Locus 7120

Sequence ID 3R_DroMel_CAF1
Location 18,764,854 – 18,764,954
Length 100
Max. P 0.833511
window11519 window11520

overview

Window 9

Location 18,764,854 – 18,764,954
Length 100
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 81.37
Mean single sequence MFE -24.86
Consensus MFE -17.58
Energy contribution -17.34
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.58
Structure conservation index 0.71
SVM decision value 0.10
SVM RNA-class probability 0.583932
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18764854 100 + 27905053
AUGGUGCAAAUGGGGA-------AAAUGGGGAAAAUGGAGAAAAUUGGCAUGGGGCUUUGGUUUUUCUAAGCCGCAUUCCCGUUGUGAUUAAAUGCACGUAAUUAUA
...(((((((((((((-------...((.((....((((((((...(((.....)))....))))))))..)).)))))))))).........)))))......... ( -27.30)
>DroSec_CAF1 23249 92 + 1
AUGGCGCAAAUGGGGA-------AAAUGGGGAG--------AAAUUGGCAUGGGGCUUUGGUUUUUCUAAGCCGCAUUCCCGUUGUGAUUAAAUGCACGUAAUUAUA
....(((((.((((((-------..(((..((.--------...))..)))(.(((((.((....)).))))).).))))))))))).................... ( -23.00)
>DroSim_CAF1 23882 92 + 1
AUGGCGCAAAUGGGGA-------AAAUGGGGAA--------AAAUUGGCAUGGGGCUUUGGUUUUUCUAAGCCGCAUUCCCGUUGUGAUUAAAUGCACGUAAUUAUA
....(((((...((((-------(..(((((((--------((((((((.....)))..)))))))))...)))..))))).))))).................... ( -21.80)
>DroEre_CAF1 23453 82 + 1
AU-------------------------GGUGAAAAUGGGGAAAAUGGGCAUGGGGCUUUGGUUUUUCUAAGCCGCAUUCCCGUUGUGAUUAAAUGCACGUAAUUACA
..-------------------------...............((((((.(((.(((((.((....)).))))).))).))))))(((((((........))))))). ( -24.40)
>DroYak_CAF1 18107 107 + 1
AUGCUACAAAUGGUAAAAUGGUGAAAUGGUGAAAAUGAGGAAAAUGGGCAUGGGGCUUUGGUUUUUCUAAGCCGCAUUCCCGUUGUGAUUAAAUGCACGUAAUUACA
.(((((....))))).....((((....(((....(((....((((((.(((.(((((.((....)).))))).))).))))))....)))....)))....)))). ( -27.80)
>consensus
AUGGCGCAAAUGGGGA_______AAAUGGGGAAAAUG__GAAAAUUGGCAUGGGGCUUUGGUUUUUCUAAGCCGCAUUCCCGUUGUGAUUAAAUGCACGUAAUUAUA
..........................................(((.((.(((.(((((.((....)).))))).))).)).)))(((((((........))))))). (-17.58 = -17.34 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,764,854 – 18,764,954
Length 100
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 81.37
Mean single sequence MFE -17.05
Consensus MFE -12.14
Energy contribution -12.14
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.71
SVM decision value 0.72
SVM RNA-class probability 0.833511
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18764854 100 - 27905053
UAUAAUUACGUGCAUUUAAUCACAACGGGAAUGCGGCUUAGAAAAACCAAAGCCCCAUGCCAAUUUUCUCCAUUUUCCCCAUUU-------UCCCCAUUUGCACCAU
.........(((((............(((((((.(((((.(......).))))).))).................)))).....-------........)))))... ( -16.83)
>DroSec_CAF1 23249 92 - 1
UAUAAUUACGUGCAUUUAAUCACAACGGGAAUGCGGCUUAGAAAAACCAAAGCCCCAUGCCAAUUU--------CUCCCCAUUU-------UCCCCAUUUGCGCCAU
.........(((((............(((((((.(((((.(......).))))).)))........--------.)))).....-------........)))))... ( -17.11)
>DroSim_CAF1 23882 92 - 1
UAUAAUUACGUGCAUUUAAUCACAACGGGAAUGCGGCUUAGAAAAACCAAAGCCCCAUGCCAAUUU--------UUCCCCAUUU-------UCCCCAUUUGCGCCAU
.........(((((............(((((((.(((((.(......).))))).)))........--------.)))).....-------........)))))... ( -17.11)
>DroEre_CAF1 23453 82 - 1
UGUAAUUACGUGCAUUUAAUCACAACGGGAAUGCGGCUUAGAAAAACCAAAGCCCCAUGCCCAUUUUCCCCAUUUUCACC-------------------------AU
.........(((........)))...(((.(((.(((((.(......).))))).))).)))..................-------------------------.. ( -16.10)
>DroYak_CAF1 18107 107 - 1
UGUAAUUACGUGCAUUUAAUCACAACGGGAAUGCGGCUUAGAAAAACCAAAGCCCCAUGCCCAUUUUCCUCAUUUUCACCAUUUCACCAUUUUACCAUUUGUAGCAU
.........((((.............(((.(((.(((((.(......).))))).))).)))..............................(((.....))))))) ( -18.10)
>consensus
UAUAAUUACGUGCAUUUAAUCACAACGGGAAUGCGGCUUAGAAAAACCAAAGCCCCAUGCCAAUUUUC__CAUUUUCCCCAUUU_______UCCCCAUUUGCACCAU
.........(((........)))....((.(((.(((((.(......).))))).))).)).............................................. (-12.14 = -12.14 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:55 2006