Locus 2569

Sequence ID 2R_DroMel_CAF1
Location 9,083,165 – 9,083,285
Length 120
Max. P 0.999386
window4234 window4235

overview

Window 4

Location 9,083,165 – 9,083,285
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.66
Mean single sequence MFE -34.94
Consensus MFE -26.22
Energy contribution -26.70
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -2.72
Structure conservation index 0.75
SVM decision value 0.85
SVM RNA-class probability 0.866557
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9083165 120 + 20766785
UUAGUAUUCCAUAAAUAGCCCGCAUUCUCACGCCUUCGUGGAAUCGGAGAACAUGCGGGCCAAACGAACCCAAAGGAAUCCAUAAAAAGAUCAAAGAUAUCCUAAGGUUUCGCGUAUCAU
.................((((((((((((...((.....)).....))))..))))))))....((((.((..(((((((...............))).))))..)).))))........ ( -30.96)
>DroSec_CAF1 47961 120 + 1
UUAGUAUUCCAUAUAUAGCCCGCAUUCUCACGCCUUCGGGGAAUCGGAGAACAUGCGGGCCAAACGAACCCAAAGGAAUCCAUAAAAAGAUCAAAGAUAUCCUAAGGUUUCGCGUAUCAU
.................((((((((((((.((((....))....))))))..))))))))....((((.((..(((((((...............))).))))..)).))))........ ( -33.16)
>DroSim_CAF1 50217 120 + 1
UUGGUAUUCCAUAUGUAGCCCGCAUUCUCACGCCUUCGGGGAAUCGGAGAACAUGCGGGCCAAACGAACCCAAAGGAAUCCAUAAAAAGAUCAAAGAUAUCCUAAGGUUUCGCGUAUCAU
.((((((..........((((((((((((.((((....))....))))))..))))))))....((((.((..(((((((...............))).))))..)).)))).)))))). ( -36.46)
>DroEre_CAF1 55391 119 + 1
UUAGUAUUCCAUAUGUAGCCCGCAUUCUCACGCCUUCGGGCAAUCG-AGAACAUGCGGGCCAAACGAACCCAAAGGAAUCCAUAAAAAGAUCAAAGAUAUCCUAAGGUUUCGCGUAUCAU
..........((((((.((((((((((((..(((....)))....)-)))..)))))))).....(((.((..(((((((...............))).))))..)).)))))))))... ( -37.46)
>DroYak_CAF1 53272 119 + 1
UUAGUAUUCUACAUGUAGCCCGCAUUCUCACGCCCUCGGGGCAUCG-GGAACAUGCGGGCCAAGUGAACCGAAAGGAAUCCAUAAAAAGAUCAAAGAUAUCCUAAGGUUUCGCGUAUCGU
.........(((.....((((((((((((..((((...))))...)-)))..))))))))...(((((((...(((((((...............))).))))..)).)))))))).... ( -36.66)
>consensus
UUAGUAUUCCAUAUGUAGCCCGCAUUCUCACGCCUUCGGGGAAUCGGAGAACAUGCGGGCCAAACGAACCCAAAGGAAUCCAUAAAAAGAUCAAAGAUAUCCUAAGGUUUCGCGUAUCAU
.................((((((((((((...((.....)).....))))..))))))))....((((.((..(((((((...............))).))))..)).))))........ (-26.22 = -26.70 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 9,083,165 – 9,083,285
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.66
Mean single sequence MFE -41.22
Consensus MFE -35.26
Energy contribution -34.86
Covariance contribution -0.40
Combinations/Pair 1.11
Mean z-score -3.04
Structure conservation index 0.86
SVM decision value 3.56
SVM RNA-class probability 0.999386
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9083165 120 - 20766785
AUGAUACGCGAAACCUUAGGAUAUCUUUGAUCUUUUUAUGGAUUCCUUUGGGUUCGUUUGGCCCGCAUGUUCUCCGAUUCCACGAAGGCGUGAGAAUGCGGGCUAUUUAUGGAAUACUAA
.......(((((.((..((((.((((.(((.....))).))))))))..)).))))).((((((((((..((((((.(((...)))..)).))))))))))))))............... ( -40.40)
>DroSec_CAF1 47961 120 - 1
AUGAUACGCGAAACCUUAGGAUAUCUUUGAUCUUUUUAUGGAUUCCUUUGGGUUCGUUUGGCCCGCAUGUUCUCCGAUUCCCCGAAGGCGUGAGAAUGCGGGCUAUAUAUGGAAUACUAA
.......(((((.((..((((.((((.(((.....))).))))))))..)).))))).((((((((((..((((((.(((...)))..)).))))))))))))))............... ( -40.40)
>DroSim_CAF1 50217 120 - 1
AUGAUACGCGAAACCUUAGGAUAUCUUUGAUCUUUUUAUGGAUUCCUUUGGGUUCGUUUGGCCCGCAUGUUCUCCGAUUCCCCGAAGGCGUGAGAAUGCGGGCUACAUAUGGAAUACCAA
(((....(((((.((..((((.((((.(((.....))).))))))))..)).))))).((((((((((..((((((.(((...)))..)).))))))))))))))))).(((....))). ( -42.20)
>DroEre_CAF1 55391 119 - 1
AUGAUACGCGAAACCUUAGGAUAUCUUUGAUCUUUUUAUGGAUUCCUUUGGGUUCGUUUGGCCCGCAUGUUCU-CGAUUGCCCGAAGGCGUGAGAAUGCGGGCUACAUAUGGAAUACUAA
(((....(((((.((..((((.((((.(((.....))).))))))))..)).))))).((((((((((..(((-((...(((....))).))))))))))))))))))............ ( -43.60)
>DroYak_CAF1 53272 119 - 1
ACGAUACGCGAAACCUUAGGAUAUCUUUGAUCUUUUUAUGGAUUCCUUUCGGUUCACUUGGCCCGCAUGUUCC-CGAUGCCCCGAGGGCGUGAGAAUGCGGGCUACAUGUAGAAUACUAA
....((((.(((.((..((((.((((.(((.....))).))))))))...)))))...((((((((((.(((.-..((((((...))))))))).))))))))))..))))......... ( -39.50)
>consensus
AUGAUACGCGAAACCUUAGGAUAUCUUUGAUCUUUUUAUGGAUUCCUUUGGGUUCGUUUGGCCCGCAUGUUCUCCGAUUCCCCGAAGGCGUGAGAAUGCGGGCUACAUAUGGAAUACUAA
.......(((((.((..((((.((((.(((.....))).))))))))..)).))))).((((((((((..(((.((......)).)))(....).))))))))))....(((....))). (-35.26 = -34.86 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:23 2006