Locus 209

Sequence ID 2R_DroMel_CAF1
Location 1,505,176 – 1,505,294
Length 118
Max. P 0.644523
window474

overview

Window 4

Location 1,505,176 – 1,505,294
Length 118
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 81.93
Mean single sequence MFE -37.43
Consensus MFE -28.19
Energy contribution -28.83
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -1.49
Structure conservation index 0.75
SVM decision value 0.23
SVM RNA-class probability 0.644523
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1505176 118 + 20766785
GGAACCAUCAUGACGGCCAUGCCCGUGGUGUGGUGCACCGAUCCCAACUCGGUGAACAAUAAGCCCACAGCCUUCGCCUUGCACGGAAUUCAGCUGCAAGGAAAUGUAACCAAGAAAC
((.((((.(((.((((......)))).))))))).((((((.......))))))..........))(((.......((((((((........).)))))))...)))........... ( -34.20)
>DroVir_CAF1 55115 113 + 1
-----CAGGAUGACCACCAUGCCGGUGGUGUGGUGCACCGAUCCAAAUUCGGUGAACAACAAACCAACUGCGUUUGCCCUGCACGGCAUACAGCUGCAGGGCAAUGUGACCGAGAAGC
-----..((...((((((.....))))))((.((.((((((.......)))))).)).))...))....(((((.((((((((..((.....)))))))))))))))........... ( -43.90)
>DroGri_CAF1 68333 113 + 1
-----CAAGAUGACCACCAUGCCAGUGGUUUGGUGCACCGAUCCCAACUCGGUGAACAACAAACCCACAGCCUUUGCCCUGCACGGCAUACAGCUGCAGGGUAAUGUGACAGAGAAGC
-----.........(((((.(((...))).)))))((((((.......))))))...........((((....((((((((((..((.....)))))))))))))))).......... ( -36.80)
>DroWil_CAF1 99396 115 + 1
GGA---AAAAUGACUGCCAUACCCGUGGUAUGGUGUACCGAUCCCAAUUCGGUUAAUAAUAAGCCCACAGCAUUUGCUCUCCAUGGCAUUCAGUUGCAGGGGAAUGUGACCAAAAAGC
((.---.........((((((((...))))))))..(((((.......)))))............((((((....))(((((...(((......))).))))).)))).))....... ( -31.50)
>DroMoj_CAF1 57596 113 + 1
-----CAAGAUGACCACCAUGCCCGUGGUCUGGUGCACCGAUCCCAAUUCGGUGAACAACAAGCCAACGGCCUUUGCUCUGCAUGGCAUACAGCUGCAGGGCAAUGUGACCGAGAAGC
-----......((((((.......))))))((((.((((((.......))))))........)))).(((((.((((((((((..((.....)))))))))))).).).)))...... ( -41.40)
>DroAna_CAF1 75305 118 + 1
CGAUCCAUCAUGACAGCCAUGCCCGUCGUGUGGUGCACCGACCCCAACUCGGUGAACAACAAGCCCACAGCCUUCGCCCUUCACGGCAUCCAGUUGCAGGGCAAUGUCACGGAGAAGC
...(((....(((((....(((((..((((.((((((((((.......))))))........((.....))...))))...))))(((......))).))))).))))).)))..... ( -36.80)
>consensus
_____CAAGAUGACCACCAUGCCCGUGGUGUGGUGCACCGAUCCCAACUCGGUGAACAACAAGCCCACAGCCUUUGCCCUGCACGGCAUACAGCUGCAGGGCAAUGUGACCGAGAAGC
..............((((((((.....))))))))((((((.......))))))...................((((((((((..((.....)))))))))))).............. (-28.19 = -28.83 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:30 2006