Locus 10108

Sequence ID 3R_DroMel_CAF1
Location 27,088,749 – 27,088,851
Length 102
Max. P 0.813332
window16090 window16091

overview

Window 0

Location 27,088,749 – 27,088,851
Length 102
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.69
Mean single sequence MFE -22.83
Consensus MFE -16.63
Energy contribution -16.91
Covariance contribution 0.28
Combinations/Pair 1.26
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value 0.66
SVM RNA-class probability 0.813332
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27088749 102 + 27905053
AUUCCCCGUCUGCGUUUCAACAACUAUGAUCAGCCAUUGCAAACCCCCUUGGUGAUUACCAAUAAUGGGCACACAGGUGGG---AAGCUAUCAAAUAACAUAACA
....(((..(((.((...........((((((.(((.............)))))))))(((....)))..)).)))..)))---..................... ( -20.72)
>DroSec_CAF1 7661 102 + 1
AUUCCCCGCCUGCGUUUCAACAACUAUGAUCAGCCAUUGCAAACCCCCUUGGUGAUUACAAAUAAUGGGCACACAGGUGGGAGGAAGCUAUCAAAUAACA---CA
.(((((((((((.((((((.......((((((.(((.............))))))))).......)))).)).)))))))).)))...............---.. ( -26.86)
>DroSim_CAF1 7642 104 + 1
AUUCCCCGCCUGCGUUUCAACAACUAUGAUCAGCCAUUGCAAACCCCCUUGGUGAUUACCAAUAAUGGACACACAGGUGGGAGGAAGCUAUCAAAUAACAC-ACA
.(((((((((((.((((((.......((((((.(((.............))))))))).......)))).)).)))))))).)))................-... ( -27.26)
>DroEre_CAF1 7933 100 + 1
AUUCCGCGCCUGCGUUUCAACUACUAUGAUCAACCAUUGCAAACCCCCUUGGUGAUUAUCAAUAAUGGACACACAGGUGCG---AAGCUUUCAA-UAACUC-ACA
....((((((((.((((((......(((((((.(((.............))))))))))......)))).)).))))))))---..........-......-... ( -26.22)
>DroYak_CAF1 7710 100 + 1
AUACCGCGCCUGCGUUUCAACUACUACGAUCAAGCAUUGCAAACCCCCUUGGUGAUUACCAACAAUGGACACACAGGUGCG---AAGCUUUCAA-UUACUC-ACA
....((((((((.((.((........(......)(((((.........(((((....)))))))))))).)).))))))))---..........-......-... ( -22.20)
>DroAna_CAF1 7324 99 + 1
AUUCCCCGAUUGCGAUUCAAUUACUAUAACCAAACGCUUCGUACUCCACUGAUCAUCACAAAUAAUGGGCACACAGGUGAG---UAAUUUCUAA-ACGCU--AGG
.....((....(((....(((((((...(((..(((...))).......((..(((........)))..))....))).))---))))).....-.))).--.)) ( -13.70)
>consensus
AUUCCCCGCCUGCGUUUCAACAACUAUGAUCAACCAUUGCAAACCCCCUUGGUGAUUACCAAUAAUGGACACACAGGUGGG___AAGCUAUCAA_UAACAC_ACA
....((((((((.((((((.......(((((.((((.............))))))))).......)))).)).))))))))........................ (-16.63 = -16.91 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 27,088,749 – 27,088,851
Length 102
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 80.69
Mean single sequence MFE -29.22
Consensus MFE -19.81
Energy contribution -20.15
Covariance contribution 0.34
Combinations/Pair 1.28
Mean z-score -1.22
Structure conservation index 0.68
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27088749 102 - 27905053
UGUUAUGUUAUUUGAUAGCUU---CCCACCUGUGUGCCCAUUAUUGGUAAUCACCAAGGGGGUUUGCAAUGGCUGAUCAUAGUUGUUGAAACGCAGACGGGGAAU
.(((((........)))))((---(((..((((((((((....(((((....)))))..))))...(((..((((....))))..)))..))))))...))))). ( -34.10)
>DroSec_CAF1 7661 102 - 1
UG---UGUUAUUUGAUAGCUUCCUCCCACCUGUGUGCCCAUUAUUUGUAAUCACCAAGGGGGUUUGCAAUGGCUGAUCAUAGUUGUUGAAACGCAGGCGGGGAAU
..---.(((((...)))))....((((.(((((((((((....((((.......)))).))))...(((..((((....))))..)))..))))))).))))... ( -31.30)
>DroSim_CAF1 7642 104 - 1
UGU-GUGUUAUUUGAUAGCUUCCUCCCACCUGUGUGUCCAUUAUUGGUAAUCACCAAGGGGGUUUGCAAUGGCUGAUCAUAGUUGUUGAAACGCAGGCGGGGAAU
...-..(((((...)))))....((((.(((((((.(((....(((((....)))))..)))....(((..((((....))))..)))..))))))).))))... ( -32.30)
>DroEre_CAF1 7933 100 - 1
UGU-GAGUUA-UUGAAAGCUU---CGCACCUGUGUGUCCAUUAUUGAUAAUCACCAAGGGGGUUUGCAAUGGUUGAUCAUAGUAGUUGAAACGCAGGCGCGGAAU
...-......-........((---(((.(((((((.((.(((((((...(((((((..(.......)..))).))))..))))))).)).))))))).))))).. ( -29.10)
>DroYak_CAF1 7710 100 - 1
UGU-GAGUAA-UUGAAAGCUU---CGCACCUGUGUGUCCAUUGUUGGUAAUCACCAAGGGGGUUUGCAAUGCUUGAUCGUAGUAGUUGAAACGCAGGCGCGGUAU
...-((((..-......))))---(((.(((((((..((.((.(((((....))))).))))....(((((((.......)))).)))..))))))).))).... ( -26.20)
>DroAna_CAF1 7324 99 - 1
CCU--AGCGU-UUAGAAAUUA---CUCACCUGUGUGCCCAUUAUUUGUGAUGAUCAGUGGAGUACGAAGCGUUUGGUUAUAGUAAUUGAAUCGCAAUCGGGGAAU
...--.....-..........---.((.(((((((((((((((((......))).))))).)))))..(((((..((((...))))..)).)))...)))))).. ( -22.30)
>consensus
UGU_GAGUUA_UUGAAAGCUU___CCCACCUGUGUGCCCAUUAUUGGUAAUCACCAAGGGGGUUUGCAAUGGCUGAUCAUAGUAGUUGAAACGCAGGCGGGGAAU
........................(((.(((((((.(((....(((((....))))).))).....((((..(((....)))..))))..))))))).))).... (-19.81 = -20.15 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:03 2006