Locus 3005

Sequence ID 3L_DroMel_CAF1
Location 8,651,564 – 8,651,684
Length 120
Max. P 0.514471
window4689

overview

Window 9

Location 8,651,564 – 8,651,684
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.94
Mean single sequence MFE -39.20
Consensus MFE -32.28
Energy contribution -32.83
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.83
Structure conservation index 0.82
SVM decision value -0.04
SVM RNA-class probability 0.514471
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8651564 120 + 23771897
CCAAAUUGGAAAAGGCCGACAUUCUGGAGAAGACAGUAAAGCAUCUGCAGGAGCUGCAGCGCCAGCAGGCAGCCAUGCAGCAGGCCGCCGAUCCCAAGAUUGUGAACAAAUUCAAGGCCG
((.....))....((((....(((((.(((.(.(......)).))).)))))(((((((((((....))).))..)))))).))))(((((((....)))).((((....)))).))).. ( -40.00)
>DroPse_CAF1 42026 120 + 1
CCAAAUUGGAAAAGGCCGAUAUCCUGGAGAAGACAGUGAAGCAUCUGCAGGAGCUGCAGCGGCAGCAGGCAGCCAUGCAGCAGGCCGCCGAUCCCAAGAUAAUCAACAAAUUCAAGGCCG
....(((((....((((....(((((.(((.(.(......)).))).)))))((((((..(((........))).)))))).)))).)))))............................ ( -40.00)
>DroSim_CAF1 39843 120 + 1
CCAAAUUGGAAAAAGCCGACAUUCUCGAGAAGACAGUGAAGCAUCUGCAGGAGCUGCAGCGCCAACAGGCAGCUAUGCAGCAGGCCGCCGAUCCCAAGAUUGUGAACAAAUUCAAGGCCG
((...((((......))))((((.((.....)).))))..((....)).)).(((((((((((....))).))..)))))).((((..(((((....)))))((((....)))).)))). ( -36.40)
>DroEre_CAF1 40933 120 + 1
CCAAAUUGGAAAAGGCCGACAUUCUGGAGAAGACAGUGAAGCAUCUGCAGGAGCUGCAGCGCCAGCAGGCAGCCAUGCAGCAGGCCGCCGAUCCCAAGAUCGUGAACAAAUUCAAGGCCG
((.....))....((((....(((((.(((.(.(......)).))).)))))(((((((((((....))).))..)))))).))))(((((((....)))).((((....)))).))).. ( -42.60)
>DroAna_CAF1 37563 120 + 1
CGAAAUUGGAAAAGGCCGACAUCCUGGAGAAGACAGUGAAGCAUCUGCAGGAACUGCAGCGUCAGCAGGCUGCCAUGCAACAGGCUGCCGAUCCCAAGAUUGUCAACAAAUUCAAGGCCG
.............(((((((.(((((.......))).)).....((((((...)))))).))).((((.(((........))).))))(((((....))))).............)))). ( -35.50)
>DroPer_CAF1 42655 120 + 1
CGAAAUUGGAAAAGGCCGAUAUCCUGGAGAAGACAGUGAAGCAUCUGCAGGAGCUGCAGCGGCAGCAGGCAGCCAUGCAGCAGGCCGCCGAUCCCAAGAUAAUCAACAAAUUCAAGGCCG
.(..(((((....((((....(((((.(((.(.(......)).))).)))))((((((..(((........))).)))))).)))).)))))..)......................... ( -40.70)
>consensus
CCAAAUUGGAAAAGGCCGACAUCCUGGAGAAGACAGUGAAGCAUCUGCAGGAGCUGCAGCGCCAGCAGGCAGCCAUGCAGCAGGCCGCCGAUCCCAAGAUUGUCAACAAAUUCAAGGCCG
....(((((....((((....(((((.(((.(.(......)).))).)))))(((((((((((....))).))..)))))).)))).)))))............................ (-32.28 = -32.83 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:12 2006