Locus 8505

Sequence ID X_DroMel_CAF1
Location 21,071,178 – 21,071,394
Length 216
Max. P 0.645682
window14007 window14008

overview

Window 7

Location 21,071,178 – 21,071,286
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 88.12
Mean single sequence MFE -28.26
Consensus MFE -25.96
Energy contribution -26.29
Covariance contribution 0.34
Combinations/Pair 1.07
Mean z-score -1.43
Structure conservation index 0.92
SVM decision value 0.23
SVM RNA-class probability 0.645682
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21071178 108 + 22224390
CUCCGCACGACUUCCAAUUUUCAACUCGAAAACUCCAAUUUCGUGUGCAAUUUUCUUGGGUCUGCCG----GAGGAAAAUGCAGAAGGUAGCC--------GGGUGCCAUAUAAAAAAAA
....((((..((..(.((((((.((.(((((.......))))).))(((.(((((((.((....)).----))))))).))).)))))).)..--------))))))............. ( -26.60)
>DroEre_CAF1 41613 105 + 1
C--CGCACGACUUCCAAUUUUCAACUCGAAAACUCCAAUUUCGUGUGCAAUUUUCUUGGGUCUGCCG----GCGGAAAAUGCAGAAGGUAGCC--------GGUUGCCAUAUAAAA-ACA
.--(((((((.......(((((.....)))))........)))))))...........(((..((((----((.................)))--------))).)))........-... ( -24.59)
>DroYak_CAF1 47377 117 + 1
C--CGCACGACUUCCAAUUUUCAACUCGAAAACUCCAAUUUCGUGUGCAAUUUUCUUGGGUCUGCCAAGGGAAGGAAAAUGCAGAAGGUAGCCAUAUAGAAGGCUGCCAUAUAAAA-ACA
.--.(((....((((........((.(((((.......))))).))....((..(((((.....)))))..))))))..)))....(((((((........)))))))........-... ( -33.60)
>consensus
C__CGCACGACUUCCAAUUUUCAACUCGAAAACUCCAAUUUCGUGUGCAAUUUUCUUGGGUCUGCCG____GAGGAAAAUGCAGAAGGUAGCC________GGCUGCCAUAUAAAA_ACA
....((((((.......(((((.....)))))........))))))(((.(((((((.((....)).....))))))).)))....(((((((........)))))))............ (-25.96 = -26.29 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,071,286 – 21,071,394
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 81.27
Mean single sequence MFE -17.60
Consensus MFE -16.67
Energy contribution -16.57
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score 0.73
Structure conservation index 0.95
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21071286 108 + 22224390
CAUAGGAAAGGCUAAACGACUUGCCUGAUAACUCGCUAAGCCGCAAAACGUUCCGCAGUUCGUUUCAGUUGUUUUUAUCCCGUACCAUUGUCCUCUGUCCUCGCCAU------------C
.(((((((..(((((((((.((((..(((.....((......)).....)))..)))).)))))).)))..))))))).............................------------. ( -17.40)
>DroEre_CAF1 41718 119 + 1
CAUAGAAAAGGCUAAACGACUUGCCUGAUAACUCGCUAAGCCGCAAAACGUUCCGCAGUUCGUUUUAGUUGUUUUUAUCCCGUAGCAUU-UCCACUGUCCUCGCCAUGCUUUUCCCCCUU
.(((((((..(((((((((.((((..(((.....((......)).....)))..)))).))).))))))..))))))).....(((((.-...............))))).......... ( -19.39)
>DroYak_CAF1 47494 99 + 1
CAUAGAAAAGGCUAAACGACUUGCCUGAUAACUCGCUAAGCCGCAAAACGUUCCGCAGUUAGUUUCAGCUGUUUUUAUCCCGCACCAAU-UCCACUGCUU--------------------
.(((((((.((((((((((((.((..(((.....((......)).....)))..)))))).)))).)))).)))))))...(((.....-.....)))..-------------------- ( -16.00)
>consensus
CAUAGAAAAGGCUAAACGACUUGCCUGAUAACUCGCUAAGCCGCAAAACGUUCCGCAGUUCGUUUCAGUUGUUUUUAUCCCGUACCAUU_UCCACUGUCCUCGCCAU_____________
.(((((((..(((((((((.((((..(((.....((......)).....)))..)))).)))))).)))..))))))).......................................... (-16.67 = -16.57 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:09 2006