Locus 3113

Sequence ID	2L_DroMel_CAF1
Location	8,852,622 – 8,852,717
Length	95
Max. P	0.931367

overview

Window 9

Location	8,852,622 – 8,852,717
Length	95
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	80.26
Mean single sequence MFE	-30.93
Consensus MFE	-18.78
Energy contribution	-19.28
Covariance contribution	0.50
Combinations/Pair	1.32
Mean z-score	-2.66
Structure conservation index	0.61
SVM decision value	1.21
SVM RNA-class probability	0.931367
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8852622 95 + 22407834
GUUUUCCAUAGUGCGGGGGUGUACG--UGUGUGCCACUGCACAACUGACACACAAG-CCACUAGAAAACUGUCACUUUAACCUACGCACUUUCGGAAA
..(((((..((((((..(((....(--(.(((((....)))))))(((((......-............))))).....)))..))))))...))))) ( -27.87)
>DroSec_CAF1 62796 95 + 1
GUUUUCCAAAGUGCGGGGGUGUACG--UGUGUGCCACUGAACAACUGCCACACAAA-CCGCUAGAAAACUGACACUUUAACCCACGCACUUUCGGAAA
..(((((((((((((((((((....--((((((.((.(.....).)).))))))..-.)))(((....))).........))).)))))))).))))) ( -31.10)
>DroSim_CAF1 61360 95 + 1
GUUUUCCAAAGUGCGGGGGUGUACA--UGUGUGCCACUGAACAACUCACACACAAA-CCGCUAGAAAACUGACACUUUAACCCACGCACUUUCGGAAA
..(((((((((((((.((((.....--((((((....(((.....)))))))))..-..(.(((....))).)......)))).)))))))).))))) ( -29.90)
>DroEre_CAF1 65662 97 + 1
GUUUUCCAAAGUGCGGGGGAGUAGCACUGUGUGCCACUGAACAACUGGCACAUAAG-CCGUUGGAAAACUGACACUUUAACCCACGCACAUUCAGAGA
..........((((((((((((.((..(((((((((.(.....).))))))))).)-).((..(....)..))))))...))).)))))......... ( -32.20)
>DroYak_CAF1 64643 97 + 1
GUUUUCCAAAGUGCGGCGGAGUACGUGUGUGUGCCGCUGAACAACUGGCACAUAAA-CCGUUGGAAAACUGACACUUUAACCCACGCACUUUCGGAAA
..(((((((((((((..((.((..((.(((((((((.(.....).))))))))).)-).((..(....)..))......)))).)))))))).))))) ( -35.60)
>DroAna_CAF1 65324 93 + 1
UUUCCAUCAAGUGCGGGGGUGUGCUUACGUGUGCCACUGAACAACUGGCACAUAGAAACCCUAGA-----GGCUCUAGUAGUUACGCAUUUUCGUCCA
..........(..((..((((((...((((((((((.(.....).)))))))).......((((.-----....))))..))..))))))..))..). ( -28.90)
>consensus
GUUUUCCAAAGUGCGGGGGUGUACG__UGUGUGCCACUGAACAACUGGCACACAAA_CCGCUAGAAAACUGACACUUUAACCCACGCACUUUCGGAAA
..(((((((((((((.(((........((((((.((.(.....).)).)))))).......(((....))).........))).)))))))).))))) (-18.78 = -19.28 +   0.50)

alignment

secondary structure

dotplot

Window 0

Location	8,852,622 – 8,852,717
Length	95
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	80.26
Mean single sequence MFE	-32.78
Consensus MFE	-17.91
Energy contribution	-18.91
Covariance contribution	1.00
Combinations/Pair	1.20
Mean z-score	-2.42
Structure conservation index	0.55
SVM decision value	0.71
SVM RNA-class probability	0.830718
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8852622 95 - 22407834
UUUCCGAAAGUGCGUAGGUUAAAGUGACAGUUUUCUAGUGG-CUUGUGUGUCAGUUGUGCAGUGGCACACA--CGUACACCCCCGCACUAUGGAAAAC
((((((..((((((..(((..((((.((((....)).)).)-)))((((((((.(.....).)))))))).--.....)))..)))))).)))))).. ( -34.50)
>DroSec_CAF1 62796 95 - 1
UUUCCGAAAGUGCGUGGGUUAAAGUGUCAGUUUUCUAGCGG-UUUGUGUGGCAGUUGUUCAGUGGCACACA--CGUACACCCCCGCACUUUGGAAAAC
(((((.((((((((.((((.(((.((..((....))..)).-)))(((((.((.(.....).)).))))).--.....)))).))))))))))))).. ( -36.10)
>DroSim_CAF1 61360 95 - 1
UUUCCGAAAGUGCGUGGGUUAAAGUGUCAGUUUUCUAGCGG-UUUGUGUGUGAGUUGUUCAGUGGCACACA--UGUACACCCCCGCACUUUGGAAAAC
(((((.((((((((.((((.(((.((..((....))..)).-)))((((((.(.(.....).).)))))).--.....)))).))))))))))))).. ( -34.80)
>DroEre_CAF1 65662 97 - 1
UCUCUGAAUGUGCGUGGGUUAAAGUGUCAGUUUUCCAACGG-CUUAUGUGCCAGUUGUUCAGUGGCACACAGUGCUACUCCCCCGCACUUUGGAAAAC
..((..((.(((((.(((.................((((((-(......))).))))...((((((((...)))))))).))))))))))..)).... ( -35.30)
>DroYak_CAF1 64643 97 - 1
UUUCCGAAAGUGCGUGGGUUAAAGUGUCAGUUUUCCAACGG-UUUAUGUGCCAGUUGUUCAGCGGCACACACACGUACUCCGCCGCACUUUGGAAAAC
(((((.(((((((((((((....((((..(((....)))..-....((((((.(((....))))))))).))))..)).))).))))))))))))).. ( -35.30)
>DroAna_CAF1 65324 93 - 1
UGGACGAAAAUGCGUAACUACUAGAGCC-----UCUAGGGUUUCUAUGUGCCAGUUGUUCAGUGGCACACGUAAGCACACCCCCGCACUUGAUGGAAA
..........((((......((((....-----.)))).((((.(.(((((((.(.....).))))))).).)))).......))))........... ( -20.70)
>consensus
UUUCCGAAAGUGCGUGGGUUAAAGUGUCAGUUUUCUAGCGG_UUUAUGUGCCAGUUGUUCAGUGGCACACA__CGUACACCCCCGCACUUUGGAAAAC
((((((((.(((((((((...............)))).........(((((((.(.....).)))))))..............))))))))))))).. (-17.91 = -18.91 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:38 2006