Locus 5970

Sequence ID 3L_DroMel_CAF1
Location 15,981,872 – 15,982,023
Length 151
Max. P 0.546762
window9535 window9536

overview

Window 5

Location 15,981,872 – 15,981,983
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.69
Mean single sequence MFE -35.20
Consensus MFE -27.48
Energy contribution -27.48
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.78
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15981872 111 + 23771897
GCGGCUGAAAUUCUCAUUCUGGCCAGGUCCGAUGGCAUCGUGAUCAGAAGCAGUUU-AGCCACUGCCCGGGCUAAAAGCAGAACAACAGC--------AGAAGAGCAGACCAUCGGAACA
..((((..(((....)))..)))).(.(((((((((.............((..(((-((((........))))))).)).........((--------......)).).)))))))).). ( -33.20)
>DroSec_CAF1 11077 120 + 1
GCGGCUGAAAUUCUCAUUCUGGCCAGGUCCGAUGGCAUCGUGAUCAGAAGCAGUUUAAGCCACUGGCCGGGCUAAAAGCAGAACAACAGCAAAAGAGCAGAAGAGCAGACCAUCGGAACA
..(((((...((((....((((((((.((.(((.((...)).))).)).((.......))..))))))))(((....((.........)).....)))))))...))).))......... ( -32.00)
>DroSim_CAF1 11826 111 + 1
GCGGCUGAAAUUCUCAUUCUGGCCAGGUCCGAUGGCAUCGUGAUCAGAAGCAGUUU-AGCCACUGCCCGGGCUAAAAGCAGAACAACAGC--------AGAAAAGCAGACCAUCGGAACA
..((((..(((....)))..)))).(.(((((((((.............((..(((-((((........))))))).)).........((--------......)).).)))))))).). ( -33.20)
>DroEre_CAF1 11786 116 + 1
GCGGCUGAAAUUCUGAUUCUGGCCAGGUCCGAUGGCAUCGUGAUCAGAAGCAGUUU-AGCCCCUGCCAUGGCUAAAAGCAGAACAGC---AGAACAGCAGAACUGCAGACCAUCGGAACA
..((((..(((....)))..)))).(.(((((((((.((.......)).(((((((-.((..((((....((.....))......))---))....)).))))))).).)))))))).). ( -38.80)
>DroYak_CAF1 11315 116 + 1
GCGGCUGAAAUUCUGAUUCUGGCCAGGUCCGAUGGCAUCGUGAUCAGAAGCAGUUU-AGCCACUGCCAUGGCUAAAAGCAGAACAGC---AGAGCAGCAGAACUGCAGACCAUCGGAACA
..((((..(((....)))..)))).(.(((((((((.((.......)).(((((((-.((..((((....((.....))......))---))....)).))))))).).)))))))).). ( -38.80)
>consensus
GCGGCUGAAAUUCUCAUUCUGGCCAGGUCCGAUGGCAUCGUGAUCAGAAGCAGUUU_AGCCACUGCCCGGGCUAAAAGCAGAACAACAGCA_A__AGCAGAACAGCAGACCAUCGGAACA
..((((..(((....)))..)))).(.(((((((((...((........)).(((..((((........))))...)))............................).)))))))).). (-27.48 = -27.48 +   0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 15,981,912 – 15,982,023
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.86
Mean single sequence MFE -36.32
Consensus MFE -27.88
Energy contribution -28.04
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.50
Structure conservation index 0.77
SVM decision value 0.03
SVM RNA-class probability 0.546762
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15981912 111 - 23771897
CGAUUUGGGAAAACGGUUUCCUGGUAGUUGGCCAUUGUGAUGUUCCGAUGGUCUGCUCUUCU--------GCUGUUGUUCUGCUUUUAGCCCGGGCAGUGGCU-AAACUGCUUCUGAUCA
.((((.((((((....))))))(((((((((((((((.(.....))))))))).........--------((..((((((.((.....))..))))))..)).-.)))))))...)))). ( -35.80)
>DroSec_CAF1 11117 120 - 1
CGAUUUGGGAAAACGGUUUCCUGGUAGUUGGCCAUUGUGAUGUUCCGAUGGUCUGCUCUUCUGCUCUUUUGCUGUUGUUCUGCUUUUAGCCCGGCCAGUGGCUUAAACUGCUUCUGAUCA
.((((.((((((....))))))(((((((((((((((.(.....))))))))).((......))......((..(((..(.((.....))..)..)))..))...)))))))...)))). ( -33.60)
>DroSim_CAF1 11866 111 - 1
CGAUUUGGGAAAACGGUUUCCUGGUAGUUGGCCAUUGUGAUGUUCCGAUGGUCUGCUUUUCU--------GCUGUUGUUCUGCUUUUAGCCCGGGCAGUGGCU-AAACUGCUUCUGAUCA
.((((.((((((....))))))(((((((((((((((.(.....))))))))).........--------((..((((((.((.....))..))))))..)).-.)))))))...)))). ( -35.80)
>DroEre_CAF1 11826 116 - 1
CGAUUUGGGAAAACGGUUUCCUGGUAGUUGCCCAUUGUGAUGUUCCGAUGGUCUGCAGUUCUGCUGUUCU---GCUGUUCUGCUUUUAGCCAUGGCAGGGGCU-AAACUGCUUCUGAUCA
.((((.((((((....))))))(((((((((((.(((.......((.(((((..((((..(.((......---)).)..)))).....)))))))))))))).-.)))))))...)))). ( -35.01)
>DroYak_CAF1 11355 116 - 1
CGAUUUGGGAAAACGGUUUCCUGGUAGUUGGCCAUUGUGAUGUUCCGAUGGUCUGCAGUUCUGCUGCUCU---GCUGUUCUGCUUUUAGCCAUGGCAGUGGCU-AAACUGCUUCUGAUCA
.((((.((((((....))))))(((((((((((((((.(.....))))))))).((((..(.((......---)).)..))))...(((((((....))))))-))))))))...)))). ( -41.40)
>consensus
CGAUUUGGGAAAACGGUUUCCUGGUAGUUGGCCAUUGUGAUGUUCCGAUGGUCUGCUCUUCUGCU__U_UGCUGUUGUUCUGCUUUUAGCCCGGGCAGUGGCU_AAACUGCUUCUGAUCA
.((((.((((((....))))))(((((((((((((((.(.....)))))))))....................(((...(((((.........))))).)))...)))))))...)))). (-27.88 = -28.04 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:28 2006