	0.64
SVM decision value	0.25
SVM RNA-class probability	0.655136
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23799363 110 + 27905053
GCUGCAAUAACUGCCGUGGCAAAAGGACACUCACAGCACCA----UCGAUGAUAGUGCGCUAGCGGACUUUGGCCGAAACAAAAGCAUGCCGAAAAGCGGCAGAAAAACAAAAG
((((((.....)))..((((.((((..(.((....((((.(----((...))).))))...)).)..)))).)))).......))).(((((.....)))))............ ( -30.40)
>DroSec_CAF1 4717 110 + 1
GCUGCAAUAACUGCCGUGGCAAAAGGACACUCGCAGCACCA----UCGAUGAUGGUGCGGCAGCGGACUUUGGCCGAAACAAAAGCAUGCCGAAAAGCGGCAGGAAAACAAAAG
((((((.....)))..((((.((((..(.((.((.((((((----((...)))))))).)))).)..)))).)))).......))).(((((.....)))))............ ( -40.50)
>DroSim_CAF1 4744 110 + 1
GCUGCAAUAACUGCCGUGGCAAAAGGACACUCGCAGCACCA----UCGAUGAUGGUGCGGCAGCGGACUUUGGCCGAAACAAAAGCAUGCCGAAAAGCGGCAGGAAAACAAAAG
((((((.....)))..((((.((((..(.((.((.((((((----((...)))))))).)))).)..)))).)))).......))).(((((.....)))))............ ( -40.50)
>DroEre_CAF1 4913 92 + 1
GCUGCAAUAACUGCCGUGGCAAAAGG----------------------AUGAUGGUGCGGCAGUGGACUUUGGUCGGAACAAAAGCAUCCCGAAAAGCGGCAGGAAAACAAAAG
(((((....(((((((((.((.....----------------------....)).))))))))).........((((............))))...)))))............. ( -27.90)
>DroYak_CAF1 5088 114 + 1
GCUGCAAUAACUGUCGUGGCAAAAGGACACUCGCAGCACUGGAUGAUGAUGAUGGUGGGGCAGCGGACAUUGGUCGAAACAAAAGCAUCCCGAAAAGCGGCAGGAAAACAAAGG
(((((....((((((((.(((..((..(.......)..))...)).).))))))))((((..((.....(((.......)))..)).)))).....)))))............. ( -24.00)
>consensus
GCUGCAAUAACUGCCGUGGCAAAAGGACACUCGCAGCACCA____UCGAUGAUGGUGCGGCAGCGGACUUUGGCCGAAACAAAAGCAUGCCGAAAAGCGGCAGGAAAACAAAAG
..........((((((((((.((((..(.((.((.((((((...........)))))).)))).)..)))).)))..........(.....)....)))))))........... (-20.94 = -23.10 +   2.16)

alignment

secondary structure

dotplot

Window 0

Location	23,799,363 – 23,799,473
Length	110
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	86.11
Mean single sequence MFE	-34.26
Consensus MFE	-20.50
Energy contribution	-23.62
Covariance contribution	3.12
Combinations/Pair	1.09
Mean z-score	-2.75
Structure conservation index	0.60
SVM decision value	0.37
SVM RNA-class probability	0.710282
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23799363 110 - 27905053
CUUUUGUUUUUCUGCCGCUUUUCGGCAUGCUUUUGUUUCGGCCAAAGUCCGCUAGCGCACUAUCAUCGA----UGGUGCUGUGAGUGUCCUUUUGCCACGGCAGUUAUUGCAGC
...((((....((((((......((((......))))..(((.((((..((((.((((((((((...))----)))))).)).))))..)))).))).)))))).....)))). ( -40.00)
>DroSec_CAF1 4717 110 - 1
CUUUUGUUUUCCUGCCGCUUUUCGGCAUGCUUUUGUUUCGGCCAAAGUCCGCUGCCGCACCAUCAUCGA----UGGUGCUGCGAGUGUCCUUUUGCCACGGCAGUUAUUGCAGC
...((((.(..((((((......((((......))))..(((.((((..((((((.((((((((...))----)))))).)).))))..)))).))).))))))..)..)))). ( -43.70)
>DroSim_CAF1 4744 110 - 1
CUUUUGUUUUCCUGCCGCUUUUCGGCAUGCUUUUGUUUCGGCCAAAGUCCGCUGCCGCACCAUCAUCGA----UGGUGCUGCGAGUGUCCUUUUGCCACGGCAGUUAUUGCAGC
...((((.(..((((((......((((......))))..(((.((((..((((((.((((((((...))----)))))).)).))))..)))).))).))))))..)..)))). ( -43.70)
>DroEre_CAF1 4913 92 - 1
CUUUUGUUUUCCUGCCGCUUUUCGGGAUGCUUUUGUUCCGACCAAAGUCCACUGCCGCACCAUCAU----------------------CCUUUUGCCACGGCAGUUAUUGCAGC
...........((((.((((((((((((......)))))))..)))))..(((((((...((....----------------------.....))...)))))))....)))). ( -24.80)
>DroYak_CAF1 5088 114 - 1
CCUUUGUUUUCCUGCCGCUUUUCGGGAUGCUUUUGUUUCGACCAAUGUCCGCUGCCCCACCAUCAUCAUCAUCCAGUGCUGCGAGUGUCCUUUUGCCACGACAGUUAUUGCAGC
...........((((((.....)))((((.....((..((((....)).))..)).....)))).........))).(((((((.((((..........))))....))))))) ( -19.10)
>consensus
CUUUUGUUUUCCUGCCGCUUUUCGGCAUGCUUUUGUUUCGGCCAAAGUCCGCUGCCGCACCAUCAUCGA____UGGUGCUGCGAGUGUCCUUUUGCCACGGCAGUUAUUGCAGC
...((((.(..((((((......((...((....)).))(((.((((..((((((.(((((.............))))).)).))))..)))).))).))))))..)..)))). (-20.50 = -23.62 +   3.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:34 2006