Locus 8099

Sequence ID 3L_DroMel_CAF1
Location 21,315,248 – 21,315,392
Length 144
Max. P 0.853498
window13238 window13239

overview

Window 8

Location 21,315,248 – 21,315,355
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.85
Mean single sequence MFE -34.73
Consensus MFE -26.92
Energy contribution -26.73
Covariance contribution -0.19
Combinations/Pair 1.31
Mean z-score -2.84
Structure conservation index 0.78
SVM decision value 0.80
SVM RNA-class probability 0.853498
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21315248 107 + 23771897
UUUAUAA---AUACAGCCGGCAGCGGCAGACAGAUGGCGUCAUUCGUUUGCAUUGAAUGUGGUCAGGAAUUU-UAGUA---------UUUUUUCCUCAGACCAUUUGCAGGUUGACUGAG
.......---...(((((.((((..((((((..(((....)))..)))))).......(((((((((((...-.....---------....)))))..)))))))))).)))))...... ( -32.90)
>DroSec_CAF1 18361 107 + 1
UUUAUAA---AUACAGCCGGCAGCGGCAGACAGAUGGCGUCAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU-UAGUA---------UUCUUUCCUCAGACCAUUUGCAGGUUGACUGAG
.......---...(((((.((((..(((((((((((....))))))))))).......(((((((((((...-.....---------....)))))..)))))))))).)))))...... ( -36.50)
>DroSim_CAF1 18432 107 + 1
UUUAUAA---AUACAGCCGGCAGCGGCAGACAGAUGGCGUCAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU-UAGUA---------UUCUUUCCUCAGACCAUUUGCAGGUUGACUGAG
.......---...(((((.((((..(((((((((((....))))))))))).......(((((((((((...-.....---------....)))))..)))))))))).)))))...... ( -36.50)
>DroEre_CAF1 20365 106 + 1
UUUAUAA---AUACGGUCGGCAGAGGCAGACAGAUGGCGUCAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU--AGUA---------UUCUUUUUUCCGACCAUUUGCAGGUUGACUGAG
.......---...((((((((....(((((((((((....))))))))))).(((...((((((.((((...--((..---------..))...))))))))))...))))))))))).. ( -40.30)
>DroYak_CAF1 44583 106 + 1
UUUAUAA---AUACGGUCGCCAGCGGCAGACAGAUGGCGUCAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU-CAGUA---------UUCUUU-UUCCGACCAUUUGCAGGUUGACUGAG
.......---...((((((((.((((((((((((((....))))))))))).......((((((.((((...-.((..---------..))..-)))))))))).))).)).)))))).. ( -37.50)
>DroPer_CAF1 34381 118 + 1
UUUAUAAAAAAUAUGGCCAGCAGACGUUG-UGGAUUGCGUCAUUUGUUUGCAUUGAAUGUGGUCAAGAUAUUCUGAUGCUUUUCUGUUGCUUUCUUUGGACCAUUUUU-CGUUGACUAAG
........(((.((((((((.(((.((.(-..((..((((((((((.(..(((...)))..).))))......))))))...))..).))..))))))).)))).)))-........... ( -24.70)
>consensus
UUUAUAA___AUACAGCCGGCAGCGGCAGACAGAUGGCGUCAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU_UAGUA_________UUCUUUCCUCAGACCAUUUGCAGGUUGACUGAG
.............(((.((((....(((((((((((....))))))))))).(((...(((((((((((......................)))))..))))))...))))))).))).. (-26.92 = -26.73 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 21,315,285 – 21,315,392
Length 107
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 83.39
Mean single sequence MFE -27.79
Consensus MFE -18.82
Energy contribution -19.43
Covariance contribution 0.62
Combinations/Pair 1.21
Mean z-score -1.92
Structure conservation index 0.68
SVM decision value 0.05
SVM RNA-class probability 0.558407
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21315285 107 + 23771897
CAUUCGUUUGCAUUGAAUGUGGUCAGGAAUUU-UAGUA---------UUUUUUCCUCAGACCAUUUGCAGGUUGACUGAGCCGCAG--AAGUAAACAGAAAAUCUGCUGGCAACACUUU
.....(((.((.(((...(((((((((((...-.....---------....)))))..))))))...))))).)))...(((((((--(.............))))).)))........ ( -27.82)
>DroSec_CAF1 18398 107 + 1
CAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU-UAGUA---------UUCUUUCCUCAGACCAUUUGCAGGUUGACUGAGCCGCAG--AAGUAAACAGAAAAUCUGCUGGCAACAAUUU
..(((((((((........((((((((((...-.....---------....)))))..)))))(((((.((((.....))))))))--).)))))))))........((....)).... ( -29.40)
>DroSim_CAF1 18469 107 + 1
CAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU-UAGUA---------UUCUUUCCUCAGACCAUUUGCAGGUUGACUGAGCCGCAG--AAGUAAACAGAAAAUCUGCUGGCAACAAAUU
..(((((((((........((((((((((...-.....---------....)))))..)))))(((((.((((.....))))))))--).)))))))))........((....)).... ( -29.40)
>DroEre_CAF1 20402 94 + 1
CAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU--AGUA---------UUCUUUUUUCCGACCAUUUGCAGGUUGACUGAGCCGCAG--AAGUAAACA------------GCAACACUUU
...((((((((........(((((.((((...--((..---------..))...)))))))))(((((.((((.....))))))))--).)))))))------------)......... ( -27.30)
>DroYak_CAF1 44620 106 + 1
CAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU-CAGUA---------UUCUUU-UUCCGACCAUUUGCAGGUUGACUGAGCUGCAG--AAGUAAACAGAAAAUCUGCUAGCAACACUUU
..(((((((((........(((((.((((...-.((..---------..))..-)))))))))(((((((.((....)).))))))--).))))))))).................... ( -28.80)
>DroPer_CAF1 34420 115 + 1
CAUUUGUUUGCAUUGAAUGUGGUCAAGAUAUUCUGAUGCUUUUCUGUUGCUUUCUUUGGACCAUUUUU-CGUUGACUAAGCCGCAAAAAAGUAAACA---AUUCUGCUGGCAACAUUUU
...((((..(((..((((((.......))))))...(((((((.(((.((((((..((((......))-))..))..)))).))).)))))))....---....)))..))))...... ( -24.00)
>consensus
CAUUUGUUUGCAUUGAAUGUGGUCAGGAAUUU_UAGUA_________UUCUUUCCUCAGACCAUUUGCAGGUUGACUGAGCCGCAG__AAGUAAACAGAAAAUCUGCUGGCAACACUUU
..(((((((((.......(((((((((((......................)))))..))))))((((.((((.....))))))))....))))))))).................... (-18.82 = -19.43 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:17 2006