Locus 1312

Sequence ID 2L_DroMel_CAF1
Location 3,446,922 – 3,447,082
Length 160
Max. P 0.850858
window2148 window2149 window2150

overview

Window 8

Location 3,446,922 – 3,447,042
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.36
Mean single sequence MFE -36.80
Consensus MFE -32.40
Energy contribution -32.40
Covariance contribution -0.00
Combinations/Pair 1.13
Mean z-score -1.78
Structure conservation index 0.88
SVM decision value 0.79
SVM RNA-class probability 0.850858
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3446922 120 + 22407834
ACCAUGGCAUUGGCUCCACGCUGCUGGAAAACCAGGUUUUGCUGCCCCAGAACGCGUUCAUCCAGCGAGUACUGGACACCACAUGCAGCAAUCAGCCGAUCAUGCUCAGCUACUGCAAAA
..((((..(((((((....((((((((....((((..(((((((.....(((....)))...)))))))..))))...)))...)))))....)))))))))))....((....)).... ( -37.50)
>DroSec_CAF1 13779 120 + 1
ACCAUGGCAUUGGCUCCACGCUGCUGGAAAACCAGGUUUUGUUGCCCCAGAACGCGUUCAUCCAGCGAAUACUGGACACCACCUGCAGCAAUCAGCCGAUCAUGCUUAGCUACUGCAAAA
..((((..(((((((....(((((.((....((((..(((((((.....(((....)))...)))))))..))))......)).)))))....)))))))))))....((....)).... ( -35.80)
>DroEre_CAF1 13158 120 + 1
ACCAUGGCAUUGGCUCCACGCUGCUGGAGAACCAGGUGCUGCUGCCCCAAAACGCGUUCAUCCAGAGAAUACUGGACACCACCUGCAGCAAUCAGCCAAUCAUGCUCAGCUACUGCAAGA
..((((..(((((((....(((((.((.(((((.((.((....)).)).....).)))).(((((......))))).....)).)))))....)))))))))))....((....)).... ( -36.60)
>DroYak_CAF1 944 120 + 1
AUCAUGGCAUUGGCUCCACGCUGCUGGAAAACCAGGUACUGCUGCCGCAGAAUGCGUUCAUCCAGCGAAUACUGGACACCACCUGCAGCAAUCGGCCACUGAUGCUCAGCUACUGCAAAA
....(((((((((((....((((((((....)))(((.((((....))))..........(((((......))))).)))....)))))....)))))...)))).))((....)).... ( -37.30)
>consensus
ACCAUGGCAUUGGCUCCACGCUGCUGGAAAACCAGGUUCUGCUGCCCCAGAACGCGUUCAUCCAGCGAAUACUGGACACCACCUGCAGCAAUCAGCCAAUCAUGCUCAGCUACUGCAAAA
.....((((((((((....((((((((........((((((......)))))).......(((((......)))))..)))...)))))....)))))...)))))..((....)).... (-32.40 = -32.40 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,446,922 – 3,447,042
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.36
Mean single sequence MFE -44.70
Consensus MFE -38.76
Energy contribution -38.95
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.87
SVM decision value 0.14
SVM RNA-class probability 0.603500
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3446922 120 - 22407834
UUUUGCAGUAGCUGAGCAUGAUCGGCUGAUUGCUGCAUGUGGUGUCCAGUACUCGCUGGAUGAACGCGUUCUGGGGCAGCAAAACCUGGUUUUCCAGCAGCGUGGAGCCAAUGCCAUGGU
....(((((((((((......)))))).))))).((((.(((((((((((....)))))))...((((((((((((.(((........))))))))).))))))..))))))))...... ( -46.20)
>DroSec_CAF1 13779 120 - 1
UUUUGCAGUAGCUAAGCAUGAUCGGCUGAUUGCUGCAGGUGGUGUCCAGUAUUCGCUGGAUGAACGCGUUCUGGGGCAACAAAACCUGGUUUUCCAGCAGCGUGGAGCCAAUGCCAUGGU
..(((((((((...(((.......)))..)))))))))((((((((((((....)))))))...((((((((((((.(((........))))))))).))))))........)))))... ( -43.60)
>DroEre_CAF1 13158 120 - 1
UCUUGCAGUAGCUGAGCAUGAUUGGCUGAUUGCUGCAGGUGGUGUCCAGUAUUCUCUGGAUGAACGCGUUUUGGGGCAGCAGCACCUGGUUCUCCAGCAGCGUGGAGCCAAUGCCAUGGU
.((((((((((.(.(((.......))).)))))))))))((((((((((......))))))...((((((((((((.(.(((...))).).)))))).))))))..)))).......... ( -45.00)
>DroYak_CAF1 944 120 - 1
UUUUGCAGUAGCUGAGCAUCAGUGGCCGAUUGCUGCAGGUGGUGUCCAGUAUUCGCUGGAUGAACGCAUUCUGCGGCAGCAGUACCUGGUUUUCCAGCAGCGUGGAGCCAAUGCCAUGAU
..........((((((.(((((..((.(.(((((((((((((((((((((....)))))))..)).)).))))))))))).))..))))).)).))))..(((((........))))).. ( -44.00)
>consensus
UUUUGCAGUAGCUGAGCAUGAUCGGCUGAUUGCUGCAGGUGGUGUCCAGUAUUCGCUGGAUGAACGCGUUCUGGGGCAGCAAAACCUGGUUUUCCAGCAGCGUGGAGCCAAUGCCAUGGU
...((((((((.(.(((.......))).))))))))).(((((((((((......))))))...((((((((((((.(((........))))))))).))))))........)))))... (-38.76 = -38.95 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 3,446,962 – 3,447,082
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.11
Mean single sequence MFE -48.00
Consensus MFE -40.14
Energy contribution -40.20
Covariance contribution 0.06
Combinations/Pair 1.13
Mean z-score -1.87
Structure conservation index 0.84
SVM decision value 0.76
SVM RNA-class probability 0.844795
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3446962 120 - 22407834
AGGUUGCCGAUUUCGGGACCUCCCCAGAGGAUGGCCAAGGUUUUGCAGUAGCUGAGCAUGAUCGGCUGAUUGCUGCAUGUGGUGUCCAGUACUCGCUGGAUGAACGCGUUCUGGGGCAGC
(((((.(((....))))))))((((((((..((((((..((...(((((((((((......)))))).))))).))...))))(((((((....)))))))...))..)))))))).... ( -52.00)
>DroSec_CAF1 13819 120 - 1
AGGUUGCCGAUUUCGGGACCUCCCCAGAGGAUGGCCAGGGUUUUGCAGUAGCUAAGCAUGAUCGGCUGAUUGCUGCAGGUGGUGUCCAGUAUUCGCUGGAUGAACGCGUUCUGGGGCAAC
(((((.(((....))))))))((((((((..((((((....((((((((((...(((.......)))..))))))))))))))(((((((....)))))))...))..)))))))).... ( -48.90)
>DroEre_CAF1 13198 120 - 1
AGGUUUCCGAUUUCGGGUCCUCCCCAGAGGAUGGCCAAGGUCUUGCAGUAGCUGAGCAUGAUUGGCUGAUUGCUGCAGGUGGUGUCCAGUAUUCUCUGGAUGAACGCGUUUUGGGGCAGC
(((..((((....)))).)))((((((((..((((((....((((((((((.(.(((.......))).)))))))))))))))((((((......))))))...))..)))))))).... ( -46.20)
>DroYak_CAF1 984 120 - 1
AGGUUGCCAAUUUCAGGACCUCCCCACAGAAUGGCCAACGUUUUGCAGUAGCUGAGCAUCAGUGGCCGAUUGCUGCAGGUGGUGUCCAGUAUUCGCUGGAUGAACGCAUUCUGCGGCAGC
..((((((.......((......)).(((((((((((....((((((((((.((.((.......)))).))))))))))))))(((((((....))))))).....))))))).)))))) ( -44.90)
>consensus
AGGUUGCCGAUUUCGGGACCUCCCCAGAGGAUGGCCAAGGUUUUGCAGUAGCUGAGCAUGAUCGGCUGAUUGCUGCAGGUGGUGUCCAGUAUUCGCUGGAUGAACGCGUUCUGGGGCAGC
..((((((......(((.....)))..((((((((((....((((((((((.(.(((.......))).)))))))))))))))((((((......)))))).....))))))..)))))) (-40.14 = -40.20 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:25 2006