Locus 538

Sequence ID 3L_DroMel_CAF1
Location 1,570,007 – 1,570,144
Length 137
Max. P 0.956867
window817 window818

overview

Window 7

Location 1,570,007 – 1,570,117
Length 110
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 64.90
Mean single sequence MFE -18.02
Consensus MFE -8.72
Energy contribution -9.04
Covariance contribution 0.31
Combinations/Pair 1.08
Mean z-score -2.02
Structure conservation index 0.48
SVM decision value 1.47
SVM RNA-class probability 0.956867
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1570007 110 + 23771897
AGUUGCAGCAGCUCU-CUCUCUCUC---UUUUUUAUGCUCACUUCCUUGCUCCCAAGUUGUGCAAGUGCAUCGGCAUAACUUUCUGCCUCCUCAGGUUCUCUCUCUCCCAGUUC
(((((...)))))..-.........---....(((((((......(((((...........)))))......)))))))......((((....))))................. ( -15.00)
>DroSim_CAF1 14722 102 + 1
AGUGGCAGCAGCUCCACUCUCUCUCUGCCUUAAUAUGCUAACUUCCUCACUCGCAAGUUG--CCGAUGCACUUGCAUCACUCUCUGCUUCC----------UCUCUCCCACUCC
((.((.(((((.........................((.(((((.(......).))))))--).(((((....))))).....))))).))----------.)).......... ( -20.50)
>DroEre_CAF1 20689 85 + 1
AGUUGCAGCAGACUCACUCUCUU----------UAUGCUCUC---------------UUG--CCGAUGCACUUGCAUCACUCUCUGCUCACGGAGGCUC--GCUCUCCCACUCC
.((.(.((((((...........----------...((....---------------..)--).(((((....)))))....)))))))))(((((...--.).))))...... ( -21.80)
>DroYak_CAF1 15030 85 + 1
AGUUGCAGCAGCCCCACUCUCUU----------UACGCUCUC---------------UUG--CCGAUGCACUUGCAUCACUCUCUGCUCCCGUAGGCUC--ACUCUCCCACUUC
..(((((((((............----------...((....---------------..)--).(((((....))))).....)))))...))))....--............. ( -14.80)
>consensus
AGUUGCAGCAGCCCCACUCUCUC__________UAUGCUCAC_______________UUG__CCGAUGCACUUGCAUCACUCUCUGCUCCCG_AGGCUC__UCUCUCCCACUCC
....((((.(((........................))).........................(((((....))))).....))))........................... ( -8.72 =  -9.04 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 1,570,043 – 1,570,144
Length 101
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 71.36
Mean single sequence MFE -19.18
Consensus MFE -9.49
Energy contribution -9.55
Covariance contribution 0.06
Combinations/Pair 1.10
Mean z-score -1.78
Structure conservation index 0.49
SVM decision value -0.04
SVM RNA-class probability 0.514564
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1570043 101 + 23771897
ACUUCCUUGCUCCCAAGUUGUGCAAGUGCAUCGGCAUAACUUUCUGCCUCCUCAGGUUCUCUCUCUCCCAGUUCCACUCG------AUAGCUAGAGUUCGCUCGCGA
.....(((((...........)))))((((((((((........))))......((..((.........))..))....)------)).....(((....)))))). ( -18.40)
>DroSec_CAF1 14509 89 + 1
ACCUCCUCACUCGCAAGUUG--CCGAUGCACUUGCAUCACUCUCUGCUUCC----------UCUCUCCCACUCCCACUCG------AUAGCUAGAGUUCGCUCGCGA
..........((((.(((..--..(((((....)))))(((((..(((...----------((................)------).))).)))))..))).)))) ( -19.29)
>DroSim_CAF1 14762 89 + 1
ACUUCCUCACUCGCAAGUUG--CCGAUGCACUUGCAUCACUCUCUGCUUCC----------UCUCUCCCACUCCCACUCG------AUAGCUAGAGUUCGCUCGCGA
..........((((.(((..--..(((((....)))))(((((..(((...----------((................)------).))).)))))..))).)))) ( -19.29)
>DroYak_CAF1 15060 88 + 1
UC---------------UUG--CCGAUGCACUUGCAUCACUCUCUGCUCCCGUAGGCUC--ACUCUCCCACUUCCACUCCUACUCAAUGGCUAGAGCACGCUCGCGA
((---------------(.(--(((((((....))))).............(((((...--.................))))).....))).)))((......)).. ( -19.75)
>consensus
ACUUCCUCACUCGCAAGUUG__CCGAUGCACUUGCAUCACUCUCUGCUUCC__________UCUCUCCCACUCCCACUCG______AUAGCUAGAGUUCGCUCGCGA
........................(((((....)))))...................................................((..(((....))))).. ( -9.49 =  -9.55 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:43 2006