Locus 3546

Sequence ID 2R_DroMel_CAF1
Location 11,848,499 – 11,848,597
Length 98
Max. P 0.958762
window5773

overview

Window 3

Location 11,848,499 – 11,848,597
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.19
Mean single sequence MFE -39.50
Consensus MFE -17.70
Energy contribution -17.07
Covariance contribution -0.63
Combinations/Pair 1.24
Mean z-score -2.70
Structure conservation index 0.45
SVM decision value 1.49
SVM RNA-class probability 0.958762
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11848499 98 - 20766785
UCGCAACAUAGACAAACUGG----CGCUGGACUGUCUGGCGCCAGAGUUUGG------G---GUUGUGAUG----GUUCCAUUCGGGGAAAUGGUUCCUUUGUCUG-----AGGAAAGUG
(((((((.(((((...((((----(((..(.....)..))))))).))))).------.---)))))))..----.((((..(((((.(((.(....)))).))))-----))))).... ( -39.20)
>DroPse_CAF1 12451 117 - 1
---ACAGGUAGACAGGCUGGCAGCCGCUGGUCUGUCUGGCGCCUGCUUUGCGAAAUUCGCCUGUGGAGACGGGGAGUCUCCUCCGGAAGUGCCGUACACUUGUGUGGAUUCGGGAAAUUG
---((((((((((((((..((....))..))))))))..(((.......)))......))))))((((((.....))))))(((.(((...((((((....)))))).))).)))..... ( -51.70)
>DroSec_CAF1 10533 98 - 1
UCGAAACAUAGACAAACUGG----CGCUGGACUGUCUGGCGCCAGAGUUUGG------G---GUUGUGAUG----GUUUCAUUCGGGGAAAUGGUUCCUUUGUCUG-----GGGAAAGUG
......(.((((((((((((----(((..(.....)..))))))).....((------.---.(..(....----.(..(....)..)..)..)..))))))))))-----.)....... ( -33.40)
>DroSim_CAF1 11217 98 - 1
UCGAAACAUAGACAAACUGG----CGCUGGACUGUCUGGCGCCAGAGUUUGG------G---GUUGUGAUG----GUUCCAUUCGGGGAAAUGGUUCAUUUGUCUG-----GGGAAAGUG
(((.(((.(((((...((((----(((..(.....)..))))))).))))).------.---))).)))..----.((((...((((.(((((...))))).))))-----.)))).... ( -34.10)
>DroEre_CAF1 11179 92 - 1
UAGAAACAUAGACAAACUGG----CGCUGGACUGCCUGGCGCCAGAGUUUGG------G---GUUGUGAUG----GUUCCAUUCGGG------GCUCCUUUGUCUG-----CGGAGAGUG
......(.((((((((((((----(((..(.....)..))))))).....((------(---(((.(((((----....)).))).)------)))))))))))))-----.)....... ( -38.20)
>DroYak_CAF1 12277 92 - 1
UCGAAACAUAGACAAACUGG----CGCUGGACUGUCUGGCGCCAGAGUUUGG------G---GUUGCGAUG----GUUCCAUUCGGG------GCUCCUUUGUCUG-----CGGAAAGUG
......(.((((((((((((----(((..(.....)..))))))).....((------(---(((.(((((----....)).))).)------)))))))))))))-----.)....... ( -40.40)
>consensus
UCGAAACAUAGACAAACUGG____CGCUGGACUGUCUGGCGCCAGAGUUUGG______G___GUUGUGAUG____GUUCCAUUCGGGGAAAUGGUUCCUUUGUCUG_____GGGAAAGUG
........((((((((((((....(((..(.....)..)))))))...................((.(((.....))).)).................)))))))).............. (-17.70 = -17.07 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:08 2006