Locus 7698

Sequence ID 2L_DroMel_CAF1
Location 21,770,033 – 21,770,153
Length 120
Max. P 0.812160
window12365 window12366

overview

Window 5

Location 21,770,033 – 21,770,153
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.20
Mean single sequence MFE -40.98
Consensus MFE -30.17
Energy contribution -27.15
Covariance contribution -3.02
Combinations/Pair 1.37
Mean z-score -1.39
Structure conservation index 0.74
SVM decision value 0.55
SVM RNA-class probability 0.776679
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21770033 120 + 22407834
AAGUCGAGACAUUUCUAGGCUGCUGACACAGGCAGUUCGCCGUGGGUAUGGCGGCCAAGAAACAGUCUCUAUGGUCUGGAAUGGGCAAGAAAAGACUUAUUCCUCGCGGAAUGUCUUUCC
((((((((((.(((((.((((((((.(((.(((.....))))))....)))))))).)))))..)))))....((((.....)))).......)))))(((((....)))))........ ( -42.80)
>DroPse_CAF1 22821 118 + 1
AA--AGGGAUACUCGAGGGCUUGUGGCACAGGCAGUACUCUGCGGGUAUGUGGGCCAUCGAGCAGUCUCGCUGUUCGGGUAUUGGCAGGAACAGACUUAUCCCUCUUGGGAGAUCCUCUU
..--.(((((.(((((.((((..((..((..((((....))))..)).))..)))).)))))..))))).((((((..((....))..)))))).....((((....))))......... ( -43.70)
>DroSec_CAF1 12000 120 + 1
AAGUCGAGACAUUUCUAGGCUGCUGACACAGGCAGUUCGCCGUGGGUAUGGCGGCCAAGAAACAGUCUCUAUGGUCUGGAAUUGGCAAGAAAAGACUUAUUCCCCGCGGAAUGUCUUUGC
...(((((((.(((((.((((((((.(((.(((.....))))))....)))))))).)))))..)))))....(((.......)))..))((((((..(((((....))))))))))).. ( -41.60)
>DroSim_CAF1 4778 120 + 1
AAGUCGAGACAUUUCUAGGCUGCUGACACAGGCAGUUCGCCGUGGGUAUGGCGGCCAAGAAACAGUCUCUAUGGUCUGGAAUUGGCAAGAAAAGACUUAUUCCCCGCGGAAUGUCUUUGC
...(((((((.(((((.((((((((.(((.(((.....))))))....)))))))).)))))..)))))....(((.......)))..))((((((..(((((....))))))))))).. ( -41.60)
>DroEre_CAF1 14335 120 + 1
AAGUUGGAACAUUUGUAGGCUGCUGACACAGACAGUAAGCGGUGGGUAUGGCGGCCAAGAAACAGUCUCUAUGGUCCGGAAUAGGCAAGAAAAGGCUUAUUCCUCGCGGAAUGUCUUUGC
..((.(((.(((((....((((((.((.......)).)))))).......((((((((((.......))).))))).(((((((((........)))))))))..)).))))))))..)) ( -34.10)
>DroPer_CAF1 23623 118 + 1
AA--AGGGAUACUCGAGGGCUUGUGGCACAUGCAGUACUCUGCGGGUAUGUGGGCCAUCGAACAGUCUCGCUGUUCGGGUAUUGGCAGGAACAGACUUAUCCCUCUUGGGAGAUCCUCUU
..--((((((((((((.((((..((..((.(((((....))))).)).))..)))).))((((((.....)))))))))))))................((((....))))...)))... ( -42.10)
>consensus
AAGUCGAGACAUUUCUAGGCUGCUGACACAGGCAGUACGCCGUGGGUAUGGCGGCCAAGAAACAGUCUCUAUGGUCUGGAAUUGGCAAGAAAAGACUUAUUCCUCGCGGAAUGUCUUUGC
.....(((((.(((((.((((((((..((..((........))..)).)))))))).))))).(((((.....(((.......)))......))))).(((((....))))))))))... (-30.17 = -27.15 +  -3.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,770,033 – 21,770,153
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.20
Mean single sequence MFE -35.32
Consensus MFE -25.29
Energy contribution -24.47
Covariance contribution -0.83
Combinations/Pair 1.33
Mean z-score -1.52
Structure conservation index 0.72
SVM decision value 0.65
SVM RNA-class probability 0.812160
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21770033 120 - 22407834
GGAAAGACAUUCCGCGAGGAAUAAGUCUUUUCUUGCCCAUUCCAGACCAUAGAGACUGUUUCUUGGCCGCCAUACCCACGGCGAACUGCCUGUGUCAGCAGCCUAGAAAUGUCUCGACUU
(((((((((((((....)))))..))))))))...................(((((.((((((.(((.((...((.((.(((.....))))).))..)).))).)))))))))))..... ( -42.20)
>DroPse_CAF1 22821 118 - 1
AAGAGGAUCUCCCAAGAGGGAUAAGUCUGUUCCUGCCAAUACCCGAACAGCGAGACUGCUCGAUGGCCCACAUACCCGCAGAGUACUGCCUGUGCCACAAGCCCUCGAGUAUCCCU--UU
..(.((....))).((((((((..(.((((((............)))))))......((((((.(((.....(((..((((....))))..)))......))).))))))))))))--)) ( -35.10)
>DroSec_CAF1 12000 120 - 1
GCAAAGACAUUCCGCGGGGAAUAAGUCUUUUCUUGCCAAUUCCAGACCAUAGAGACUGUUUCUUGGCCGCCAUACCCACGGCGAACUGCCUGUGUCAGCAGCCUAGAAAUGUCUCGACUU
(((((((((((((....)))))..))))....))))...............(((((.((((((.(((.((...((.((.(((.....))))).))..)).))).)))))))))))..... ( -35.90)
>DroSim_CAF1 4778 120 - 1
GCAAAGACAUUCCGCGGGGAAUAAGUCUUUUCUUGCCAAUUCCAGACCAUAGAGACUGUUUCUUGGCCGCCAUACCCACGGCGAACUGCCUGUGUCAGCAGCCUAGAAAUGUCUCGACUU
(((((((((((((....)))))..))))....))))...............(((((.((((((.(((.((...((.((.(((.....))))).))..)).))).)))))))))))..... ( -35.90)
>DroEre_CAF1 14335 120 - 1
GCAAAGACAUUCCGCGAGGAAUAAGCCUUUUCUUGCCUAUUCCGGACCAUAGAGACUGUUUCUUGGCCGCCAUACCCACCGCUUACUGUCUGUGUCAGCAGCCUACAAAUGUUCCAACUU
(((.(((((....(((.((((((.((........)).))))))((.(((.(((((...))))))))))...........)))....))))).)))......................... ( -26.90)
>DroPer_CAF1 23623 118 - 1
AAGAGGAUCUCCCAAGAGGGAUAAGUCUGUUCCUGCCAAUACCCGAACAGCGAGACUGUUCGAUGGCCCACAUACCCGCAGAGUACUGCAUGUGCCACAAGCCCUCGAGUAUCCCU--UU
(((.(((((((....(((((..............((((.....(((((((.....))))))).)))).(((((....((((....))))))))).......)))))))).))))))--). ( -35.90)
>consensus
GCAAAGACAUUCCGCGAGGAAUAAGUCUUUUCUUGCCAAUUCCAGACCAUAGAGACUGUUUCUUGGCCGCCAUACCCACGGCGAACUGCCUGUGUCAGCAGCCUACAAAUGUCCCGACUU
....(((((((((....))))).(((((((.....(........).....)))))))((((((.(((.((......(((((........)))))...)).))).))))))))))...... (-25.29 = -24.47 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:03 2006