Locus 999

Sequence ID 3R_DroMel_CAF1
Location 3,186,441 – 3,186,532
Length 91
Max. P 0.984590
window1618 window1619

overview

Window 8

Location 3,186,441 – 3,186,532
Length 91
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 91.93
Mean single sequence MFE -31.62
Consensus MFE -27.88
Energy contribution -28.25
Covariance contribution 0.38
Combinations/Pair 1.07
Mean z-score -1.50
Structure conservation index 0.88
SVM decision value 0.30
SVM RNA-class probability 0.677378
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3186441 91 + 27905053
--------CGCAGCAGCUGGAGGAGCUGGAGGAGAUUCGGCCAUGAGAAUGCAGAUUCCCGCUGCUGCUCCAUGUUGGCUGCAUAAAAACGAAGGAAUU
--------.(((((((((((((.(((.((.((.((.((.((.((....)))).)).)))).))))).))))).))).))))).......(....).... ( -33.60)
>DroSec_CAF1 5949 91 + 1
--------CGCAGCAGCUGUAGGAGCUGGAGGAGAUUCGACCAUGAGAAUGCAGAUUCCCGCUGCUGCUCCAUGUUGGCUGCAUAAAAACGCAGGAAUU
--------..(((((...((((.(((.((((..(((((........)))).)...)))).))).))))....))))).((((........))))..... ( -27.90)
>DroSim_CAF1 12506 91 + 1
--------CGCAGCAGCUGUAGGAGCUGGAGGAGAUUCGACCAUGAGAAUGCAGAUUCCCGCUGCUGCUCCAUGUUGGCUGCAUAAAAACGCAGGAAUU
--------..(((((...((((.(((.((((..(((((........)))).)...)))).))).))))....))))).((((........))))..... ( -27.90)
>DroEre_CAF1 7318 99 + 1
GGAGCAGCUGGAGCGGCUGGAGGAGCUGGAGGAGGUUCGACCAUGAGAAUGCAGAUUCCCGCUGCUGCUCCAUGUUGGCUGCAUAAAAACGCAGGAAUU
((((((((...(((((.(((..(((((......)))))..)))...((((....))))))))))))))))).......((((........))))..... ( -37.10)
>consensus
________CGCAGCAGCUGGAGGAGCUGGAGGAGAUUCGACCAUGAGAAUGCAGAUUCCCGCUGCUGCUCCAUGUUGGCUGCAUAAAAACGCAGGAAUU
.........(((((((((((((.(((.((.((.((.((...(((....)))..)).)))).))))).))))).))).)))))................. (-27.88 = -28.25 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,186,441 – 3,186,532
Length 91
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 91.93
Mean single sequence MFE -30.85
Consensus MFE -27.08
Energy contribution -27.82
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.88
SVM decision value 1.98
SVM RNA-class probability 0.984590
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3186441 91 - 27905053
AAUUCCUUCGUUUUUAUGCAGCCAACAUGGAGCAGCAGCGGGAAUCUGCAUUCUCAUGGCCGAAUCUCCUCCAGCUCCUCCAGCUGCUGCG--------
.................(((((.....(((((.(((...((((((....)))))).(((..(.....)..)))))).)))))...))))).-------- ( -27.00)
>DroSec_CAF1 5949 91 - 1
AAUUCCUGCGUUUUUAUGCAGCCAACAUGGAGCAGCAGCGGGAAUCUGCAUUCUCAUGGUCGAAUCUCCUCCAGCUCCUACAGCUGCUGCG--------
.....((((((....))))))((.....)).((((((((((((((....)))))).(((..(.....)..))).........)))))))).-------- ( -32.00)
>DroSim_CAF1 12506 91 - 1
AAUUCCUGCGUUUUUAUGCAGCCAACAUGGAGCAGCAGCGGGAAUCUGCAUUCUCAUGGUCGAAUCUCCUCCAGCUCCUACAGCUGCUGCG--------
.....((((((....))))))((.....)).((((((((((((((....)))))).(((..(.....)..))).........)))))))).-------- ( -32.00)
>DroEre_CAF1 7318 99 - 1
AAUUCCUGCGUUUUUAUGCAGCCAACAUGGAGCAGCAGCGGGAAUCUGCAUUCUCAUGGUCGAACCUCCUCCAGCUCCUCCAGCCGCUCCAGCUGCUCC
.....((((((....)))))).......(((((((((((((((((....))))...(((..((.(........).))..))).)))))...)))))))) ( -32.40)
>consensus
AAUUCCUGCGUUUUUAUGCAGCCAACAUGGAGCAGCAGCGGGAAUCUGCAUUCUCAUGGUCGAAUCUCCUCCAGCUCCUACAGCUGCUGCG________
.....((((((....))))))((.....)).((((((((((((((....)))))).(((..(.....)..))).........))))))))......... (-27.08 = -27.82 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:01 2006