Locus 7117

Sequence ID 3R_DroMel_CAF1
Location 18,754,724 – 18,754,824
Length 100
Max. P 0.948646
window11515 window11516

overview

Window 5

Location 18,754,724 – 18,754,824
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.54
Mean single sequence MFE -19.76
Consensus MFE -3.06
Energy contribution -2.94
Covariance contribution -0.12
Combinations/Pair 1.14
Mean z-score -1.92
Structure conservation index 0.15
SVM decision value 1.05
SVM RNA-class probability 0.906750
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18754724 100 + 27905053
AAGUUUAUGUUUGAAUACAACAUAUUAGAAAAGUACAAUAUUUGUG-GAAAAAUACAGUGACCCACUUAAUCGAAAAUG--UUG----------------UGUACAAAAACAU-GAAAUG
...(((((((((..(((((((((.((.((.((((.......(((((-......)))))......))))..)).)).)))--)))----------------)))....))))))-)))... ( -19.82)
>DroSec_CAF1 13395 117 + 1
AAGUUUAUGUUUGAAUACAACAUAUUAGAAAAGUACAAUAUUUGUGGGAAAAAUACAGUGACCCACUAAAACGAAAAUA--UUGCUUUUCAUACACGAUAUGUACGAAAACAU-GAAAUG
...(((((((((.......(((((((.((((((..(((((((((((((.............)))))........)))))--)))))))))......)))))))....))))))-)))... ( -22.92)
>DroSim_CAF1 13510 117 + 1
AAGUUUAUGUUUGAAUACAACAUAUUAGAAAAGUACAAUAUUUGUGGGAAAAAUACAGUGACCCACUAAAACGAAAAUA--UUGCUUUUCAUACACGAUGUGUACGAAAACAU-GAAAUG
...(((((((((...((((.(((..((((((((..(((((((((((((.............)))))........)))))--))))))))).))....)))))))...))))))-)))... ( -24.82)
>DroEre_CAF1 13400 102 + 1
AAGUUUAUGUUUGAAUAAAACAUAUUGGCAAAGUACAAUAUUG--G-GGAAAAUACAGUGACCCAUAGCAACGAAAAUCCGCAGUUUG--------------UGCAG-CACAUCAAAAUA
..((((((((((.....)))))))..)))...((((((.((((--.-(((........((........)).......))).)))))))--------------)))..-............ ( -18.66)
>DroYak_CAF1 7614 90 + 1
AUGUUUAUGUUUGAAUGAAGCAUAUUAGAAAAGUGCAAUAUUUAUG-GAAAAAUACAGUGACUAAUAGAAACGAAUAUA--UCGCUUC--------------UAUAG-------------
.....(((((((.....))))))).......(((((..(((((...-...)))))..)).))).((((((.(((.....--))).)))--------------)))..------------- ( -12.60)
>consensus
AAGUUUAUGUUUGAAUACAACAUAUUAGAAAAGUACAAUAUUUGUG_GAAAAAUACAGUGACCCACUAAAACGAAAAUA__UUGCUUU____________UGUACAAAAACAU_GAAAUG
.....((((((.......)))))).........(((..(((((.......)))))..)))............................................................ ( -3.06 =  -2.94 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 6

Location 18,754,724 – 18,754,824
Length 100
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.54
Mean single sequence MFE -19.05
Consensus MFE -4.10
Energy contribution -4.54
Covariance contribution 0.44
Combinations/Pair 1.06
Mean z-score -2.06
Structure conservation index 0.22
SVM decision value 1.38
SVM RNA-class probability 0.948646
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18754724 100 - 27905053
CAUUUC-AUGUUUUUGUACA----------------CAA--CAUUUUCGAUUAAGUGGGUCACUGUAUUUUUC-CACAAAUAUUGUACUUUUCUAAUAUGUUGUAUUCAAACAUAAACUU
......-((((((..(((((----------------((.--(((((......)))))(((.((.((((((...-...)))))).))))).........)).)))))..))))))...... ( -14.70)
>DroSec_CAF1 13395 117 - 1
CAUUUC-AUGUUUUCGUACAUAUCGUGUAUGAAAAGCAA--UAUUUUCGUUUUAGUGGGUCACUGUAUUUUUCCCACAAAUAUUGUACUUUUCUAAUAUGUUGUAUUCAAACAUAAACUU
......-((((((..(((((...(((((..(((((((((--(((((........(((((.............)))))))))))))..))))))..))))).)))))..))))))...... ( -26.02)
>DroSim_CAF1 13510 117 - 1
CAUUUC-AUGUUUUCGUACACAUCGUGUAUGAAAAGCAA--UAUUUUCGUUUUAGUGGGUCACUGUAUUUUUCCCACAAAUAUUGUACUUUUCUAAUAUGUUGUAUUCAAACAUAAACUU
......-...(((((((((((...)))))))))))((((--(((((........(((((.............))))))))))))))..........((((((.......))))))..... ( -25.92)
>DroEre_CAF1 13400 102 - 1
UAUUUUGAUGUG-CUGCA--------------CAAACUGCGGAUUUUCGUUGCUAUGGGUCACUGUAUUUUCC-C--CAAUAUUGUACUUUGCCAAUAUGUUUUAUUCAAACAUAAACUU
......((....-(((((--------------.....)))))....))(((((...((((.((.(((((....-.--.))))).)))))).))...(((((((.....)))))))))).. ( -15.60)
>DroYak_CAF1 7614 90 - 1
-------------CUAUA--------------GAAGCGA--UAUAUUCGUUUCUAUUAGUCACUGUAUUUUUC-CAUAAAUAUUGCACUUUUCUAAUAUGCUUCAUUCAAACAUAAACAU
-------------..(((--------------(((((((--.....)))))))))).(((((..((((((...-...)))))))).)))............................... ( -13.00)
>consensus
CAUUUC_AUGUUUUUGUACA____________AAAGCAA__UAUUUUCGUUUCAGUGGGUCACUGUAUUUUUC_CACAAAUAUUGUACUUUUCUAAUAUGUUGUAUUCAAACAUAAACUU
.........................................................(((.((.((((((.......)))))).))))).......((((((.......))))))..... ( -4.10 =  -4.54 +   0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:51 2006