Locus 2046

Sequence ID 2L_DroMel_CAF1
Location 5,533,642 – 5,533,760
Length 118
Max. P 0.832082
window3293 window3294

overview

Window 3

Location 5,533,642 – 5,533,760
Length 118
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.49
Mean single sequence MFE -32.68
Consensus MFE -19.17
Energy contribution -17.87
Covariance contribution -1.30
Combinations/Pair 1.41
Mean z-score -1.70
Structure conservation index 0.59
SVM decision value 0.46
SVM RNA-class probability 0.746144
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5533642 118 + 22407834
UUAUGCCCUGGCGAAUCAUCAGCACCCUGCUGAUGACUCAACCAAGAGCUUAUCUUCAAGAGAGAUUCGCUGUUUUACUGGAACGGGAAACCAUAGUAACGUAGGUUAUAUCAUUGCU
....((....))((.((((((((.....)))))))).))((((((.(((..(((((.....)))))..))).))((((((....((....)).))))))....))))........... ( -36.00)
>DroSim_CAF1 7670 118 + 1
UUAUGCCCUGGCGAAUCAUCAGCACCCUGCUGAUGACGCAACCAAGAGCUUAUCUUCAAGAGAGAUUCGCUGUUUUACUGGAACGGGAGUCCAUAGUAACGUAGGUUAUAGCAUUGCU
..((((....(((..((((((((.....)))))))))))((((((.(((..(((((.....)))))..))).))((((((((.(....))))..)))))....))))...)))).... ( -35.60)
>DroEre_CAF1 7722 118 + 1
UUAUGCCCUGGCGAAUCAUCAGCACCCUGCUGAUGACACAACCAAGAGCUUAUCUUCAAGAGAGGUUCGCUGUUUUACUGGAGCGGGAAUCCAUAGUAACGUAAGUUAUGCCACUGCU
....((..((((...((((((((.....)))))))).....((..((((((.((.....)).))))))(((.(......).))))).........(((((....)))))))))..)). ( -38.00)
>DroWil_CAF1 7795 114 + 1
UUAUGCCUUGGCGAAUUGUUGGCACAUUGUUAAUGACCCAACCGCGGGCAUAUCUUCAAGAACGUUUUGCCAUGCUACUGGAUAAAGAACCAAUAGUCACGUAAGCU----CACUUGU
.(((((((..(((....(((((..(((.....)))..)))))))))))))))....((((...((((.((...((((.(((........))).))))...)))))).----..)))). ( -27.00)
>DroYak_CAF1 7740 111 + 1
UUAUGCCCUGGCGAAUCAUCAGCACCCUGCUGAUGACACAACCAAGAGCCUAUCUCCAGGAGAGGUUCGCUGUCCUACUGGAAAGGGAAUCCAUAGUGACGUAAGUUAA-------CC
((((((((((((...((((((((.....)))))))).........((((((.((.....)).))))))))).(((....))).))))....)))))((((....)))).-------.. ( -37.50)
>DroAna_CAF1 7420 111 + 1
UUAUGCCUUGGCGAAUCAUUAGUACUCUUUUAAUGACACAACCCAGAGCCUAUCUACAGGAAAGAUUUUCCAUCCUCAUGGAAAGCGAGUCCAUAGUUACGUAAGUUUA-------CG
....((.((((....(((((((.......)))))))......)))).)).........(((..(.((((((((....)))))))))...)))...((.((....))..)-------). ( -22.00)
>consensus
UUAUGCCCUGGCGAAUCAUCAGCACCCUGCUGAUGACACAACCAAGAGCUUAUCUUCAAGAGAGAUUCGCUGUUCUACUGGAAAGGGAAUCCAUAGUAACGUAAGUUAU__CA_UGCU
(((((...(((((((((((((((.....))))))..............(((......)))...)))))))))......((((.......))))......))))).............. (-19.17 = -17.87 +  -1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,533,642 – 5,533,760
Length 118
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.49
Mean single sequence MFE -33.88
Consensus MFE -22.34
Energy contribution -23.07
Covariance contribution 0.73
Combinations/Pair 1.25
Mean z-score -1.56
Structure conservation index 0.66
SVM decision value 0.72
SVM RNA-class probability 0.832082
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5533642 118 - 22407834
AGCAAUGAUAUAACCUACGUUACUAUGGUUUCCCGUUCCAGUAAAACAGCGAAUCUCUCUUGAAGAUAAGCUCUUGGUUGAGUCAUCAGCAGGGUGCUGAUGAUUCGCCAGGGCAUAA
.((................(((((((((....))))...)))))...(((..(((((....).))))..)))((((((.(((((((((((.....))))))))))))))))))).... ( -37.10)
>DroSim_CAF1 7670 118 - 1
AGCAAUGCUAUAACCUACGUUACUAUGGACUCCCGUUCCAGUAAAACAGCGAAUCUCUCUUGAAGAUAAGCUCUUGGUUGCGUCAUCAGCAGGGUGCUGAUGAUUCGCCAGGGCAUAA
....((((...........(((((((((....))))...)))))...(((..(((((....).))))..)))((((((.(.(((((((((.....))))))))).))))))))))).. ( -34.80)
>DroEre_CAF1 7722 118 - 1
AGCAGUGGCAUAACUUACGUUACUAUGGAUUCCCGCUCCAGUAAAACAGCGAACCUCUCUUGAAGAUAAGCUCUUGGUUGUGUCAUCAGCAGGGUGCUGAUGAUUCGCCAGGGCAUAA
.((((((((.........)))))).((((.......))))........))...................((.((((((...(((((((((.....)))))))))..)))))))).... ( -34.90)
>DroWil_CAF1 7795 114 - 1
ACAAGUG----AGCUUACGUGACUAUUGGUUCUUUAUCCAGUAGCAUGGCAAAACGUUCUUGAAGAUAUGCCCGCGGUUGGGUCAUUAACAAUGUGCCAACAAUUCGCCAAGGCAUAA
.((((..----......((((.(((((((........)))))))))))..........))))....((((((.((((((((..(((.....)))..)))))....)))...)))))). ( -32.17)
>DroYak_CAF1 7740 111 - 1
GG-------UUAACUUACGUCACUAUGGAUUCCCUUUCCAGUAGGACAGCGAACCUCUCCUGGAGAUAGGCUCUUGGUUGUGUCAUCAGCAGGGUGCUGAUGAUUCGCCAGGGCAUAA
((-------((..((...(((.(((((((.......)))).))))))))..))))((((...))))...((.((((((...(((((((((.....)))))))))..)))))))).... ( -39.80)
>DroAna_CAF1 7420 111 - 1
CG-------UAAACUUACGUAACUAUGGACUCGCUUUCCAUGAGGAUGGAAAAUCUUUCCUGUAGAUAGGCUCUGGGUUGUGUCAUUAAAAGAGUACUAAUGAUUCGCCAAGGCAUAA
((-------((....))))...(((((((.....(((((((....))))))).....))).))))....((.((.(((...(((((((.........)))))))..))).)))).... ( -24.50)
>consensus
AGCA_UG__AUAACUUACGUUACUAUGGAUUCCCGUUCCAGUAAAACAGCGAAUCUCUCUUGAAGAUAAGCUCUUGGUUGUGUCAUCAGCAGGGUGCUGAUGAUUCGCCAGGGCAUAA
..................(((....((((.......))))....)))......................((.((((((...(((((((((.....)))))))))..)))))))).... (-22.34 = -23.07 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:58 2006