Locus 5996

Sequence ID X_DroMel_CAF1
Location 15,400,526 – 15,400,638
Length 112
Max. P 0.936890
window9755 window9756

overview

Window 5

Location 15,400,526 – 15,400,638
Length 112
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 70.14
Mean single sequence MFE -28.75
Consensus MFE -11.85
Energy contribution -11.85
Covariance contribution -0.00
Combinations/Pair 1.35
Mean z-score -2.12
Structure conservation index 0.41
SVM decision value -0.00
SVM RNA-class probability 0.532323
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15400526 112 + 22224390
AUUUUAUGUAAUACU-----GUGGCGCGGCAUA-UUUUGUUGUGAACAAUGAAAUGCGUUAAUUCGAGGGG-UUUGGUUCAGCGAAAAGCCAAUUUAAUUGUGGCAUUCGCCACACUUG
...............-----.((((..(((.((-(((..(((....)))..))))).)))..((((..(..-(...)..)..))))..)))).......((((((....)))))).... ( -29.30)
>DroSec_CAF1 46186 103 + 1
---------AAAAUU-----GUGGCGCGGCAUA-UUUUGUUGUGAACAAUAAAAUGCGUUAAUUCGAGGGG-UUUGCUUCAGCGAAAAGCCAAUUUAAUUGUGGCAUUCGCCACACUUG
---------.....(-----((((((((((.((-((((((((....)))))))))).))).....((((..-....)))).))(((..((((.........)))).))))))))).... ( -31.70)
>DroEre_CAF1 37843 93 + 1
AAC---------UCC-----GUGGCGCGGCAUA-UUUGCU------CAA-AAAAUGCCUUAAUUUGAGGGG-UUUGGCUCAGCGAAAAGCCAAUUUCAUUGUGGUAUUCAGCACAC---
...---------...-----(((((..((((..-..))))------...-..((((((.((((....(..(-((.((((........)))))))..))))).))))))..)).)))--- ( -21.80)
>DroYak_CAF1 41028 101 + 1
AAU---------UCUAUUUUGUUGUGAGCAAUAAACUGCU------CAUUAAAAUGCGUUAAUUUGAUGGUUUUUGGCUCAGCGAAGAGCCAAUUUCAUUGUGGUAUUUAACGCAU---
...---------...((((((..(((((((......))))------)))))))))(((((((..((((((...(((((((......)))))))..))))))......)))))))..--- ( -32.20)
>consensus
AAU_________ACU_____GUGGCGCGGCAUA_UUUGCU______CAAUAAAAUGCGUUAAUUCGAGGGG_UUUGGCUCAGCGAAAAGCCAAUUUAAUUGUGGCAUUCACCACAC___
....................((((((....................................((((..(((......)))..))))..((((.........))))...))))))..... (-11.85 = -11.85 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 15,400,526 – 15,400,638
Length 112
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 70.14
Mean single sequence MFE -23.33
Consensus MFE -10.95
Energy contribution -11.33
Covariance contribution 0.38
Combinations/Pair 1.39
Mean z-score -2.26
Structure conservation index 0.47
SVM decision value 1.26
SVM RNA-class probability 0.936890
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15400526 112 - 22224390
CAAGUGUGGCGAAUGCCACAAUUAAAUUGGCUUUUCGCUGAACCAAA-CCCCUCGAAUUAACGCAUUUCAUUGUUCACAACAAAA-UAUGCCGCGCCAC-----AGUAUUACAUAAAAU
..(.(((((((((.((((.........))))..)))(((((......-....))).......((((....((((.....))))..-.)))).)))))))-----).)............ ( -22.00)
>DroSec_CAF1 46186 103 - 1
CAAGUGUGGCGAAUGCCACAAUUAAAUUGGCUUUUCGCUGAAGCAAA-CCCCUCGAAUUAACGCAUUUUAUUGUUCACAACAAAA-UAUGCCGCGCCAC-----AAUUUU---------
...(((((((((((((..((((...))))(((((.....)))))...-..............))))))..((((.....))))..-...)))))))...-----......--------- ( -22.60)
>DroEre_CAF1 37843 93 - 1
---GUGUGCUGAAUACCACAAUGAAAUUGGCUUUUCGCUGAGCCAAA-CCCCUCAAAUUAAGGCAUUUU-UUG------AGCAAA-UAUGCCGCGCCAC-----GGA---------GUU
---((((((.................(((((((......))))))).-.............(((((.((-(..------...)))-.)))))))).)))-----...---------... ( -22.10)
>DroYak_CAF1 41028 101 - 1
---AUGCGUUAAAUACCACAAUGAAAUUGGCUCUUCGCUGAGCCAAAAACCAUCAAAUUAACGCAUUUUAAUG------AGCAGUUUAUUGCUCACAACAAAAUAGA---------AUU
---(((((((((....(.....)...(((((((......)))))))...........))))))))).....((------(((((....)))))))............---------... ( -26.60)
>consensus
___GUGUGGCGAAUACCACAAUGAAAUUGGCUUUUCGCUGAACCAAA_CCCCUCAAAUUAACGCAUUUUAUUG______ACAAAA_UAUGCCGCGCCAC_____AGA_________AUU
...((((((((...............(((((((......)))))))........(((.........)))...................))))))))....................... (-10.95 = -11.33 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:47 2006