Locus 8676

Sequence ID X_DroMel_CAF1
Location 21,968,142 – 21,968,241
Length 99
Max. P 0.668916
window14265 window14266

overview

Window 5

Location 21,968,142 – 21,968,241
Length 99
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.15
Mean single sequence MFE -14.60
Consensus MFE -10.88
Energy contribution -10.88
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.48
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.571859
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21968142 99 + 22224390
UCCACAAAC--------CAUUUUCCC---------ACUUUUCCACGCCCACCUGUCAGUCUACGCGUCAGUUUUUCAUUCUCACUUAUUUUGCCCU----GGCAGGCAUUCAUCAGCGUU
.........--------.........---------........((((...((((((((.....(((........................))).))----)))))).........)))). ( -12.36)
>DroSec_CAF1 33558 99 + 1
UCCACAAAC--------CAUUUUCCC---------ACUUUUCCACGCCCACCUGUCAGUCUACCCGUCAGUUUUUCAUUCUCACUUAUUGUGCCCU----GGCAGGCAUUCAUCAGCGUU
.........--------.........---------........((((...((((((((..(((..((.(((...........))).)).)))..))----)))))).........)))). ( -15.00)
>DroSim_CAF1 20315 98 + 1
UCCACAAAC--------CAUUUUCCC---------ACUU-UCCACGCCCACCUGUCAGUCUACCCGUCAGUUUUUCAUUCUCACUUAUUGUGCCCU----GGCAGGCAUUCAUCAGCGUU
.........--------.........---------....-...((((...((((((((..(((..((.(((...........))).)).)))..))----)))))).........)))). ( -15.00)
>DroYak_CAF1 23073 119 + 1
GCCACACCCUAUUUCCCCAUUUUCCCACUUUUCCCACUUUUCCACGCCCACCUGUCAGUCUACCCGUCAGUUAUUCAUUCUCACUUUU-UUGCCCUGGCUGGCAGGCAUUCAUCAGCGUU
...........................................((((...((((((((((............................-.......)))))))))).........)))). ( -16.05)
>consensus
UCCACAAAC________CAUUUUCCC_________ACUUUUCCACGCCCACCUGUCAGUCUACCCGUCAGUUUUUCAUUCUCACUUAUUGUGCCCU____GGCAGGCAUUCAUCAGCGUU
...........................................((((.....((((.........((.((.........)).))......((((......)))))))).......)))). (-10.88 = -10.88 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,968,142 – 21,968,241
Length 99
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.15
Mean single sequence MFE -23.67
Consensus MFE -19.08
Energy contribution -19.32
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.81
SVM decision value 0.29
SVM RNA-class probability 0.668916
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21968142 99 - 22224390
AACGCUGAUGAAUGCCUGCC----AGGGCAAAAUAAGUGAGAAUGAAAAACUGACGCGUAGACUGACAGGUGGGCGUGGAAAAGU---------GGGAAAAUG--------GUUUGUGGA
..((((.....(((((..((----............((.((.........)).))..((......)).))..))))).....)))---------)........--------......... ( -21.30)
>DroSec_CAF1 33558 99 - 1
AACGCUGAUGAAUGCCUGCC----AGGGCACAAUAAGUGAGAAUGAAAAACUGACGGGUAGACUGACAGGUGGGCGUGGAAAAGU---------GGGAAAAUG--------GUUUGUGGA
..((((.....(((((..((----(...(((.....)))....)).....(((.(((.....))).))))..))))).....)))---------)........--------......... ( -24.20)
>DroSim_CAF1 20315 98 - 1
AACGCUGAUGAAUGCCUGCC----AGGGCACAAUAAGUGAGAAUGAAAAACUGACGGGUAGACUGACAGGUGGGCGUGGA-AAGU---------GGGAAAAUG--------GUUUGUGGA
..((((.....(((((..((----(...(((.....)))....)).....(((.(((.....))).))))..)))))...-.)))---------)........--------......... ( -23.80)
>DroYak_CAF1 23073 119 - 1
AACGCUGAUGAAUGCCUGCCAGCCAGGGCAA-AAAAGUGAGAAUGAAUAACUGACGGGUAGACUGACAGGUGGGCGUGGAAAAGUGGGAAAAGUGGGAAAAUGGGGAAAUAGGGUGUGGC
..((((.....(((((..((.(.(((.((..-...(((...........))).....))...))).).))..))))).....)))).................................. ( -25.40)
>consensus
AACGCUGAUGAAUGCCUGCC____AGGGCAAAAUAAGUGAGAAUGAAAAACUGACGGGUAGACUGACAGGUGGGCGUGGAAAAGU_________GGGAAAAUG________GUUUGUGGA
.(((((.((...(((((........)))))....................(((.(((.....))).))))).)))))........................................... (-19.08 = -19.32 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:07 2006