Locus 3369

Sequence ID 2L_DroMel_CAF1
Location 9,769,545 – 9,769,665
Length 120
Max. P 0.906561
window5334

overview

Window 4

Location 9,769,545 – 9,769,665
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.70
Mean single sequence MFE -40.97
Consensus MFE -30.33
Energy contribution -29.53
Covariance contribution -0.80
Combinations/Pair 1.40
Mean z-score -1.45
Structure conservation index 0.74
SVM decision value 1.05
SVM RNA-class probability 0.906561
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9769545 120 + 22407834
UACCAGGGACGCUCCAUCCUCGGUGUUAAGAUCACCAAGGGAGGUGAGACCAUAAACGGCAAGGCCAAGCCCGGCAUCUUCCUGGAGGCCGGUAUCCAUGCCCGCGAGUGGAUUGCUCCA
.....((..((.((((..(.(((.((...(((.(((..(((.((.....))......(((...)))...)))(((.(((....))).)))))))))...))))).)..)))).))..)). ( -41.40)
>DroVir_CAF1 69280 105 + 1
UAUCAGGGACGUUCAAUUUUGGGUGUCAAGAUCUCCAAGAG---------------CCUUAGCGAGAAGCCUGGCGUUUUCUUGGAGGCUGGAAUUCAUGCCCGCGAGUGGAUUGCCCCU
.....(((..(((((.((.(((((.((.((.((((((((((---------------((...((.....))..)))....))))))))))).))......))))).)).)))))..))).. ( -35.50)
>DroPse_CAF1 49574 105 + 1
UAUCAGGGACGCUCUAUUCUGGGCGUGAAGAUCACCAAG---------------AGCGGCAAGGAGAAGCCCGGCAUUUUCCUGGAGGCCGGCAUCCACGCUCGCGAGUGGAUCGCCCCC
.....(((.((.(((((((((((((((....((.....)---------------).((((.(((((((((...)).)))))))....)))).....)))))))).))))))).))))).. ( -42.90)
>DroGri_CAF1 71781 105 + 1
UAUCAGGGACGUUCAAUUCUGGGUGUGAAGAUCUCCAAGAG---------------CCAGAGCGAGAAGCCCGGCAUCUUCCUCGAGGCUGGCAUUCACGCCCGCGAGUGGAUUGGUCCA
......(((((((((.(((((((((((((..((.....))(---------------((((..(((((((........))).))))...))))).)))))))))).))))))))..)))). ( -42.20)
>DroAna_CAF1 58962 108 + 1
UACCAGGGACGCUCCAUUUUGGGCGUGAAGAUCAACAAG------------AACAAGGGCUCCAACAAGCCUGGUAUCUUUUUGGAGGCCGGUAUCCAUGCCCGCGAGUGGAUUGCUCCU
....(((..((.(((((((((((((((...(((......------------.....(((((......)))))(((.(((....))).))))))...)))))))).))))))).))..))) ( -40.90)
>DroPer_CAF1 49033 105 + 1
UAUCAGGGACGCUCUAUUCUGGGCGUGAAGAUCACCAAG---------------AGCGGCAAGGAGAAGCCCGGCAUUUUCCUGGAGGCCGGCAUCCACGCUCGCGAGUGGAUCGCCCCC
.....(((.((.(((((((((((((((....((.....)---------------).((((.(((((((((...)).)))))))....)))).....)))))))).))))))).))))).. ( -42.90)
>consensus
UAUCAGGGACGCUCAAUUCUGGGCGUGAAGAUCACCAAG_______________A_CGGCAACGAGAAGCCCGGCAUCUUCCUGGAGGCCGGCAUCCACGCCCGCGAGUGGAUUGCCCCA
.....(((.((.(((((((((((((((...............................((........))(((((.(((....))).)))))....)))))))).))))))).)).))). (-30.33 = -29.53 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:47 2006