Locus 2594

Sequence ID 3L_DroMel_CAF1
Location 7,205,149 – 7,205,269
Length 120
Max. P 0.943629
window4053 window4054

overview

Window 3

Location 7,205,149 – 7,205,269
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.20
Mean single sequence MFE -31.57
Consensus MFE -26.30
Energy contribution -26.55
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.19
Structure conservation index 0.83
SVM decision value 1.34
SVM RNA-class probability 0.943629
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7205149 120 + 23771897
UGCCGCAGACAUAUUGUGUCUGCAAAACUUUGUUGACAACAAAGGAAAAAGGAAAACAGGAAGGCAAUGAGCAAACGCAAACAGAUGGGGAAAAGUGUCUCGAUUUUCAGUUACCGCCCC
((((((((((((...))))))))....((((((.....))))))..................))))....((....))........((((....(((.((.(.....))).)))..)))) ( -30.80)
>DroSec_CAF1 18481 118 + 1
UGCCGCAGACAUAUUGUGUCUGCAAAACUUUGUUGACAACAAAGGAAAAAGGAAAACAGCAAGGCAAUGAGCAAACGCAAACAGAUGGGGAAAAGUGUCUCGAUUUUCAGUUACCU--CC
((((((((((((...))))))))....((((((.....))))))..................))))..(((..(((......((((.((((......)))).))))...)))..))--). ( -29.90)
>DroEre_CAF1 18933 105 + 1
UGCCGCAGACAUAUUGUGUCUGCGAAACUUUGUUGACAACAAAGGGAAAAGGAAAACAGCAAGGCAAUGAGCA------CAGAGCUGGGGAAAAGUGUCUCGAUUUUCAGU---------
...(((((((((...)))))))))...((((((.....)))))).(((((......((((...((.....)).------....))))((((......))))..)))))...--------- ( -29.90)
>DroYak_CAF1 16087 114 + 1
UGCCGCAGACAUAUUGUGUCUGCGAAACUUUGUUGACAACAAAGCAAAAAGGAAAACAGCAGGGCAAUGAGCA------AACAGAUGGGGAAAAGUGUCUCGAUUUUCAGUUCUCGCCCC
((((((((((((...)))))))))...((((((.....))))))..............)))((((...((((.------...((((.((((......)))).))))...))))..)))). ( -35.70)
>consensus
UGCCGCAGACAUAUUGUGUCUGCAAAACUUUGUUGACAACAAAGGAAAAAGGAAAACAGCAAGGCAAUGAGCA______AACAGAUGGGGAAAAGUGUCUCGAUUUUCAGUUACCG__CC
((((((((((((...))))))))....((((((.....))))))..................))))................((((.((((......)))).)))).............. (-26.30 = -26.55 +   0.25)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 7,205,149 – 7,205,269
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.20
Mean single sequence MFE -28.88
Consensus MFE -20.67
Energy contribution -20.68
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.72
SVM decision value 0.24
SVM RNA-class probability 0.647913
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7205149 120 - 23771897
GGGGCGGUAACUGAAAAUCGAGACACUUUUCCCCAUCUGUUUGCGUUUGCUCAUUGCCUUCCUGUUUUCCUUUUUCCUUUGUUGUCAACAAAGUUUUGCAGACACAAUAUGUCUGCGGCA
((((.(((((.(((.((.(((((((............))))).)).))..)))))))).)))).....((......((((((.....))))))....(((((((.....))))))))).. ( -29.00)
>DroSec_CAF1 18481 118 - 1
GG--AGGUAACUGAAAAUCGAGACACUUUUCCCCAUCUGUUUGCGUUUGCUCAUUGCCUUGCUGUUUUCCUUUUUCCUUUGUUGUCAACAAAGUUUUGCAGACACAAUAUGUCUGCGGCA
.(--((((((.(((.((.(((((((............))))).)).))..))))))))))(((.............((((((.....))))))....(((((((.....)))))))))). ( -29.40)
>DroEre_CAF1 18933 105 - 1
---------ACUGAAAAUCGAGACACUUUUCCCCAGCUCUG------UGCUCAUUGCCUUGCUGUUUUCCUUUUCCCUUUGUUGUCAACAAAGUUUCGCAGACACAAUAUGUCUGCGGCA
---------..........(((.(((..............)------)))))..((((..................((((((.....))))))....(((((((.....))))))))))) ( -25.54)
>DroYak_CAF1 16087 114 - 1
GGGGCGAGAACUGAAAAUCGAGACACUUUUCCCCAUCUGUU------UGCUCAUUGCCCUGCUGUUUUCCUUUUUGCUUUGUUGUCAACAAAGUUUCGCAGACACAAUAUGUCUGCGGCA
(((((((((........))(((..((............)).------..))).)))))))((.............(((((((.....)))))))..((((((((.....)))))))))). ( -31.60)
>consensus
GG__CGGUAACUGAAAAUCGAGACACUUUUCCCCAUCUGUU______UGCUCAUUGCCUUGCUGUUUUCCUUUUUCCUUUGUUGUCAACAAAGUUUCGCAGACACAAUAUGUCUGCGGCA
...................(((.((......................)))))..((((..................((((((.....))))))....(((((((.....))))))))))) (-20.67 = -20.68 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:55 2006