Locus 4904

Sequence ID 2L_DroMel_CAF1
Location 14,035,253 – 14,035,422
Length 169
Max. P 0.993121
window7777 window7778

overview

Window 7

Location 14,035,253 – 14,035,350
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 94.95
Mean single sequence MFE -31.32
Consensus MFE -28.52
Energy contribution -28.56
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.91
SVM decision value 2.37
SVM RNA-class probability 0.993121
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14035253 97 + 22407834
AAGCGGCAGACAAGUUGGAGUGUGAGUUGCAUUCCACGCUUCCUUUGCAGAUGGCGAUGCAAAUUUGUUGACAGUCGUGUGCAAAGGGCGAAUUGAG
..((.......((((((((((((.....)))))))).))))((((((((.(((((....(((.....)))...))))).))))))))))........ ( -34.70)
>DroSec_CAF1 124232 91 + 1
AA------GACAAGUUGGAGAGUGAGCUGCAUUCCACGCUUCCUUUGCAGAUGGCGAUGCAAAUUUGUUGACAGUCGUGUGCAAAGGGCGAAUUGAG
..------..(((..(((((.((.....)).)))))(((..((((((((.(((((....(((.....)))...))))).)))))))))))..))).. ( -29.50)
>DroSim_CAF1 127418 97 + 1
AAGUGGCAGACAAGUUGGAGAGUGAGCUGCAUUCCACGCUUCCUUUGCAGAUGGCGAUGCAAAUUUGUUGACAGUCGUGUGCAAAGGGCGAAUUGAG
.....((....(((((((((.((.....)).))))).))))((((((((.(((((....(((.....)))...))))).))))))))))........ ( -29.90)
>DroEre_CAF1 125868 97 + 1
AAGCGGCAGACAAGUUGGAGAGUGAGCUGCAUUCCACGCUUCCUUUGCAGAUGGCGAUGCAAAUUCGUUGACAGUCGUGUGCAAAGGGCGAAUUGAG
..(((((..((..........))..)))))......(((..((((((((.(((((....(((.....)))...))))).)))))))))))....... ( -31.80)
>DroYak_CAF1 133701 97 + 1
AAGCGGCAGACAAGUUGGAGAGUGAGCUGCAUUCCACGCUUCCUUUGCAGAUGCUGAUGCAAAUUCGUUGACAGUCGUGUGCAAAGGGCGAAUUGAG
..(((((..((..........))..)))))......(((..((((((((.((((((..((......))...))).))).)))))))))))....... ( -30.70)
>consensus
AAGCGGCAGACAAGUUGGAGAGUGAGCUGCAUUCCACGCUUCCUUUGCAGAUGGCGAUGCAAAUUUGUUGACAGUCGUGUGCAAAGGGCGAAUUGAG
..........(((..(((((.((.....)).)))))(((..((((((((.(((((....(((.....)))...))))).)))))))))))..))).. (-28.52 = -28.56 +   0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,035,329 – 14,035,422
Length 93
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 77.62
Mean single sequence MFE -26.92
Consensus MFE -17.55
Energy contribution -19.22
Covariance contribution 1.67
Combinations/Pair 1.17
Mean z-score -1.34
Structure conservation index 0.65
SVM decision value 0.27
SVM RNA-class probability 0.662736
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14035329 93 + 22407834
GUGUGCAAAGGGCGAAUUGAGUGAUAUCUCAGCUUUCUCGGAGGCAACAGCCGUAAUAAAGCCGCCCU-UCCGCCCACUCGGCGCCACGCCUCC---
(((.((.(((((((...((((......))))(((((..(((.(....)..)))....)))))))))))-)..)).)))..((((...))))...--- ( -34.40)
>DroSec_CAF1 124302 96 + 1
GUGUGCAAAGGGCGAAUUGAGUGAUAUCUCAGCUUUCUCGGAGGCAACAGCCGUAAUAAAGCCGCCCU-UCCGCCCACUCCGCGCCACGCCUCCUUU
(((.((.(((((((...((((......))))(((((..(((.(....)..)))....)))))))))))-)..)).)))...(((...)))....... ( -30.70)
>DroSim_CAF1 127494 96 + 1
GUGUGCAAAGGGCGAAUUGAGUGAUAUCUCAGCUUUCUCGGAGGCAACAGCCGUAAUAAAGCCGCCCU-UCCGCCCACUCCGCGCCACGCCUCCUUU
(((.((.(((((((...((((......))))(((((..(((.(....)..)))....)))))))))))-)..)).)))...(((...)))....... ( -30.70)
>DroEre_CAF1 125944 93 + 1
GUGUGCAAAGGGCGAAUUGAGUGAUAUCUCAGCUUUCUCGGAGGCAACAGCCGUAAUAAAGCCGCCCA-C---UCCACUUCCCUGCACGCCCCCUUU
(((((((..(((((...((((......))))(((((..(((.(....)..)))....)))))))))).-.---..........)))))))....... ( -28.54)
>DroYak_CAF1 133777 70 + 1
GUGUGCAAAGGGCGAAUUGAGUGAUAUCUCAGCUUUCUCGGAGGCAACAGCCGUAAUAAAGCCGCCC--------CAC-------------------
.........(((((...((((......))))(((((..(((.(....)..)))....))))))))))--------...------------------- ( -21.60)
>DroAna_CAF1 122549 82 + 1
GUGUGCAAAAGGCGAACGACGUGAUAUCUUAGCUUAUUCGGCACCAACAACAGUAAUAAAGCAGUCGUUUCCGCCCCUUCCA---------------
..........((((((((((...........(((.....)))..........((......)).))))))..)))).......--------------- ( -15.60)
>consensus
GUGUGCAAAGGGCGAAUUGAGUGAUAUCUCAGCUUUCUCGGAGGCAACAGCCGUAAUAAAGCCGCCCU_UCCGCCCACUCCGCGCCACGCCUCC___
(((.((..((((((...((((......))))(((((......(((....))).....)))))))))))....)).)))................... (-17.55 = -19.22 +   1.67)

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 11:30:37 2006