Locus 7724

Sequence ID 2L_DroMel_CAF1
Location 21,834,552 – 21,834,651
Length 99
Max. P 0.646655
window12399 window12400

overview

Window 9

Location 21,834,552 – 21,834,651
Length 99
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 83.85
Mean single sequence MFE -29.60
Consensus MFE -20.71
Energy contribution -21.65
Covariance contribution 0.94
Combinations/Pair 1.15
Mean z-score -1.48
Structure conservation index 0.70
SVM decision value -0.03
SVM RNA-class probability 0.520625
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21834552 99 + 22407834
ACAAGCACACCCUCUUUGU--GUGCGUGUGUGAGACACUGGCUUCGAUUUGCAUUUAAAGAGAGCUUGGGCAAAGAGGGUUGGGGGGGGGGGGAGAGAGAC
.....((.(((((((((((--.(..((((.....)))).((((.(..((((....))))..))))).).)))))))))))))................... ( -25.40)
>DroSec_CAF1 121854 91 + 1
ACAAGCACACCCUCUUUGUGUGUGCGUGUGUGAGGCACGGGCUUCGAUUUGCAUUUAAAGAGAGCUCGUGCAAAGAGGGUAGGG----------GAGAGAC
........((((((((((..(((((.(.....).))))(((((.(..((((....))))..)))))))..))))))))))....----------....... ( -32.00)
>DroSim_CAF1 69125 91 + 1
ACAAGCACACCCUCUUUGUGUGUGCGUGUGUGAGGCACGGGCUUCGAUUUGCAUUUAAAGAGAGCUCGUGCAAAGAGGGUAGGG----------GAGAGAC
........((((((((((..(((((.(.....).))))(((((.(..((((....))))..)))))))..))))))))))....----------....... ( -32.00)
>DroEre_CAF1 83080 84 + 1
ACCAGCACACGCUCUCUGUGUGUGCGU------GACACGGGCUUCGAUUUGCAUUUAAAGAGAGCUUGUGAGAAGAGGGAUGGG-----------AGAGAC
.(((((((((((.....))))))))..------..((((((((.(..((((....))))..)))))))))..........))).-----------...... ( -29.00)
>consensus
ACAAGCACACCCUCUUUGUGUGUGCGUGUGUGAGACACGGGCUUCGAUUUGCAUUUAAAGAGAGCUCGUGCAAAGAGGGUAGGG__________GAGAGAC
........(((((((((((..(.((((((.....))))..((........))...........)).)..)))))))))))..................... (-20.71 = -21.65 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,834,552 – 21,834,651
Length 99
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 83.85
Mean single sequence MFE -21.10
Consensus MFE -15.64
Energy contribution -16.20
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -1.62
Structure conservation index 0.74
SVM decision value 0.24
SVM RNA-class probability 0.646655
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21834552 99 - 22407834
GUCUCUCUCCCCCCCCCCCCAACCCUCUUUGCCCAAGCUCUCUUUAAAUGCAAAUCGAAGCCAGUGUCUCACACACGCAC--ACAAAGAGGGUGUGCUUGU
.....................((((((((((.....((...........))........((..(((.....)))..))..--.))))))))))........ ( -20.60)
>DroSec_CAF1 121854 91 - 1
GUCUCUC----------CCCUACCCUCUUUGCACGAGCUCUCUUUAAAUGCAAAUCGAAGCCCGUGCCUCACACACGCACACACAAAGAGGGUGUGCUUGU
.......----------...(((((((((((..(((((...........))...)))......((((.........))))...)))))))))))....... ( -22.50)
>DroSim_CAF1 69125 91 - 1
GUCUCUC----------CCCUACCCUCUUUGCACGAGCUCUCUUUAAAUGCAAAUCGAAGCCCGUGCCUCACACACGCACACACAAAGAGGGUGUGCUUGU
.......----------...(((((((((((..(((((...........))...)))......((((.........))))...)))))))))))....... ( -22.50)
>DroEre_CAF1 83080 84 - 1
GUCUCU-----------CCCAUCCCUCUUCUCACAAGCUCUCUUUAAAUGCAAAUCGAAGCCCGUGUC------ACGCACACACAGAGAGCGUGUGCUGGU
......-----------......((......((((.(((((((......((........))..((((.------....))))..))))))).))))..)). ( -18.80)
>consensus
GUCUCUC__________CCCAACCCUCUUUGCACAAGCUCUCUUUAAAUGCAAAUCGAAGCCCGUGCCUCACACACGCACACACAAAGAGGGUGUGCUUGU
.....................((((((((((.....((...........))............((((.........))))...))))))))))........ (-15.64 = -16.20 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:34 2006