Locus 5408

Sequence ID 3L_DroMel_CAF1
Location 14,822,566 – 14,822,682
Length 116
Max. P 0.998196
window8559 window8560

overview

Window 9

Location 14,822,566 – 14,822,682
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.22
Mean single sequence MFE -35.32
Consensus MFE -28.82
Energy contribution -30.22
Covariance contribution 1.40
Combinations/Pair 1.06
Mean z-score -3.14
Structure conservation index 0.82
SVM decision value 3.03
SVM RNA-class probability 0.998196
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14822566 116 + 23771897
UUUCUGAGCUUACUGACUUAGCCAACUUGUAGCUGUUGGCCUGGUAAGCACUUCAGUUAACCCAAACACCCGUCACAACCACACAU----ACAUAUGUGUGUUCGUGGCUCGUUUGCUGC
...((((((((((((.....((((((........)))))).))))))))...))))......(((((....(((((...(((((((----....)))))))...)))))..))))).... ( -35.70)
>DroSec_CAF1 57357 116 + 1
UUUCUGAGCUUACUGACUUAGCCAACUUGUAGCUGUUGGCCUGGUAAGCACUUCAGUUAACCCAAACACCCGUCACACCCACACAU----ACAUAUGUGUGUUCGUGGCUCGUUUGAUGC
...((((((((((((.....((((((........)))))).))))))))...))))......(((((....(((((...(((((((----....)))))))...)))))..))))).... ( -36.40)
>DroSim_CAF1 50557 116 + 1
UUUCUGAGCUUACUGACUUAGCCAACUUGUAGCUGUUGGCCUGGUAAGCACUUCAGUUAACCCAAACACCCGUCACACCCACACAU----ACAUAUGUGUGUUCGUGGCUCGUUUGCUGC
...((((((((((((.....((((((........)))))).))))))))...))))......(((((....(((((...(((((((----....)))))))...)))))..))))).... ( -35.70)
>DroYak_CAF1 60656 120 + 1
UUUCUGAGCUUACCGACUUAGCCAACUUGUAGCUGUUGCCCUGGUAAGCACUUCAGUUAACCCAAACACCCGUCACACCCACACAUAUGUACAUAUGUGUGCUCGUGGCUCGUUUGGUGC
...((((((((((((.....((.(((........)))))..))))))))...)))).....((((((....(((((...(((((((((....)))))))))...)))))..))))))... ( -38.40)
>DroAna_CAF1 54762 97 + 1
------AGCUUACCGUCUUAGCCAACUUGUAGCUGUUGGCCUGGUAAGCACUUUAGUUAUCCCAAACACUCGCC-----CAC------------AUAUGCGUUUGUGGCUUGUUUUUUGG
------.((((((((.....((((((........)))))).))))))))............(((((.((..(((-----.((------------(........))))))..))..))))) ( -30.40)
>consensus
UUUCUGAGCUUACUGACUUAGCCAACUUGUAGCUGUUGGCCUGGUAAGCACUUCAGUUAACCCAAACACCCGUCACACCCACACAU____ACAUAUGUGUGUUCGUGGCUCGUUUGCUGC
.......((((((((.....((((((........)))))).)))))))).............(((((....(((((...(((((((........)))))))...)))))..))))).... (-28.82 = -30.22 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,822,566 – 14,822,682
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.22
Mean single sequence MFE -39.80
Consensus MFE -29.60
Energy contribution -30.92
Covariance contribution 1.32
Combinations/Pair 1.09
Mean z-score -3.34
Structure conservation index 0.74
SVM decision value 2.45
SVM RNA-class probability 0.994091
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14822566 116 - 23771897
GCAGCAAACGAGCCACGAACACACAUAUGU----AUGUGUGGUUGUGACGGGUGUUUGGGUUAACUGAAGUGCUUACCAGGCCAACAGCUACAAGUUGGCUAAGUCAGUAAGCUCAGAAA
....((((((.(.(((((.(((((((....----))))))).))))).)...))))))......((((..((((.((..(((((((........)))))))..)).))))...))))... ( -39.70)
>DroSec_CAF1 57357 116 - 1
GCAUCAAACGAGCCACGAACACACAUAUGU----AUGUGUGGGUGUGACGGGUGUUUGGGUUAACUGAAGUGCUUACCAGGCCAACAGCUACAAGUUGGCUAAGUCAGUAAGCUCAGAAA
...(((((((.(.((((..(((((((....----)))))))..)))).)...))))))).....((((..((((.((..(((((((........)))))))..)).))))...))))... ( -41.20)
>DroSim_CAF1 50557 116 - 1
GCAGCAAACGAGCCACGAACACACAUAUGU----AUGUGUGGGUGUGACGGGUGUUUGGGUUAACUGAAGUGCUUACCAGGCCAACAGCUACAAGUUGGCUAAGUCAGUAAGCUCAGAAA
....((((((.(.((((..(((((((....----)))))))..)))).)...))))))......((((..((((.((..(((((((........)))))))..)).))))...))))... ( -40.60)
>DroYak_CAF1 60656 120 - 1
GCACCAAACGAGCCACGAGCACACAUAUGUACAUAUGUGUGGGUGUGACGGGUGUUUGGGUUAACUGAAGUGCUUACCAGGGCAACAGCUACAAGUUGGCUAAGUCGGUAAGCUCAGAAA
...(((((((.(.((((..(((((((((....)))))))))..)))).)...))))))).....((((...(((((((..(....)(((((.....))))).....)))))))))))... ( -45.80)
>DroAna_CAF1 54762 97 - 1
CCAAAAAACAAGCCACAAACGCAUAU------------GUG-----GGCGAGUGUUUGGGAUAACUAAAGUGCUUACCAGGCCAACAGCUACAAGUUGGCUAAGACGGUAAGCU------
((...(((((.((((((........)------------)).-----)))...))))).))...........(((((((.(((((((........))))))).....))))))).------ ( -31.70)
>consensus
GCAGCAAACGAGCCACGAACACACAUAUGU____AUGUGUGGGUGUGACGGGUGUUUGGGUUAACUGAAGUGCUUACCAGGCCAACAGCUACAAGUUGGCUAAGUCAGUAAGCUCAGAAA
.........((((((((..(((((((........)))))))..))))(((((..(((.((....)).)))..)))....(((((((........)))))))......))..))))..... (-29.60 = -30.92 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:39 2006