Locus 7245

Sequence ID 2L_DroMel_CAF1
Location 20,278,566 – 20,278,686
Length 120
Max. P 0.842082
window11600 window11601

overview

Window 0

Location 20,278,566 – 20,278,686
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.73
Mean single sequence MFE -37.19
Consensus MFE -28.65
Energy contribution -30.45
Covariance contribution 1.80
Combinations/Pair 1.07
Mean z-score -1.93
Structure conservation index 0.77
SVM decision value 0.75
SVM RNA-class probability 0.842082
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20278566 120 + 22407834
AGCACCAGCCCGGCCCAGAACAACAGUGGCAGUAAAAAAUGAAGUGUUGCCUGCCUUUGGGCUAACCCAUUUUGGGUGUUGGUGCAGAAAUCCCGGGUCAUAUUUACAUGAAAGACAAUU
.((((((((..((((((((((....))((((((((...........))).))))))))))))).((((.....))))))))))))........(...((((......))))..)...... ( -38.30)
>DroSec_CAF1 29400 119 + 1
AGCACCAGCCG-GCCCAGAACAACAGUGGCAGUAAAAAAUGAAGUGUGGCCUGCCUUUGGGCUAACCCAUUUUGGGUGUUGGUGCAGAAAUCCCGGGUCAUAUUUACAUGAAAGACAAUU
.((((((((.(-(((((((((....))(((((..................))))))))))))).((((.....))))))))))))........(...((((......))))..)...... ( -37.87)
>DroSim_CAF1 28261 120 + 1
AGCACCAGCCGGGCCCAGAACAACAGUGGCAGUAAAAAAUGAAGUGUUGCCUGCCUGUGGGCUAACCCAUUUUGGGUGUUGGUGCAGAAAUCCCGGGUCAUAUUUACAUGAAAGACAAUU
.((((((((..((((((.(((....))((((((((...........))).)))))).)))))).((((.....))))))))))))........(...((((......))))..)...... ( -36.90)
>DroEre_CAF1 14505 119 + 1
AGCACCAUCCC-GCCCAGAACAACAGUGGCAGUUAAAAAUGUAGUGCUGCCUGCCUUUGGGCUAACCCAUUCUGGGCGUUGGUGCAGAAGUCCCGGCUCAUAUUUACAUGAAAGACAAUU
.((((((...(-((((((((.......((((((............))))))......((((....))))))))))))).))))))....(((.....((((......))))..))).... ( -43.70)
>DroYak_CAF1 9827 109 + 1
----------G-GCCCAGAACAACAGUGGCAGUAAAAAAUGUAGAGUUGCCUGCCUUUGGGCUAACACAUCCUGGGUGUUGGUGCGGAAAUCCCGGGUCAUAUUUACAUGAAAGACAAUU
----------(-((((...........((((((((...........))).)))))((((.((((((((.......)))))))).))))......)))))..................... ( -29.20)
>consensus
AGCACCAGCCG_GCCCAGAACAACAGUGGCAGUAAAAAAUGAAGUGUUGCCUGCCUUUGGGCUAACCCAUUUUGGGUGUUGGUGCAGAAAUCCCGGGUCAUAUUUACAUGAAAGACAAUU
.((((((((...((((((((.......(((((..................)))))..((((....))))))))))))))))))))............((((......))))......... (-28.65 = -30.45 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,278,566 – 20,278,686
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.73
Mean single sequence MFE -35.09
Consensus MFE -28.23
Energy contribution -29.31
Covariance contribution 1.08
Combinations/Pair 1.06
Mean z-score -1.67
Structure conservation index 0.80
SVM decision value 0.65
SVM RNA-class probability 0.813092
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20278566 120 - 22407834
AAUUGUCUUUCAUGUAAAUAUGACCCGGGAUUUCUGCACCAACACCCAAAAUGGGUUAGCCCAAAGGCAGGCAACACUUCAUUUUUUACUGCCACUGUUGUUCUGGGCCGGGCUGGUGCU
....((((((((((....)))))...)))))....(((((...((((.....)))).(((((...(((((..................))))).((........))...)))))))))). ( -34.47)
>DroSec_CAF1 29400 119 - 1
AAUUGUCUUUCAUGUAAAUAUGACCCGGGAUUUCUGCACCAACACCCAAAAUGGGUUAGCCCAAAGGCAGGCCACACUUCAUUUUUUACUGCCACUGUUGUUCUGGGC-CGGCUGGUGCU
....((((((((((....)))))...)))))....((((((.(((((.....))))..(((((..(((((..................)))))((....))..)))))-..).)))))). ( -33.97)
>DroSim_CAF1 28261 120 - 1
AAUUGUCUUUCAUGUAAAUAUGACCCGGGAUUUCUGCACCAACACCCAAAAUGGGUUAGCCCACAGGCAGGCAACACUUCAUUUUUUACUGCCACUGUUGUUCUGGGCCCGGCUGGUGCU
....((((((((((....)))))...)))))....((((((.(((((.....))))..(((((..(((((..................)))))((....))..)))))...).)))))). ( -33.67)
>DroEre_CAF1 14505 119 - 1
AAUUGUCUUUCAUGUAAAUAUGAGCCGGGACUUCUGCACCAACGCCCAGAAUGGGUUAGCCCAAAGGCAGGCAGCACUACAUUUUUAACUGCCACUGUUGUUCUGGGC-GGGAUGGUGCU
....((((((((((....))))))...))))....((((((.(((((((((((((....)))...(((((..................)))))......)))))))))-)...)))))). ( -47.67)
>DroYak_CAF1 9827 109 - 1
AAUUGUCUUUCAUGUAAAUAUGACCCGGGAUUUCCGCACCAACACCCAGGAUGUGUUAGCCCAAAGGCAGGCAACUCUACAUUUUUUACUGCCACUGUUGUUCUGGGC-C----------
.........(((((....)))))((((((.((..((((((........)).))))..)))))...(((((..................)))))...........))).-.---------- ( -25.67)
>consensus
AAUUGUCUUUCAUGUAAAUAUGACCCGGGAUUUCUGCACCAACACCCAAAAUGGGUUAGCCCAAAGGCAGGCAACACUUCAUUUUUUACUGCCACUGUUGUUCUGGGC_CGGCUGGUGCU
....((((((((((....)))))...)))))....((((((..((((.....))))..(((((..(((((..................)))))((....))..))))).....)))))). (-28.23 = -29.31 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:28 2006