Locus 3684

Sequence ID 3L_DroMel_CAF1
Location 10,749,106 – 10,749,248
Length 142
Max. P 0.972677
window5750 window5751

overview

Window 0

Location 10,749,106 – 10,749,225
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.57
Mean single sequence MFE -34.38
Consensus MFE -29.88
Energy contribution -29.76
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.83
Structure conservation index 0.87
SVM decision value 1.70
SVM RNA-class probability 0.972677
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10749106 119 + 23771897
AACAGCGAGUCAUUCGCUUGUGUCCGAUCAUCGAAAGCCGCAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGCGGCCCACAAAGAAUGCAUUUGCAUGUGUCCGGCAUCAACA
.((((((((((((((..(((((..((.....))...(((((.((...((((((((..(....)..))))))))..))))))).))))).))))).)))))).))).............. ( -40.30)
>DroSec_CAF1 82578 118 + 1
AACAGCGAGUCAUUCGCUUGUGUCCGAUCAUCGAAAGCUGCAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGUGGCCCACA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACA
.((((((((((((((...((((..((.....))...((..(.((...((((((((..(....)..))))))))..)))..)).))))-.))))).)))))).))).............. ( -33.80)
>DroSim_CAF1 85222 111 + 1
AA-------UCAUUCGCUUGUGUCCGAUCAUCGAAAGCCGCAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGUGGCCCACA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACA
..-------......(.(((((.(((..........(((((.((...((((((((..(....)..))))))))..)))))))..(((-...((((....)))).))).))))).)))). ( -30.70)
>DroEre_CAF1 87494 111 + 1
-------UCCGAACAGCUAGUGUCCGAUCAUCGAAAGCCGCAUCAUUAUGACCAUUGUCAUGGUGGUGAUCAUUAGAGUGGCCCAGA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACA
-------.(((.(((((.(((((....((.((....((((((((((((((((....)))))))))))..((....)))))))...))-.))..))))).)).)))...)))........ ( -31.30)
>DroYak_CAF1 98168 111 + 1
-------AGUCAUUCGGUUGUGUCCGAUCAUCGAAAGCCGCAUCAUUAUGAUCAUUGUCAUGGUGGUGAUCAUUAGAGUGGCCCACA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACA
-------.........((((((.(((..........(((((.((...((((((((..(....)..))))))))..)))))))..(((-...((((....)))).))).))))).)))). ( -35.80)
>consensus
AA_____AGUCAUUCGCUUGUGUCCGAUCAUCGAAAGCCGCAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGUGGCCCACA_AGAAUGCAUUUGCAUGUGUCCGGCAUCAACA
...................(((.(((..(((.....(((((.((...((((((((..(....)..))))))))..))))))).........((((....)))))))..))))))..... (-29.88 = -29.76 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,749,146 – 10,749,248
Length 102
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 88.17
Mean single sequence MFE -23.94
Consensus MFE -21.26
Energy contribution -21.14
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.46
Structure conservation index 0.89
SVM decision value 0.46
SVM RNA-class probability 0.743279
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10749146 102 + 23771897
CAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGCGGCCCACAAAGAAUGCAUUUGCAUGUGUCCGGCAUCAACAGCUCCAUUUCCAUUU------CCAUUUCC-----------
.......((((((((..(....)..))))))))..((((.(((.(((....((((....)))).)))..))).......))))...........------........----------- ( -23.20)
>DroSec_CAF1 82618 95 + 1
CAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGUGGCCCACA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACAGCUCCAUUUCCAU------------UUCC-----------
.......((((((((..(....)..))))))))..((((.(((.(((-...((((....)))).)))..))).......)))).........------------....----------- ( -22.20)
>DroSim_CAF1 85255 107 + 1
CAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGUGGCCCACA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACAGCUCCAUUUCCAUUUCCAAUUCCAUUUCC-----------
.......((((((((..(....)..))))))))..((((.(((.(((-...((((....)))).)))..))).......)))).........................----------- ( -22.20)
>DroEre_CAF1 87527 101 + 1
CAUCAUUAUGACCAUUGUCAUGGUGGUGAUCAUUAGAGUGGCCCAGA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACAGCUCCAUUACCAUUU------CCAUGUUC-----------
((((((((((((....)))))))))))).......((((.(((..((-...((((....))))...)).))).......))))...........------........----------- ( -26.80)
>DroYak_CAF1 98201 112 + 1
CAUCAUUAUGAUCAUUGUCAUGGUGGUGAUCAUUAGAGUGGCCCACA-AGAAUGCAUUUGCAUGUGUCCGGCAUCAACAGCUCCAUUUCCAUUU------CCAUUUUCAUUUCCAUUUC
((((((((((((....)))))))))))).......((((.(((.(((-...((((....)))).)))..))).......))))...........------................... ( -25.30)
>consensus
CAUCAUUAUGAUCAUUGUCAUCGUGGUGAUCAUUAGAGUGGCCCACA_AGAAUGCAUUUGCAUGUGUCCGGCAUCAACAGCUCCAUUUCCAUUU______CCAUUUCC___________
(((((..(((((....)))))..))))).......((((.(((.(((....((((....)))).)))..))).......)))).................................... (-21.26 = -21.14 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:10 2006