Locus 498

Sequence ID	3L_DroMel_CAF1
Location	1,401,194 – 1,401,332
Length	138
Max. P	0.683233

overview

Window 7

Location	1,401,194 – 1,401,300
Length	106
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	81.01
Mean single sequence MFE	-38.07
Consensus MFE	-23.13
Energy contribution	-23.88
Covariance contribution	0.75
Combinations/Pair	1.20
Mean z-score	-1.83
Structure conservation index	0.61
SVM decision value	0.20
SVM RNA-class probability	0.628904
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1401194 106 + 23771897
CCAGCUGGAGUACAGGCGCUAUUUCUGGUGGCACUCCAUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGUCUCCUGGG
((((..((((((..(((((.......(((((....)))))....(((((((........))))))).....)))))...))))))((........))....)))). ( -37.60)
>DroGri_CAF1 31676 100 + 1
GCCGCAGCUGUACGAGCAAUUCUUCUGGUGGCAUUCCAUGUAUCGACUCCACAAGAGUCCGCAUCCCUUGUGCGCCCUCUGCCGCCAACUCGGU------CGCGAG
..(((.((((...(((......)))((((((((...........(((((.....)))))(((((.....))))).....))))))))...))))------.))).. ( -31.60)
>DroSec_CAF1 56099 106 + 1
CCCGCUGGAGUACAGGCGCUACUUCUGGUGGCACUCCAUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGGCUCCAGGG
.((.(((((((...(((((.......(((((....)))))....(((((((........))))))).....)))))..(((.............)))))))))))) ( -40.62)
>DroSim_CAF1 52229 106 + 1
UCCGCUGGAGUACAGGCGCUACUUCUGGUGGCACUCCAUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGGCUCCAGGG
.((.(((((((...(((((.......(((((....)))))....(((((((........))))))).....)))))..(((.............)))))))))))) ( -40.42)
>DroEre_CAF1 57766 106 + 1
CCCGGAGGAGUACAGGCGCUACUUCUGGUGGCAUGCCAUCUACAAGCUGCGCCAGGCCUCGCAACCCUACUGCGCCCUCUGCUCCCUGGUGCAACAGGCUCCAGGG
..((((((.((...(((((..(((..(((((....)))))...)))..))))).......(((.......)))))))))))..((((((.((.....)).)))))) ( -45.60)
>DroYak_CAF1 59504 106 + 1
UCCAAAGGAGUACAGGCGCUACUUCUGGUGGCACUCCAUCUACAAGCUGCGCCACGCCUCGCAACCCUACUGCGCCCUCUGCUCCCUCGUGCAAAAGGCUCCAGGG
.((...(((.....(((((..(((..(((((....)))))...)))..)))))..((((((((.......)))).....(((........)))..)))))))..)) ( -32.60)
>consensus
CCCGCAGGAGUACAGGCGCUACUUCUGGUGGCACUCCAUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGGCUCCAGGG
......((((((.((((((..(((..(((((....)))))...)))..)))).......(((((.....)))))..)).))))))..................... (-23.13 = -23.88 +   0.75)

alignment

secondary structure

dotplot

Window 8

Location	1,401,231 – 1,401,332
Length	101
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	78.03
Mean single sequence MFE	-37.07
Consensus MFE	-18.16
Energy contribution	-19.64
Covariance contribution	1.48
Combinations/Pair	1.29
Mean z-score	-2.06
Structure conservation index	0.49
SVM decision value	0.31
SVM RNA-class probability	0.683233
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1401231 101 + 23771897
AUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGUCUCCUGGGGGGCACGAGGUGCG-CCAGAGAUCCUACAGCUU
((((...(((((((........)))))))...(((((((((((((((((.((.............))))))))).)))).)))-.))))))).......... ( -41.42)
>DroSec_CAF1 56136 101 + 1
AUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGGCUCCAGGGGGGCACGAGGUGCG-CCAGAGAGCCUACAGCUC
.......(((((((........)))))))...((((((((((((((((((...((....)).....)))))))).)))).)))-.))).((((.....)))) ( -45.90)
>DroSim_CAF1 52266 101 + 1
AUCUACAGGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGGCUCCAGGGGGGCACGAGGUGCG-CCAGAGAGCCUACAGCUC
.......(((((((........)))))))...((((((((((((((((((...((....)).....)))))))).)))).)))-.))).((((.....)))) ( -45.90)
>DroEre_CAF1 57803 101 + 1
AUCUACAAGCUGCGCCAGGCCUCGCAACCCUACUGCGCCCUCUGCUCCCUGGUGCAACAGGCUCCAGGGGGGCACAAGAUCCG-CCAGAGAUCCGACAUCAC
........(.(((..((((...((((.......))))...))))((((((((.((.....)).))))))))))))..(((((.-...).))))......... ( -30.80)
>DroYak_CAF1 59541 101 + 1
AUCUACAAGCUGCGCCACGCCUCGCAACCCUACUGCGCCCUCUGCUCCCUCGUGCAAAAGGCUCCAGGGGCACCCGAGAUCCG-UCAGAGAUCCUACAGCAC
........((((......((((((((.......)))(((...(((........)))...)))....)))))......(((((.-...).))))...)))).. ( -27.90)
>DroAna_CAF1 59762 102 + 1
AUCUACAAGAUCCGGGCCAUCGCCCAGCCGUACUGCGCCUUGUGCCACUUCAUCCAAACGCCCCUGAAGGACCGUAAGGCGAAGAAGGAGAGCACGGACCUU
......(((.(((((((....)))).(((...((.(((((((((...(((((............)))))...)))))))))....))..).))..))).))) ( -30.50)
>consensus
AUCUACAAGCUGCGCAAGACCUCGCAGCCCUACUGCGCCCUCUGCUCCCUCAUCCAACAGGCUCCAGGGGGGCACGAGGUGCG_CCAGAGAGCCUACAGCUC
........((((.((........)).......((((((((((((((((((................)))))))).)))).)))..)))........)))).. (-18.16 = -19.64 +   1.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:35 2006