Locus 2789

Sequence ID 3L_DroMel_CAF1
Location 7,913,818 – 7,913,908
Length 90
Max. P 0.976080
window4353 window4354

overview

Window 3

Location 7,913,818 – 7,913,908
Length 90
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 88.72
Mean single sequence MFE -32.11
Consensus MFE -26.09
Energy contribution -25.80
Covariance contribution -0.29
Combinations/Pair 1.13
Mean z-score -2.24
Structure conservation index 0.81
SVM decision value 1.76
SVM RNA-class probability 0.976080
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7913818 90 + 23771897
UAAACGUGGCUUAUUUGCAUAAAUCAAGUGGUGAGUUAUGUUCACCUGGGCA------------------GUGCCAAUGGAGGCUUUGAAGGUGUUGCAGGUGAAGGG
...((((((((((.(..(.........)..)))))))))))((((((..(((------------------(..((...............))..)))))))))).... ( -26.66)
>DroSec_CAF1 13126 104 + 1
UAAACGUGGCUUAUUUGCAUAAAUCAAGUGGUGAGUUAUGUUCACCUGUGCAGCGCACUGAGGUG----AGUGCCUAUGGAGGCUUUGAAGGUGUUGCAGGUGAAGGG
...((((((((((.(..(.........)..)))))))))))((((((..(((((((.((....((----((.((((....)))))))).))))))))))))))).... ( -34.50)
>DroSim_CAF1 13509 104 + 1
UAAACGUGGCUUAUUUGCAUAAAUCAAGUGGUGAGUUAUGUUCACCUGGCCAGCGCGCUGAGGUG----AGUGGCUAUGGAGGCUUUGAAGGUGUUGCAGGUGAAGGG
...((((((((((.(..(.........)..)))))))))))(((((((((((.(.(((....)))----.)))))....((.(((.....))).)).))))))).... ( -32.00)
>DroEre_CAF1 13343 102 + 1
UAAACGUGGCUUAUUUGCAUAAAUCAAGUGGUGAGUUAUGUUCACCUGGGCAGCGCGCUGAGGUG----AGUGGUAAUGGAGGCC-U-AAGGUGUUGCAGGUGAAGGG
...((((((((((.(..(.........)..)))))))))))((((((..(((((((.((.((((.----.((....))....)))-)-.))))))))))))))).... ( -33.40)
>DroYak_CAF1 13314 107 + 1
UAAACGUGGCUUAUUUGCAUAAAUCAAGUGGUGAGUUAUGUUCACCUGGCCAGCGCGCUGAGGUGAGUGAGUGGUAAUGGAGGCCUU-AAGGUGUUGCAGGUGAAGGG
...((((((((((.(..(.........)..)))))))))))(((((((((((.(.((((......)))).)))))....((.(((..-..))).)).))))))).... ( -34.00)
>consensus
UAAACGUGGCUUAUUUGCAUAAAUCAAGUGGUGAGUUAUGUUCACCUGGGCAGCGCGCUGAGGUG____AGUGGCAAUGGAGGCUUUGAAGGUGUUGCAGGUGAAGGG
...((((((((((.(..(.........)..)))))))))))(((((((((((...(((....)))......))))....((.(((.....))).)).))))))).... (-26.09 = -25.80 +  -0.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 7,913,818 – 7,913,908
Length 90
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 88.72
Mean single sequence MFE -18.72
Consensus MFE -12.63
Energy contribution -12.84
Covariance contribution 0.21
Combinations/Pair 1.05
Mean z-score -2.34
Structure conservation index 0.67
SVM decision value 0.24
SVM RNA-class probability 0.647039
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7913818 90 - 23771897
CCCUUCACCUGCAACACCUUCAAAGCCUCCAUUGGCAC------------------UGCCCAGGUGAACAUAACUCACCACUUGAUUUAUGCAAAUAAGCCACGUUUA
...((((((((.........((..(((......)))..------------------))..))))))))(((((.(((.....))).)))))................. ( -16.80)
>DroSec_CAF1 13126 104 - 1
CCCUUCACCUGCAACACCUUCAAAGCCUCCAUAGGCACU----CACCUCAGUGCGCUGCACAGGUGAACAUAACUCACCACUUGAUUUAUGCAAAUAAGCCACGUUUA
...(((((((..............((((....))))...----.......((((...)))))))))))(((((.(((.....))).)))))................. ( -21.70)
>DroSim_CAF1 13509 104 - 1
CCCUUCACCUGCAACACCUUCAAAGCCUCCAUAGCCACU----CACCUCAGCGCGCUGGCCAGGUGAACAUAACUCACCACUUGAUUUAUGCAAAUAAGCCACGUUUA
...((((((((.............(((.....((((.((----......)).).))))))))))))))(((((.(((.....))).)))))................. ( -18.11)
>DroEre_CAF1 13343 102 - 1
CCCUUCACCUGCAACACCUU-A-GGCCUCCAUUACCACU----CACCUCAGCGCGCUGCCCAGGUGAACAUAACUCACCACUUGAUUUAUGCAAAUAAGCCACGUUUA
....................-.-(((............(----((((((((....)))...)))))).(((((.(((.....))).))))).......)))....... ( -18.50)
>DroYak_CAF1 13314 107 - 1
CCCUUCACCUGCAACACCUU-AAGGCCUCCAUUACCACUCACUCACCUCAGCGCGCUGGCCAGGUGAACAUAACUCACCACUUGAUUUAUGCAAAUAAGCCACGUUUA
....................-..(((................(((((((((....)))...)))))).(((((.(((.....))).))))).......)))....... ( -18.50)
>consensus
CCCUUCACCUGCAACACCUUCAAAGCCUCCAUUGCCACU____CACCUCAGCGCGCUGCCCAGGUGAACAUAACUCACCACUUGAUUUAUGCAAAUAAGCCACGUUUA
...((((((((......((....)).......................(((....)))..))))))))(((((.(((.....))).)))))................. (-12.63 = -12.84 +   0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:42 2006